| 2403 | | > color #3 &~ #3/L50:95-113, 1233-1264, 1288-1294, 1463-1470, 1642-1647 |
| 2404 | | > #3/LX0/LJJ/LA0/LG0 white surfaces |
| 2405 | | |
| 2406 | | > color #3/LX0 #7C02A7 |
| 2407 | | |
| 2408 | | > color #3/LJJ #E56B5C |
| 2409 | | |
| 2410 | | > color #3/LA0 #7C02A7 |
| 2411 | | |
| 2412 | | > color #3/LG0 #A82296 |
| 2413 | | |
| 2414 | | > color #3/L50:95-113 #008080 |
| 2415 | | |
| 2416 | | > color #3/L50:1233-1264 #00FFFF |
| 2417 | | |
| 2418 | | > color #3/L50:1288-1294, 1463-1470 #4169E1 |
| 2419 | | |
| 2420 | | > color #3/L50:1468-1473 #00BFFF |
| 2421 | | |
| 2422 | | > color #3/L50:1642-1647 #7B68EE |
| 2423 | | |
| 2424 | | > surface #3 &~ #3/LX0/LJJ/LA0/LG0 resolution 8 |
| 2425 | | |
| 2426 | | 70 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 2427 | | |
| 2428 | | > show #4 &~ #4/X/j/A/G surfaces |
| 2429 | | |
| 2430 | | > show #4/X/j/A/G cartoons |
| 2431 | | |
| 2432 | | > color #4/X #7C02A7 |
| 2433 | | |
| 2434 | | > color #4/j #EFF821 |
| 2435 | | |
| 2436 | | > color #4/A #E56B5C |
| 2437 | | |
| 2438 | | > color #4/G #A82296 |
| 2439 | | |
| 2440 | | > color #4/8:108-139 #008080 |
| 2441 | | |
| 2442 | | > color #4/5:3-10/8:146-158 #191970 |
| 2443 | | |
| 2444 | | > color #4/5:1537-1584 #00FFFF |
| 2445 | | |
| 2446 | | > color #4/5:2514-2595 #00BFFF |
| 2447 | | |
| 2448 | | > color #4/5:1615-1626, 1819-1829 #4169E1 |
| 2449 | | |
| 2450 | | > color #4/5:2158-2160 #7B68EE |
| 2451 | | |
| 2452 | | > color #4 &~ #4/8:108-139,146-158 #4/5:3-10,1537-1584,2514-2595,1615-1626, |
| 2453 | | > 1819-1829, 2158-2160 #4/X/j/A/G white surfaces |
| 2454 | | |
| 2455 | | > surface #4 &~ #4/X/j/A/G resolution 8 |
| 2456 | | |
| 2457 | | 45 Gaussian surfaces, threshold level 0.070 - 0.105 |
| 2458 | | |
| 2459 | | > lighting shadows true intensity 0.5 |
| 2460 | | |
| 2461 | | > lighting shadows false |
| 2462 | | |
| 2463 | | > cd /Users/ljs/Desktop/Figures/Figure1/1a |
| 2464 | | |
| 2465 | | Current working directory is: /Users/ljs/Desktop/Figures/Figure1/1a |
| 2466 | | |
| 2467 | | > view matrix camera |
| 2468 | | > -0.21148,0.78962,0.57599,497.47,-0.64221,-0.55651,0.52711,462.22,0.73676,-0.25844,0.6248,509.75 |
| 2469 | | |
| 2470 | | > hide #1 #2 #3 #4 target m |
| 2471 | | |
| 2472 | | > show #4 target m |
| 2473 | | |
| 2474 | | > save F1_Sace_2.png width 1000 height 1000 |
| 2475 | | |
| 2476 | | > hide #4 target m |
| 2477 | | |
| 2478 | | > show #3 target m |
| 2479 | | |
| 2480 | | > save F1_Palo_2.png width 1000 height 1000 |
| 2481 | | |
| 2482 | | > hide #3 target m |
| 2483 | | |
| 2484 | | > show #2 target m |
| 2485 | | |
| 2486 | | > save F1_Vane_2.png width 1000 height 1000 |
| 2487 | | |
| 2488 | | > hide #2 target m |
| 2489 | | |
| 2490 | | > show #1 target m |
| 2491 | | |
| 2492 | | > save F1_Encu_2.png width 1000 height 1000 |
| 2493 | | |
| 2494 | | > hide #1 target m |
| 2495 | | |
| 2496 | | > close session |
| 2497 | | |
| 2498 | | > cd /Users/ljs/Desktop/Figures/Structures |
| 2499 | | |
| 2500 | | Current working directory is: /Users/ljs/Desktop/Figures/Structures |
| 2501 | | |
| 2502 | | > open Rib_Encu.cif |
| 2503 | | |
| 2504 | | Rib_Encu.cif title: |
| 2505 | | Cryo-EM structure of the ribosome from Encephalitozoon cuniculi [more info...] |
| 2506 | | |
| 2507 | | Chain information for Rib_Encu.cif #1 |
| 2508 | | --- |
| 2509 | | Chain | Description | UniProt |
| 2510 | | 1 | 5.8S-23S ribosomal RNA | |
| 2511 | | 2 | 5S ribosomal RNA | |
| 2512 | | 3 | 18S ribosomal RNA | |
| 2513 | | C0 | 40S ribosomal protein S10 | Q8SS17_ENCCU |
| 2514 | | C1 | 40S ribosomal protein S11 | Q8SS53_ENCCU |
| 2515 | | C2 | 40S ribosomal protein S12 | Q8SSK9_ENCCU |
| 2516 | | C3 | 40S ribosomal protein S13 | RS13_ENCCU |
| 2517 | | C4 | 40S ribosomal protein S14 | RS14_ENCCU |
| 2518 | | C5 | ribosomal protein S15 | Q8SRE7_ENCCU |
| 2519 | | C6 | 40S ribosomal protein S16 | Q8SSC2_ENCCU |
| 2520 | | C7 | 40S ribosomal protein S17 | RS17_ENCCU |
| 2521 | | C8 | 40S ribosomal protein S18 | RS18_ENCCU |
| 2522 | | C9 | 40S ribosomal protein S19 | RS19_ENCCU |
| 2523 | | D0 | 40S ribosomal protein S20 | Q8SQX6_ENCCU |
| 2524 | | D1 | ECU11_0225 protein | I7L8M6_ENCCU |
| 2525 | | D2 | 40S RIBOSOMAL PROTEIN S15A (S22 in yeast) | Q8SQL9_ENCCU |
| 2526 | | D3 | 40S ribosomal protein S23 | RS23_ENCCU |
| 2527 | | D4 | 40S ribosomal protein S24 | Q8SR06_ENCCU |
| 2528 | | D5 | 40S ribosomal protein S25 | RS25_ENCCU |
| 2529 | | D6 | 40S ribosomal protein S26 | RS26_ENCCU |
| 2530 | | D7 | 40S ribosomal protein S27 | Q8SS34_ENCCU |
| 2531 | | D8 | 40S ribosomal protein S28 | Q8SQM2_ENCCU |
| 2532 | | D9 | 40S ribosomal protein S29 | |
| 2533 | | E1 | Similarity to monoubiquitin/carboxy-extension protein fusion | |
| 2534 | | Q8SWB3_ENCCU |
| 2535 | | L1 | 60S ribosomal protein L1 | RL1_ENCCU |
| 2536 | | L2 | 60S ribosomal protein L8 | RL8_ENCCU |
| 2537 | | L3 | 60S ribosomal protein L3 | RL3_ENCCU |
| 2538 | | L4 | 60S ribosomal protein L4 | Q8SRC2_ENCCU |
| 2539 | | L5 | 60S ribosomal protein L5 | Q8SRQ3_ENCCU |
| 2540 | | L6 | 60S ribosomal protein L6 | Q8SR91_ENCCU |
| 2541 | | L7 | 60S ribosomal protein L7 | RL7_ENCCU |
| 2542 | | L8 | 60S ribosomal protein L7a | RL7A_ENCCU |
| 2543 | | L9 | 60S ribosomal protein L9 | Q8SSF7_ENCCU |
| 2544 | | M0 | 60S ribosomal protein L10 | RL10_ENCCU |
| 2545 | | M1 | 60S ribosomal protein L11 | RL11_ENCCU |
| 2546 | | M3 | 60S ribosomal protein L13 | Q8SSC1_ENCCU |
| 2547 | | M4 | ECU06_1215 protein | I7L8J2_ENCCU |
| 2548 | | M5 | Ribosomal protein L15 | Q8SQU2_ENCCU |
| 2549 | | M6 | 60S ribosomal protein L13A (L16) | Q8SS16_ENCCU |
| 2550 | | M7 | 60S ribosomal protein L17 | Q8SRH7_ENCCU |
| 2551 | | M8 | 60S ribosomal protein L18 | Q8SS76_ENCCU |
| 2552 | | M9 | 60S ribosomal protein L19 | Q8SRP5_ENCCU |
| 2553 | | MD | Uncharacterized protein ECU01_0250 | Y125_ENCCU |
| 2554 | | MS | ECU06_1135 protein | I7IV41_ENCCU |
| 2555 | | N0 | 60S ribosomal protein L20 | Q8SRD7_ENCCU |
| 2556 | | N1 | 60S ribosomal protein L21 | RL21_ENCCU |
| 2557 | | N2 | 60S ribosomal protein L22 | RL22_ENCCU |
| 2558 | | N3 | 60S ribosomal protein L23 | RL23_ENCCU |
| 2559 | | N4 | Similarity to 60S RIBOSOMAL PROTEIN L24 | Q8SUZ9_ENCCU |
| 2560 | | N5 | 60S ribosomal protein L23A | Q8SR87_ENCCU |
| 2561 | | N6 | 60S ribosomal protein L26 | Q8SRE6_ENCCU |
| 2562 | | N7 | 60S ribosomal protein L27 | Q8SS64_ENCCU |
| 2563 | | N8 | 60S ribosomal protein L27a | RL27A_ENCCU |
| 2564 | | N9 | 60S ribosomal protein L29 | I7JTZ6_ENCCU |
| 2565 | | O0 | 60S ribosomal protein L30 | Q8SRU1_ENCCU |
| 2566 | | O1 | 60S ribosomal protein L31 | RL31_ENCCU |
| 2567 | | O2 | 60S ribosomal protein L32 | RL32_ENCCU |
| 2568 | | O3 | 60S ribosomal protein L35A (L33) | Q8SSF3_ENCCU |
| 2569 | | O4 | 60S ribosomal protein L34 | RL34_ENCCU |
| 2570 | | O5 | 60S ribosomal protein L35-1 | RL351_ENCCU |
| 2571 | | O6 | 60S ribosomal protein L36 | RL36_ENCCU |
| 2572 | | O7 | 60S ribosomal protein L37 | RL37_ENCCU |
| 2573 | | O9 | 60S ribosomal protein L39 | RL39_ENCCU |
| 2574 | | P0 | ubiquitin/ L40 ribosomal protein fusion | Q8SRH8_ENCCU |
| 2575 | | P2 | 60S ribosomal protein L44 | RL44_ENCCU |
| 2576 | | P3 | 60S ribosomal protein L37A (L43) | Q8SRJ2_ENCCU |
| 2577 | | RA | Guanine nucleotide binding protein β subunit | M1K775_ENCCN |
| 2578 | | S0 | 40S ribosomal protein S0 | RSSA_ENCCU |
| 2579 | | S1 | 40S ribosomal protein S1 | RS3A_ENCCU |
| 2580 | | S2 | 40S ribosomal protein S2 | Q8SRG6_ENCCU |
| 2581 | | S3 | 40S ribosomal protein S3 | RS3_ENCCU |
| 2582 | | S4 | 40S ribosomal protein S4 | RS4_ENCCU |
| 2583 | | S5 | 40S ribosomal protein S5 | RS5_ENCCU |
| 2584 | | S6 | 40S ribosomal protein S6 | RS6_ENCCU |
| 2585 | | S7 | 40S ribosomal protein S7 | RS7_ENCCU |
| 2586 | | S8 | 40S ribosomal protein S8 | Q8SWC9_ENCCU |
| 2587 | | S9 | 40S ribosomal protein S9 | RS9_ENCCU |
| 2588 | | |
| 2589 | | Non-standard residues in Rib_Encu.cif #1 |
| 2590 | | --- |
| 2591 | | AMP — adenosine monophosphate |
| 2592 | | SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34)) |
| 2593 | | ZN — zinc ion |
| 2594 | | |
| 2595 | | |
| 2596 | | > open Rib_Vnec.cif |
| 2597 | | |
| 2598 | | Rib_Vnec.cif title: |
| 2599 | | Evolutionary compaction and adaptation visualized by the structure of the |
| 2600 | | dormant microsporidian ribosome [more info...] |
| 2601 | | |
| 2602 | | Chain information for Rib_Vnec.cif #2 |
| 2603 | | --- |
| 2604 | | Chain | Description |
| 2605 | | L50 | 23S rRNA |
| 2606 | | L70 | 5S rRNA |
| 2607 | | LA0 | uL2 |
| 2608 | | LAA | uL15 |
| 2609 | | LB0 | uL3 |
| 2610 | | LBB | eL29 |
| 2611 | | LC0 | uL4 |
| 2612 | | LCC | eL30 |
| 2613 | | LD0 | uL18 |
| 2614 | | LDD | eL31 |
| 2615 | | LE0 | eL6 |
| 2616 | | LEE | eL32 |
| 2617 | | LF0 | uL30 |
| 2618 | | LFF | eL33 |
| 2619 | | LG0 | eL8 |
| 2620 | | LGG | eL34 |
| 2621 | | LH0 | uL6 |
| 2622 | | LHH | uL29 |
| 2623 | | LI0 | uL16 |
| 2624 | | LII | eL36 |
| 2625 | | LJ0 | uL5 |
| 2626 | | LJJ | eL37 |
| 2627 | | LL0 | eL13 |
| 2628 | | LLL | eL39 |
| 2629 | | LM0 | eL14 |
| 2630 | | LMM | eL40 |
| 2631 | | LN0 | eL15 |
| 2632 | | LNN | MDF2 |
| 2633 | | LO0 | uL13 |
| 2634 | | LOO | eL42 |
| 2635 | | LP0 | uL22 |
| 2636 | | LPP | eL43 |
| 2637 | | LQ0 | eL18 |
| 2638 | | LR0 | eL19 |
| 2639 | | LS0 | eL20 |
| 2640 | | LT0 | eL21 |
| 2641 | | LU0 | eL22 |
| 2642 | | LV0 | uL14 |
| 2643 | | LW0 | eL24 |
| 2644 | | LX0 | uL23 |
| 2645 | | LXX | msL1 |
| 2646 | | LY0 | uL24 |
| 2647 | | LZ0 | eL27 |
| 2648 | | S60 | 16S rRNA |
| 2649 | | SA0 | uS2 |
| 2650 | | SAA | eS26 |
| 2651 | | SB0 | eS1 |
| 2652 | | SBB | eS27 |
| 2653 | | SC0 | uS5 |
| 2654 | | SCC | eS28 |
| 2655 | | SD0 | uS3 |
| 2656 | | SDD | uS14 |
| 2657 | | SE0 | eS4 |
| 2658 | | SEE | eS30 |
| 2659 | | SF0 | uS7 |
| 2660 | | SFF | eS31 |
| 2661 | | SG0 | eS6 |
| 2662 | | SGG | RACK1 |
| 2663 | | SH0 | eS7 |
| 2664 | | SI0 | eS8 |
| 2665 | | SJ0 | uS4 |
| 2666 | | SK0 | eS10 |
| 2667 | | SL0 | uS17 |
| 2668 | | SM0 | eS12 |
| 2669 | | SN0 | uS15 |
| 2670 | | SNN | MDF1 |
| 2671 | | SO0 | uS11 |
| 2672 | | SP0 | uS19 |
| 2673 | | SQ0 | uS9 |
| 2674 | | SR0 | eS17 |
| 2675 | | SS0 | uS13 |
| 2676 | | ST0 | eS19 |
| 2677 | | SU0 | uS10 |
| 2678 | | SV0 | eS21 |
| 2679 | | SW0 | uS8 |
| 2680 | | SX0 | uS12 |
| 2681 | | SY0 | eS24 |
| 2682 | | SZ0 | eS25 |
| 2683 | | |
| 2684 | | Non-standard residues in Rib_Vnec.cif #2 |
| 2685 | | --- |
| 2686 | | MG — magnesium ion |
| 2687 | | ZN — zinc ion |
| 2688 | | |
| 2689 | | |
| 2690 | | > open Rib_Palo.cif |
| 2691 | | |
| 2692 | | Rib_Palo.cif title: |
| 2693 | | Structure of the Paranosema locustae ribosome in complex with Lso2 [more |
| 2694 | | info...] |
| 2695 | | |
| 2696 | | Chain information for Rib_Palo.cif #3 |
| 2697 | | --- |
| 2698 | | Chain | Description |
| 2699 | | L50 | 25S rRNA |
| 2700 | | L70 | 5S rRNA |
| 2701 | | LA0 | uL2 |
| 2702 | | LAA | uL15 |
| 2703 | | LB0 | uL3 |
| 2704 | | LBB | eL29 |
| 2705 | | LC0 | uL4 |
| 2706 | | LCC | eL30 |
| 2707 | | LD0 | uL18 |
| 2708 | | LDD | eL31 |
| 2709 | | LE0 | eL6 |
| 2710 | | LEE | eL32 |
| 2711 | | LF0 | uL30 |
| 2712 | | LFF | eL33 |
| 2713 | | LG0 | eL8 |
| 2714 | | LGG | eL34 |
| 2715 | | LH0 | uL6 |
| 2716 | | LHH | uL29 |
| 2717 | | LI0 | uL16 |
| 2718 | | LII | eL36 |
| 2719 | | LJ0 | uL5 |
| 2720 | | LJJ | eL37 |
| 2721 | | LL0 | eL13 |
| 2722 | | LLL | eL39 |
| 2723 | | LM0 | eL14 |
| 2724 | | LMM | eL40 |
| 2725 | | LN0 | eL15 |
| 2726 | | LNN | Lso2 |
| 2727 | | LO0 | uL13 |
| 2728 | | LOO | eL42 |
| 2729 | | LP0 | uL22 |
| 2730 | | LPP | eL43 |
| 2731 | | LQ0 | eL18 |
| 2732 | | LR0 | eL19 |
| 2733 | | LS0 | eL20 |
| 2734 | | LT0 | eL21 |
| 2735 | | LU0 | eL22 |
| 2736 | | LV0 | uL14 |
| 2737 | | LW0 | eL24 |
| 2738 | | LX0 | uL23 |
| 2739 | | LY0 | uL24 |
| 2740 | | LZ0 | eL27 |
| 2741 | | S60 | 18S rRNA |
| 2742 | | SA0 | uS2 |
| 2743 | | SAA | eS26 |
| 2744 | | SB0 | eS1 |
| 2745 | | SBB | eS27 |
| 2746 | | SC0 | uS5 |
| 2747 | | SCC | eS28 |
| 2748 | | SD0 | uS3 |
| 2749 | | SDD | uS14 |
| 2750 | | SE0 | eS4 |
| 2751 | | SEE | eS30 |
| 2752 | | SF0 | uS7 |
| 2753 | | SG0 | eS6 |
| 2754 | | SGG | RACK1 |
| 2755 | | SH0 | eS7 |
| 2756 | | SI0 | eS8 |
| 2757 | | SJ0 | uS4 |
| 2758 | | SK0 | eS10 |
| 2759 | | SL0 | uS17 |
| 2760 | | SN0 | uS15 |
| 2761 | | SO0 | uS11 |
| 2762 | | SP0 | uS19 |
| 2763 | | SQ0 | uS9 |
| 2764 | | SR0 | eS17 |
| 2765 | | SS0 | uS13 |
| 2766 | | ST0 | eS19 |
| 2767 | | SU0 | uS10 |
| 2768 | | SV0 | eS21 |
| 2769 | | SW0 | uS8 |
| 2770 | | SX0 | uS12 |
| 2771 | | SY0 | eS24 |
| 2772 | | SZ0 | eS25 |
| 2773 | | |
| 2774 | | Non-standard residues in Rib_Palo.cif #3 |
| 2775 | | --- |
| 2776 | | AMP — adenosine monophosphate |
| 2777 | | MG — magnesium ion |
| 2778 | | ZN — zinc ion |
| 2779 | | |
| 2780 | | |
| 2781 | | > open Sc_v2.pdb |
| 2782 | | |
| 2783 | | Summary of feedback from opening Sc_v2.pdb |
| 2784 | | --- |
| 2785 | | warnings | Duplicate atom serial number found: 99999 |
| 2786 | | Duplicate atom serial number found: 99999 |
| 2787 | | Duplicate atom serial number found: 99999 |
| 2788 | | Duplicate atom serial number found: 99999 |
| 2789 | | Duplicate atom serial number found: 99999 |
| 2790 | | 623 messages similar to the above omitted |
| 2791 | | Ignored bad PDB record found on line 97590 |
| 2792 | | TER 100628 ALA h 120 |
| 2793 | | |
| 2794 | | Duplicate atom serial number found: 99999 |
| 2795 | | Duplicate atom serial number found: 99999 |
| 2796 | | Duplicate atom serial number found: 99999 |
| 2797 | | Duplicate atom serial number found: 99999 |
| 2798 | | Duplicate atom serial number found: 99999 |
| 2799 | | 834 messages similar to the above omitted |
| 2800 | | Ignored bad PDB record found on line 98430 |
| 2801 | | TER 101468 LEU I 103 |
| 2802 | | |
| 2803 | | Duplicate atom serial number found: 99999 |
| 2804 | | Duplicate atom serial number found: 99999 |
| 2805 | | Duplicate atom serial number found: 99999 |
| 2806 | | Duplicate atom serial number found: 99999 |
| 2807 | | Duplicate atom serial number found: 99999 |
| 2808 | | 878 messages similar to the above omitted |
| 2809 | | Ignored bad PDB record found on line 99314 |
| 2810 | | TER 102352 ALA I 221 |
| 2811 | | |
| 2812 | | Duplicate atom serial number found: 99999 |
| 2813 | | Duplicate atom serial number found: 99999 |
| 2814 | | Duplicate atom serial number found: 99999 |
| 2815 | | Duplicate atom serial number found: 99999 |
| 2816 | | Duplicate atom serial number found: 99999 |
| 2817 | | 765 messages similar to the above omitted |
| 2818 | | Ignored bad PDB record found on line 100085 |
| 2819 | | TER 103123 HIS i 100 |
| 2820 | | |
| 2821 | | Duplicate atom serial number found: 99999 |
| 2822 | | Duplicate atom serial number found: 99999 |
| 2823 | | Duplicate atom serial number found: 99999 |
| 2824 | | Duplicate atom serial number found: 99999 |
| 2825 | | Duplicate atom serial number found: 99999 |
| 2826 | | 1348 messages similar to the above omitted |
| 2827 | | Ignored bad PDB record found on line 101439 |
| 2828 | | TER 104477 LYS J 174 |
| 2829 | | |
| 2830 | | Duplicate atom serial number found: 99999 |
| 2831 | | Duplicate atom serial number found: 99999 |
| 2832 | | Duplicate atom serial number found: 99999 |
| 2833 | | Duplicate atom serial number found: 99999 |
| 2834 | | Duplicate atom serial number found: 99999 |
| 2835 | | 676 messages similar to the above omitted |
| 2836 | | Ignored bad PDB record found on line 102121 |
| 2837 | | TER 105159 ALA j 88 |
| 2838 | | |
| 2839 | | Duplicate atom serial number found: 99999 |
| 2840 | | Duplicate atom serial number found: 99999 |
| 2841 | | Duplicate atom serial number found: 99999 |
| 2842 | | Duplicate atom serial number found: 99999 |
| 2843 | | Duplicate atom serial number found: 99999 |
| 2844 | | 71 messages similar to the above omitted |
| 2845 | | Ignored bad PDB record found on line 102198 |
| 2846 | | TER 105236 UNK K 23 |
| 2847 | | |
| 2848 | | Duplicate atom serial number found: 99999 |
| 2849 | | Duplicate atom serial number found: 99999 |
| 2850 | | Duplicate atom serial number found: 99999 |
| 2851 | | Duplicate atom serial number found: 99999 |
| 2852 | | Duplicate atom serial number found: 99999 |
| 2853 | | 120 messages similar to the above omitted |
| 2854 | | Ignored bad PDB record found on line 102324 |
| 2855 | | TER 105362 UNK K 52 |
| 2856 | | |
| 2857 | | Duplicate atom serial number found: 99999 |
| 2858 | | Duplicate atom serial number found: 99999 |
| 2859 | | Duplicate atom serial number found: 99999 |
| 2860 | | Duplicate atom serial number found: 99999 |
| 2861 | | Duplicate atom serial number found: 99999 |
| 2862 | | 545 messages similar to the above omitted |
| 2863 | | Ignored bad PDB record found on line 102875 |
| 2864 | | TER 105913 UNK K 163 |
| 2865 | | |
| 2866 | | Duplicate atom serial number found: 99999 |
| 2867 | | Duplicate atom serial number found: 99999 |
| 2868 | | Duplicate atom serial number found: 99999 |
| 2869 | | Duplicate atom serial number found: 99999 |
| 2870 | | Duplicate atom serial number found: 99999 |
| 2871 | | 603 messages similar to the above omitted |
| 2872 | | Ignored bad PDB record found on line 103484 |
| 2873 | | TER 106522 LEU k 78 |
| 2874 | | |
| 2875 | | Duplicate atom serial number found: 99999 |
| 2876 | | Duplicate atom serial number found: 99999 |
| 2877 | | Duplicate atom serial number found: 99999 |
| 2878 | | Duplicate atom serial number found: 99999 |
| 2879 | | Duplicate atom serial number found: 99999 |
| 2880 | | 1543 messages similar to the above omitted |
| 2881 | | Ignored bad PDB record found on line 105033 |
| 2882 | | TER 108071 ALA L 195 |
| 2883 | | |
| 2884 | | Duplicate atom serial number found: 99999 |
| 2885 | | Duplicate atom serial number found: 99999 |
| 2886 | | Duplicate atom serial number found: 99999 |
| 2887 | | Duplicate atom serial number found: 99999 |
| 2888 | | Duplicate atom serial number found: 99999 |
| 2889 | | 431 messages similar to the above omitted |
| 2890 | | Ignored bad PDB record found on line 105470 |
| 2891 | | TER 108508 ILE l 51 |
| 2892 | | |
| 2893 | | Duplicate atom serial number found: 99999 |
| 2894 | | Duplicate atom serial number found: 99999 |
| 2895 | | Duplicate atom serial number found: 99999 |
| 2896 | | Duplicate atom serial number found: 99999 |
| 2897 | | Duplicate atom serial number found: 99999 |
| 2898 | | 1054 messages similar to the above omitted |
| 2899 | | Ignored bad PDB record found on line 106530 |
| 2900 | | TER 109568 ALA M 138 |
| 2901 | | |
| 2902 | | Duplicate atom serial number found: 99999 |
| 2903 | | Duplicate atom serial number found: 99999 |
| 2904 | | Duplicate atom serial number found: 99999 |
| 2905 | | Duplicate atom serial number found: 99999 |
| 2906 | | Duplicate atom serial number found: 99999 |
| 2907 | | 412 messages similar to the above omitted |
| 2908 | | Ignored bad PDB record found on line 106948 |
| 2909 | | TER 109986 LYS m 128 |
| 2910 | | |
| 2911 | | Duplicate atom serial number found: 99999 |
| 2912 | | Duplicate atom serial number found: 99999 |
| 2913 | | Duplicate atom serial number found: 99999 |
| 2914 | | Duplicate atom serial number found: 99999 |
| 2915 | | Duplicate atom serial number found: 99999 |
| 2916 | | 1716 messages similar to the above omitted |
| 2917 | | Ignored bad PDB record found on line 108670 |
| 2918 | | TER 111708 LYS N 204 |
| 2919 | | |
| 2920 | | Duplicate atom serial number found: 99999 |
| 2921 | | Duplicate atom serial number found: 99999 |
| 2922 | | Duplicate atom serial number found: 99999 |
| 2923 | | Duplicate atom serial number found: 99999 |
| 2924 | | Duplicate atom serial number found: 99999 |
| 2925 | | 228 messages similar to the above omitted |
| 2926 | | Ignored bad PDB record found on line 108904 |
| 2927 | | TER 111942 LYS n 25 |
| 2928 | | |
| 2929 | | Duplicate atom serial number found: 99999 |
| 2930 | | Duplicate atom serial number found: 99999 |
| 2931 | | Duplicate atom serial number found: 99999 |
| 2932 | | Duplicate atom serial number found: 99999 |
| 2933 | | Duplicate atom serial number found: 99999 |
| 2934 | | 3114 messages similar to the above omitted |
| 2935 | | Ignored bad PDB record found on line 112024 |
| 2936 | | TER 115062 TYR O 199 |
| 2937 | | |
| 2938 | | Duplicate atom serial number found: 99999 |
| 2939 | | Duplicate atom serial number found: 99999 |
| 2940 | | Duplicate atom serial number found: 99999 |
| 2941 | | Duplicate atom serial number found: 99999 |
| 2942 | | Duplicate atom serial number found: 99999 |
| 2943 | | 842 messages similar to the above omitted |
| 2944 | | Ignored bad PDB record found on line 112872 |
| 2945 | | TER 115910 PHE o 106 |
| 2946 | | |
| 2947 | | Duplicate atom serial number found: 99999 |
| 2948 | | Duplicate atom serial number found: 99999 |
| 2949 | | Duplicate atom serial number found: 99999 |
| 2950 | | Duplicate atom serial number found: 99999 |
| 2951 | | Duplicate atom serial number found: 99999 |
| 2952 | | 1223 messages similar to the above omitted |
| 2953 | | Ignored bad PDB record found on line 114101 |
| 2954 | | TER 117139 ALA P 156 |
| 2955 | | |
| 2956 | | Duplicate atom serial number found: 99999 |
| 2957 | | Duplicate atom serial number found: 99999 |
| 2958 | | Duplicate atom serial number found: 99999 |
| 2959 | | Duplicate atom serial number found: 99999 |
| 2960 | | Duplicate atom serial number found: 99999 |
| 2961 | | 689 messages similar to the above omitted |
| 2962 | | Ignored bad PDB record found on line 114796 |
| 2963 | | TER 117834 ALA p 92 |
| 2964 | | |
| 2965 | | Duplicate atom serial number found: 99999 |
| 2966 | | Duplicate atom serial number found: 99999 |
| 2967 | | Duplicate atom serial number found: 99999 |
| 2968 | | Duplicate atom serial number found: 99999 |
| 2969 | | Duplicate atom serial number found: 99999 |
| 2970 | | 1437 messages similar to the above omitted |
| 2971 | | Ignored bad PDB record found on line 116239 |
| 2972 | | TER 119277 VAL Q 186 |
| 2973 | | |
| 2974 | | Duplicate atom serial number found: 99999 |
| 2975 | | Duplicate atom serial number found: 99999 |
| 2976 | | Duplicate atom serial number found: 99999 |
| 2977 | | Duplicate atom serial number found: 99999 |
| 2978 | | Duplicate atom serial number found: 99999 |
| 2979 | | 842 messages similar to the above omitted |
| 2980 | | Ignored bad PDB record found on line 117087 |
| 2981 | | TER 120125 ALA q 107 |
| 2982 | | |
| 2983 | | Duplicate atom serial number found: 99999 |
| 2984 | | Duplicate atom serial number found: 99999 |
| 2985 | | Duplicate atom serial number found: 99999 |
| 2986 | | Duplicate atom serial number found: 99999 |
| 2987 | | Duplicate atom serial number found: 99999 |
| 2988 | | 225 messages similar to the above omitted |
| 2989 | | Ignored bad PDB record found on line 117318 |
| 2990 | | TER 120356 UNK q 221 |
| 2991 | | |
| 2992 | | Duplicate atom serial number found: 99999 |
| 2993 | | Duplicate atom serial number found: 99999 |
| 2994 | | Duplicate atom serial number found: 99999 |
| 2995 | | Duplicate atom serial number found: 99999 |
| 2996 | | Duplicate atom serial number found: 99999 |
| 2997 | | 1516 messages similar to the above omitted |
| 2998 | | Ignored bad PDB record found on line 118840 |
| 2999 | | TER 121878 ALA R 189 |
| 3000 | | |
| 3001 | | Duplicate atom serial number found: 99999 |
| 3002 | | Duplicate atom serial number found: 99999 |
| 3003 | | Duplicate atom serial number found: 99999 |
| 3004 | | Duplicate atom serial number found: 99999 |
| 3005 | | Duplicate atom serial number found: 99999 |
| 3006 | | 230 messages similar to the above omitted |
| 3007 | | Ignored bad PDB record found on line 119076 |
| 3008 | | TER 122114 UNK r 47 |
| 3009 | | |
| 3010 | | Duplicate atom serial number found: 99999 |
| 3011 | | Duplicate atom serial number found: 99999 |
| 3012 | | Duplicate atom serial number found: 99999 |
| 3013 | | Duplicate atom serial number found: 99999 |
| 3014 | | Duplicate atom serial number found: 99999 |
| 3015 | | 1440 messages similar to the above omitted |
| 3016 | | Ignored bad PDB record found on line 120522 |
| 3017 | | TER 123560 TYR S 172 |
| 3018 | | |
| 3019 | | Duplicate atom serial number found: 99999 |
| 3020 | | Duplicate atom serial number found: 99999 |
| 3021 | | Duplicate atom serial number found: 99999 |
| 3022 | | Duplicate atom serial number found: 99999 |
| 3023 | | Duplicate atom serial number found: 99999 |
| 3024 | | 225 messages similar to the above omitted |
| 3025 | | Ignored bad PDB record found on line 120753 |
| 3026 | | TER 123791 UNK s 46 |
| 3027 | | |
| 3028 | | Duplicate atom serial number found: 99999 |
| 3029 | | Duplicate atom serial number found: 99999 |
| 3030 | | Duplicate atom serial number found: 99999 |
| 3031 | | Duplicate atom serial number found: 99999 |
| 3032 | | Duplicate atom serial number found: 99999 |
| 3033 | | 1271 messages similar to the above omitted |
| 3034 | | Ignored bad PDB record found on line 122030 |
| 3035 | | TER 125068 ILE T 160 |
| 3036 | | |
| 3037 | | Duplicate atom serial number found: 99999 |
| 3038 | | Duplicate atom serial number found: 99999 |
| 3039 | | Duplicate atom serial number found: 99999 |
| 3040 | | Duplicate atom serial number found: 99999 |
| 3041 | | Duplicate atom serial number found: 99999 |
| 3042 | | 773 messages similar to the above omitted |
| 3043 | | Ignored bad PDB record found on line 122809 |
| 3044 | | TER 125847 TYR U 108 |
| 3045 | | |
| 3046 | | Duplicate atom serial number found: 99999 |
| 3047 | | Duplicate atom serial number found: 99999 |
| 3048 | | Duplicate atom serial number found: 99999 |
| 3049 | | Duplicate atom serial number found: 99999 |
| 3050 | | Duplicate atom serial number found: 99999 |
| 3051 | | 998 messages similar to the above omitted |
| 3052 | | Ignored bad PDB record found on line 123813 |
| 3053 | | TER 126851 VAL V 137 |
| 3054 | | |
| 3055 | | Duplicate atom serial number found: 99999 |
| 3056 | | Duplicate atom serial number found: 99999 |
| 3057 | | Duplicate atom serial number found: 99999 |
| 3058 | | Duplicate atom serial number found: 99999 |
| 3059 | | Duplicate atom serial number found: 99999 |
| 3060 | | 1033 messages similar to the above omitted |
| 3061 | | Ignored bad PDB record found on line 124852 |
| 3062 | | TER 127890 SER W 135 |
| 3063 | | |
| 3064 | | Duplicate atom serial number found: 99999 |
| 3065 | | Duplicate atom serial number found: 99999 |
| 3066 | | Duplicate atom serial number found: 99999 |
| 3067 | | Duplicate atom serial number found: 99999 |
| 3068 | | Duplicate atom serial number found: 99999 |
| 3069 | | 954 messages similar to the above omitted |
| 3070 | | Ignored bad PDB record found on line 125812 |
| 3071 | | TER 128850 ILE X 142 |
| 3072 | | |
| 3073 | | Duplicate atom serial number found: 99999 |
| 3074 | | Duplicate atom serial number found: 99999 |
| 3075 | | Duplicate atom serial number found: 99999 |
| 3076 | | Duplicate atom serial number found: 99999 |
| 3077 | | Duplicate atom serial number found: 99999 |
| 3078 | | 988 messages similar to the above omitted |
| 3079 | | Ignored bad PDB record found on line 126806 |
| 3080 | | TER 129844 GLU Y 127 |
| 3081 | | |
| 3082 | | Duplicate atom serial number found: 99999 |
| 3083 | | Duplicate atom serial number found: 99999 |
| 3084 | | Duplicate atom serial number found: 99999 |
| 3085 | | Duplicate atom serial number found: 99999 |
| 3086 | | Duplicate atom serial number found: 99999 |
| 3087 | | 1087 messages similar to the above omitted |
| 3088 | | Ignored bad PDB record found on line 127899 |
| 3089 | | TER 130937 PHE Z 136 |
| 3090 | | |
| 3091 | | Duplicate atom serial number found: 99999 |
| 3092 | | Duplicate atom serial number found: 99999 |
| 3093 | | Duplicate atom serial number found: 99999 |
| 3094 | | Duplicate atom serial number found: 99999 |
| 3095 | | Duplicate atom serial number found: 99999 |
| 3096 | | 2783 messages similar to the above omitted |
| 3097 | | Ignored bad PDB record found on line 130688 |
| 3098 | | TER 133726 U 6 132 |
| 3099 | | |
| 3100 | | Duplicate atom serial number found: 99999 |
| 3101 | | Duplicate atom serial number found: 99999 |
| 3102 | | Duplicate atom serial number found: 99999 |
| 3103 | | Duplicate atom serial number found: 99999 |
| 3104 | | Duplicate atom serial number found: 99999 |
| 3105 | | 11291 messages similar to the above omitted |
| 3106 | | Ignored bad PDB record found on line 141985 |
| 3107 | | TER 145023 N 6 670 |
| 3108 | | |
| 3109 | | Duplicate atom serial number found: 99999 |
| 3110 | | Duplicate atom serial number found: 99999 |
| 3111 | | Duplicate atom serial number found: 99999 |
| 3112 | | Duplicate atom serial number found: 99999 |
| 3113 | | Duplicate atom serial number found: 99999 |
| 3114 | | 25515 messages similar to the above omitted |
| 3115 | | Ignored bad PDB record found on line 167507 |
| 3116 | | TER 170545 PRO A 207 |
| 3117 | | |
| 3118 | | Duplicate atom serial number found: 99999 |
| 3119 | | Duplicate atom serial number found: 99999 |
| 3120 | | Duplicate atom serial number found: 99999 |
| 3121 | | Duplicate atom serial number found: 99999 |
| 3122 | | Duplicate atom serial number found: 99999 |
| 3123 | | 764 messages similar to the above omitted |
| 3124 | | Ignored bad PDB record found on line 168277 |
| 3125 | | TER 171315 PRO a 98 |
| 3126 | | |
| 3127 | | Duplicate atom serial number found: 99999 |
| 3128 | | Duplicate atom serial number found: 99999 |
| 3129 | | Duplicate atom serial number found: 99999 |
| 3130 | | Duplicate atom serial number found: 99999 |
| 3131 | | Duplicate atom serial number found: 99999 |
| 3132 | | 1718 messages similar to the above omitted |
| 3133 | | Ignored bad PDB record found on line 170001 |
| 3134 | | TER 173039 GLY B 235 |
| 3135 | | |
| 3136 | | Duplicate atom serial number found: 99999 |
| 3137 | | Duplicate atom serial number found: 99999 |
| 3138 | | Duplicate atom serial number found: 99999 |
| 3139 | | Duplicate atom serial number found: 99999 |
| 3140 | | Duplicate atom serial number found: 99999 |
| 3141 | | 605 messages similar to the above omitted |
| 3142 | | Ignored bad PDB record found on line 170612 |
| 3143 | | TER 173650 LYS b 82 |
| 3144 | | |
| 3145 | | Duplicate atom serial number found: 99999 |
| 3146 | | Duplicate atom serial number found: 99999 |
| 3147 | | Duplicate atom serial number found: 99999 |
| 3148 | | Duplicate atom serial number found: 99999 |
| 3149 | | Duplicate atom serial number found: 99999 |
| 3150 | | 1631 messages similar to the above omitted |
| 3151 | | Ignored bad PDB record found on line 172249 |
| 3152 | | TER 175287 GLN C 250 |
| 3153 | | |
| 3154 | | Duplicate atom serial number found: 99999 |
| 3155 | | Duplicate atom serial number found: 99999 |
| 3156 | | Duplicate atom serial number found: 99999 |
| 3157 | | Duplicate atom serial number found: 99999 |
| 3158 | | Duplicate atom serial number found: 99999 |
| 3159 | | 492 messages similar to the above omitted |
| 3160 | | Ignored bad PDB record found on line 172747 |
| 3161 | | TER 175785 ARG c 67 |
| 3162 | | |
| 3163 | | Duplicate atom serial number found: 99999 |
| 3164 | | Duplicate atom serial number found: 99999 |
| 3165 | | Duplicate atom serial number found: 99999 |
| 3166 | | Duplicate atom serial number found: 99999 |
| 3167 | | Duplicate atom serial number found: 99999 |
| 3168 | | 1729 messages similar to the above omitted |
| 3169 | | Ignored bad PDB record found on line 174482 |
| 3170 | | TER 177520 TYR D 225 |
| 3171 | | |
| 3172 | | Duplicate atom serial number found: 99999 |
| 3173 | | Duplicate atom serial number found: 99999 |
| 3174 | | Duplicate atom serial number found: 99999 |
| 3175 | | Duplicate atom serial number found: 99999 |
| 3176 | | Duplicate atom serial number found: 99999 |
| 3177 | | 437 messages similar to the above omitted |
| 3178 | | Ignored bad PDB record found on line 174925 |
| 3179 | | TER 177963 ARG d 56 |
| 3180 | | |
| 3181 | | Duplicate atom serial number found: 99999 |
| 3182 | | Duplicate atom serial number found: 99999 |
| 3183 | | Duplicate atom serial number found: 99999 |
| 3184 | | Duplicate atom serial number found: 99999 |
| 3185 | | Duplicate atom serial number found: 99999 |
| 3186 | | 2064 messages similar to the above omitted |
| 3187 | | Ignored bad PDB record found on line 176995 |
| 3188 | | TER 180033 LEU E 261 |
| 3189 | | |
| 3190 | | Duplicate atom serial number found: 99999 |
| 3191 | | Duplicate atom serial number found: 99999 |
| 3192 | | Duplicate atom serial number found: 99999 |
| 3193 | | Duplicate atom serial number found: 99999 |
| 3194 | | Duplicate atom serial number found: 99999 |
| 3195 | | 486 messages similar to the above omitted |
| 3196 | | Ignored bad PDB record found on line 177487 |
| 3197 | | TER 180525 GLN e 63 |
| 3198 | | |
| 3199 | | Duplicate atom serial number found: 99999 |
| 3200 | | Duplicate atom serial number found: 99999 |
| 3201 | | Duplicate atom serial number found: 99999 |
| 3202 | | Duplicate atom serial number found: 99999 |
| 3203 | | Duplicate atom serial number found: 99999 |
| 3204 | | 1604 messages similar to the above omitted |
| 3205 | | Ignored bad PDB record found on line 179097 |
| 3206 | | TER 182135 ARG F 225 |
| 3207 | | |
| 3208 | | Duplicate atom serial number found: 99999 |
| 3209 | | Duplicate atom serial number found: 99999 |
| 3210 | | Duplicate atom serial number found: 99999 |
| 3211 | | Duplicate atom serial number found: 99999 |
| 3212 | | Duplicate atom serial number found: 99999 |
| 3213 | | 539 messages similar to the above omitted |
| 3214 | | Ignored bad PDB record found on line 179642 |
| 3215 | | TER 182680 ALA f 152 |
| 3216 | | |
| 3217 | | Duplicate atom serial number found: 99999 |
| 3218 | | Duplicate atom serial number found: 99999 |
| 3219 | | Duplicate atom serial number found: 99999 |
| 3220 | | Duplicate atom serial number found: 99999 |
| 3221 | | Duplicate atom serial number found: 99999 |
| 3222 | | 1751 messages similar to the above omitted |
| 3223 | | Ignored bad PDB record found on line 181399 |
| 3224 | | TER 184437 GLU G 218 |
| 3225 | | |
| 3226 | | Duplicate atom serial number found: 99999 |
| 3227 | | Duplicate atom serial number found: 99999 |
| 3228 | | Duplicate atom serial number found: 99999 |
| 3229 | | Duplicate atom serial number found: 99999 |
| 3230 | | Duplicate atom serial number found: 99999 |
| 3231 | | 2437 messages similar to the above omitted |
| 3232 | | Ignored bad PDB record found on line 183842 |
| 3233 | | TER 186880 ASN g 319 |
| 3234 | | |
| 3235 | | Duplicate atom serial number found: 99999 |
| 3236 | | Duplicate atom serial number found: 99999 |
| 3237 | | Duplicate atom serial number found: 99999 |
| 3238 | | Duplicate atom serial number found: 99999 |
| 3239 | | Duplicate atom serial number found: 99999 |
| 3240 | | 1486 messages similar to the above omitted |
| 3241 | | Ignored bad PDB record found on line 185334 |
| 3242 | | TER 188372 SER H 187 |
| 3243 | | |
| 3244 | | Duplicate atom serial number found: 99999 |
| 3245 | | Duplicate atom serial number found: 99999 |
| 3246 | | Duplicate atom serial number found: 99999 |
| 3247 | | Duplicate atom serial number found: 99999 |
| 3248 | | Duplicate atom serial number found: 99999 |
| 3249 | | 972 messages similar to the above omitted |
| 3250 | | Ignored bad PDB record found on line 186312 |
| 3251 | | TER 189350 LYS I 123 |
| 3252 | | |
| 3253 | | Duplicate atom serial number found: 99999 |
| 3254 | | Duplicate atom serial number found: 99999 |
| 3255 | | Duplicate atom serial number found: 99999 |
| 3256 | | Duplicate atom serial number found: 99999 |
| 3257 | | Duplicate atom serial number found: 99999 |
| 3258 | | 507 messages similar to the above omitted |
| 3259 | | Ignored bad PDB record found on line 186825 |
| 3260 | | TER 189863 LYS I 200 |
| 3261 | | |
| 3262 | | Duplicate atom serial number found: 99999 |
| 3263 | | Duplicate atom serial number found: 99999 |
| 3264 | | Duplicate atom serial number found: 99999 |
| 3265 | | Duplicate atom serial number found: 99999 |
| 3266 | | Duplicate atom serial number found: 99999 |
| 3267 | | 1489 messages similar to the above omitted |
| 3268 | | Ignored bad PDB record found on line 188320 |
| 3269 | | TER 191358 GLU J 186 |
| 3270 | | |
| 3271 | | Duplicate atom serial number found: 99999 |
| 3272 | | Duplicate atom serial number found: 99999 |
| 3273 | | Duplicate atom serial number found: 99999 |
| 3274 | | Duplicate atom serial number found: 99999 |
| 3275 | | Duplicate atom serial number found: 99999 |
| 3276 | | 697 messages similar to the above omitted |
| 3277 | | Ignored bad PDB record found on line 189023 |
| 3278 | | TER 192061 GLU K 84 |
| 3279 | | |
| 3280 | | Duplicate atom serial number found: 99999 |
| 3281 | | Duplicate atom serial number found: 99999 |
| 3282 | | Duplicate atom serial number found: 99999 |
| 3283 | | Duplicate atom serial number found: 99999 |
| 3284 | | Duplicate atom serial number found: 99999 |
| 3285 | | 54 messages similar to the above omitted |
| 3286 | | Ignored bad PDB record found on line 189083 |
| 3287 | | TER 192121 THR K 98 |
| 3288 | | |
| 3289 | | Duplicate atom serial number found: 99999 |
| 3290 | | Duplicate atom serial number found: 99999 |
| 3291 | | Duplicate atom serial number found: 99999 |
| 3292 | | Duplicate atom serial number found: 99999 |
| 3293 | | Duplicate atom serial number found: 99999 |
| 3294 | | 1163 messages similar to the above omitted |
| 3295 | | Ignored bad PDB record found on line 190252 |
| 3296 | | TER 193290 GLY L 147 |
| 3297 | | |
| 3298 | | Duplicate atom serial number found: 99999 |
| 3299 | | Duplicate atom serial number found: 99999 |
| 3300 | | Duplicate atom serial number found: 99999 |
| 3301 | | Duplicate atom serial number found: 99999 |
| 3302 | | Duplicate atom serial number found: 99999 |
| 3303 | | 885 messages similar to the above omitted |
| 3304 | | Ignored bad PDB record found on line 191143 |
| 3305 | | TER 194181 GLN M 143 |
| 3306 | | |
| 3307 | | Duplicate atom serial number found: 99999 |
| 3308 | | Duplicate atom serial number found: 99999 |
| 3309 | | Duplicate atom serial number found: 99999 |
| 3310 | | Duplicate atom serial number found: 99999 |
| 3311 | | Duplicate atom serial number found: 99999 |
| 3312 | | 1187 messages similar to the above omitted |
| 3313 | | Ignored bad PDB record found on line 192336 |
| 3314 | | TER 195374 ASN N 151 |
| 3315 | | |
| 3316 | | Duplicate atom serial number found: 99999 |
| 3317 | | Duplicate atom serial number found: 99999 |
| 3318 | | Duplicate atom serial number found: 99999 |
| 3319 | | Duplicate atom serial number found: 99999 |
| 3320 | | Duplicate atom serial number found: 99999 |
| 3321 | | 944 messages similar to the above omitted |
| 3322 | | Ignored bad PDB record found on line 193286 |
| 3323 | | TER 196324 LEU O 137 |
| 3324 | | |
| 3325 | | Duplicate atom serial number found: 99999 |
| 3326 | | Duplicate atom serial number found: 99999 |
| 3327 | | Duplicate atom serial number found: 99999 |
| 3328 | | Duplicate atom serial number found: 99999 |
| 3329 | | Duplicate atom serial number found: 99999 |
| 3330 | | 1034 messages similar to the above omitted |
| 3331 | | Ignored bad PDB record found on line 194326 |
| 3332 | | TER 197364 PHE P 138 |
| 3333 | | |
| 3334 | | Duplicate atom serial number found: 99999 |
| 3335 | | Duplicate atom serial number found: 99999 |
| 3336 | | Duplicate atom serial number found: 99999 |
| 3337 | | Duplicate atom serial number found: 99999 |
| 3338 | | Duplicate atom serial number found: 99999 |
| 3339 | | 1106 messages similar to the above omitted |
| 3340 | | Ignored bad PDB record found on line 195438 |
| 3341 | | TER 198476 ARG Q 143 |
| 3342 | | |
| 3343 | | Duplicate atom serial number found: 99999 |
| 3344 | | Duplicate atom serial number found: 99999 |
| 3345 | | Duplicate atom serial number found: 99999 |
| 3346 | | Duplicate atom serial number found: 99999 |
| 3347 | | Duplicate atom serial number found: 99999 |
| 3348 | | 731 messages similar to the above omitted |
| 3349 | | Ignored bad PDB record found on line 196175 |
| 3350 | | TER 199213 ALA R 90 |
| 3351 | | |
| 3352 | | Duplicate atom serial number found: 99999 |
| 3353 | | Duplicate atom serial number found: 99999 |
| 3354 | | Duplicate atom serial number found: 99999 |
| 3355 | | Duplicate atom serial number found: 99999 |
| 3356 | | Duplicate atom serial number found: 99999 |
| 3357 | | 165 messages similar to the above omitted |
| 3358 | | Ignored bad PDB record found on line 196346 |
| 3359 | | TER 199384 ILE R 122 |
| 3360 | | |
| 3361 | | Duplicate atom serial number found: 99999 |
| 3362 | | Duplicate atom serial number found: 99999 |
| 3363 | | Duplicate atom serial number found: 99999 |
| 3364 | | Duplicate atom serial number found: 99999 |
| 3365 | | Duplicate atom serial number found: 99999 |
| 3366 | | 1187 messages similar to the above omitted |
| 3367 | | Ignored bad PDB record found on line 197539 |
| 3368 | | TER 200577 ALA S 146 |
| 3369 | | |
| 3370 | | Duplicate atom serial number found: 99999 |
| 3371 | | Duplicate atom serial number found: 99999 |
| 3372 | | Duplicate atom serial number found: 99999 |
| 3373 | | Duplicate atom serial number found: 99999 |
| 3374 | | Duplicate atom serial number found: 99999 |
| 3375 | | 1107 messages similar to the above omitted |
| 3376 | | Ignored bad PDB record found on line 198652 |
| 3377 | | TER 201690 GLU T 144 |
| 3378 | | |
| 3379 | | Duplicate atom serial number found: 99999 |
| 3380 | | Duplicate atom serial number found: 99999 |
| 3381 | | Duplicate atom serial number found: 99999 |
| 3382 | | Duplicate atom serial number found: 99999 |
| 3383 | | Duplicate atom serial number found: 99999 |
| 3384 | | 877 messages similar to the above omitted |
| 3385 | | Ignored bad PDB record found on line 199535 |
| 3386 | | TER 202573 ASN U 121 |
| 3387 | | |
| 3388 | | Duplicate atom serial number found: 99999 |
| 3389 | | Duplicate atom serial number found: 99999 |
| 3390 | | Duplicate atom serial number found: 99999 |
| 3391 | | Duplicate atom serial number found: 99999 |
| 3392 | | Duplicate atom serial number found: 99999 |
| 3393 | | 679 messages similar to the above omitted |
| 3394 | | Ignored bad PDB record found on line 200220 |
| 3395 | | TER 203258 ARG V 87 |
| 3396 | | |
| 3397 | | Duplicate atom serial number found: 99999 |
| 3398 | | Duplicate atom serial number found: 99999 |
| 3399 | | Duplicate atom serial number found: 99999 |
| 3400 | | Duplicate atom serial number found: 99999 |
| 3401 | | Duplicate atom serial number found: 99999 |
| 3402 | | 1016 messages similar to the above omitted |
| 3403 | | Ignored bad PDB record found on line 201242 |
| 3404 | | TER 204280 TYR W 130 |
| 3405 | | |
| 3406 | | Duplicate atom serial number found: 99999 |
| 3407 | | Duplicate atom serial number found: 99999 |
| 3408 | | Duplicate atom serial number found: 99999 |
| 3409 | | Duplicate atom serial number found: 99999 |
| 3410 | | Duplicate atom serial number found: 99999 |
| 3411 | | 1116 messages similar to the above omitted |
| 3412 | | Ignored bad PDB record found on line 202364 |
| 3413 | | TER 205402 SER X 145 |
| 3414 | | |
| 3415 | | Duplicate atom serial number found: 99999 |
| 3416 | | Duplicate atom serial number found: 99999 |
| 3417 | | Duplicate atom serial number found: 99999 |
| 3418 | | Duplicate atom serial number found: 99999 |
| 3419 | | Duplicate atom serial number found: 99999 |
| 3420 | | 1068 messages similar to the above omitted |
| 3421 | | Ignored bad PDB record found on line 203438 |
| 3422 | | TER 206476 ASP Y 135 |
| 3423 | | |
| 3424 | | Duplicate atom serial number found: 99999 |
| 3425 | | Duplicate atom serial number found: 99999 |
| 3426 | | Duplicate atom serial number found: 99999 |
| 3427 | | Duplicate atom serial number found: 99999 |
| 3428 | | Duplicate atom serial number found: 99999 |
| 3429 | | 553 messages similar to the above omitted |
| 3430 | | |
| 3431 | | Chain information for Sc_v2.pdb #4 |
| 3432 | | --- |
| 3433 | | Chain | Description |
| 3434 | | 5 | No description available |
| 3435 | | 6 | No description available |
| 3436 | | 7 | No description available |
| 3437 | | 8 | No description available |
| 3438 | | A | No description available |
| 3439 | | B | No description available |
| 3440 | | C | No description available |
| 3441 | | D | No description available |
| 3442 | | E | No description available |
| 3443 | | F | No description available |
| 3444 | | G | No description available |
| 3445 | | H | No description available |
| 3446 | | I | No description available |
| 3447 | | J | No description available |
| 3448 | | K | No description available |
| 3449 | | L | No description available |
| 3450 | | M | No description available |
| 3451 | | N | No description available |
| 3452 | | O | No description available |
| 3453 | | P | No description available |
| 3454 | | Q | No description available |
| 3455 | | R | No description available |
| 3456 | | S | No description available |
| 3457 | | T | No description available |
| 3458 | | U | No description available |
| 3459 | | V | No description available |
| 3460 | | W | No description available |
| 3461 | | X | No description available |
| 3462 | | Y | No description available |
| 3463 | | Z | No description available |
| 3464 | | a | No description available |
| 3465 | | b | No description available |
| 3466 | | c | No description available |
| 3467 | | d | No description available |
| 3468 | | e | No description available |
| 3469 | | f | No description available |
| 3470 | | g | No description available |
| 3471 | | h | No description available |
| 3472 | | i | No description available |
| 3473 | | j | No description available |
| 3474 | | k | No description available |
| 3475 | | l | No description available |
| 3476 | | m | No description available |
| 3477 | | n | No description available |
| 3478 | | o | No description available |
| 3479 | | p | No description available |
| 3480 | | q | No description available |
| 3481 | | r | No description available |
| 3482 | | s | No description available |
| 3483 | | |
| 3484 | | |
| 3485 | | > matchmaker #1 to #4 |
| 3486 | | |
| 3487 | | Parameters |
| 3488 | | --- |
| 3489 | | Chain pairing | bb |
| 3490 | | Alignment algorithm | Needleman-Wunsch |
| 3491 | | Similarity matrix | BLOSUM-62 |
| 3492 | | SS fraction | 0.3 |
| 3493 | | Gap open (HH/SS/other) | 18/18/6 |
| 3494 | | Gap extend | 1 |
| 3495 | | SS matrix | | | H | S | O |
| 3496 | | ---|---|---|--- |
| 3497 | | H | 6 | -9 | -6 |
| 3498 | | S | | 6 | -6 |
| 3499 | | O | | | 4 |
| 3500 | | Iteration cutoff | 2 |
| 3501 | | |
| 3502 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Encu.cif, chain L3 (#1), sequence |
| 3503 | | alignment score = 1068.1 |
| 3504 | | RMSD between 301 pruned atom pairs is 1.132 angstroms; (across all 361 pairs: |
| 3505 | | 2.358) |
| 3506 | | |
| 3507 | | |
| 3508 | | > matchmaker #2 to #4 |
| 3509 | | |
| 3510 | | Parameters |
| 3511 | | --- |
| 3512 | | Chain pairing | bb |
| 3513 | | Alignment algorithm | Needleman-Wunsch |
| 3514 | | Similarity matrix | BLOSUM-62 |
| 3515 | | SS fraction | 0.3 |
| 3516 | | Gap open (HH/SS/other) | 18/18/6 |
| 3517 | | Gap extend | 1 |
| 3518 | | SS matrix | | | H | S | O |
| 3519 | | ---|---|---|--- |
| 3520 | | H | 6 | -9 | -6 |
| 3521 | | S | | 6 | -6 |
| 3522 | | O | | | 4 |
| 3523 | | Iteration cutoff | 2 |
| 3524 | | |
| 3525 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Vnec.cif, chain LB0 (#2), sequence |
| 3526 | | alignment score = 1086.1 |
| 3527 | | RMSD between 252 pruned atom pairs is 1.274 angstroms; (across all 365 pairs: |
| 3528 | | 3.072) |
| 3529 | | |
| 3530 | | |
| 3531 | | > matchmaker #3 to #4 |
| 3532 | | |
| 3533 | | Parameters |
| 3534 | | --- |
| 3535 | | Chain pairing | bb |
| 3536 | | Alignment algorithm | Needleman-Wunsch |
| 3537 | | Similarity matrix | BLOSUM-62 |
| 3538 | | SS fraction | 0.3 |
| 3539 | | Gap open (HH/SS/other) | 18/18/6 |
| 3540 | | Gap extend | 1 |
| 3541 | | SS matrix | | | H | S | O |
| 3542 | | ---|---|---|--- |
| 3543 | | H | 6 | -9 | -6 |
| 3544 | | S | | 6 | -6 |
| 3545 | | O | | | 4 |
| 3546 | | Iteration cutoff | 2 |
| 3547 | | |
| 3548 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Palo.cif, chain LB0 (#3), sequence |
| 3549 | | alignment score = 1052.3 |
| 3550 | | RMSD between 336 pruned atom pairs is 0.844 angstroms; (across all 362 pairs: |
| 3551 | | 1.618) |
| 3552 | | |
| 3553 | | |
| 3554 | | > hide #1 #2 #3 #4 atoms |
| 3555 | | |
| 3556 | | > cartoon style modeHelix tube width 4 thickness 2 |
| 3557 | | |
| 3558 | | > set bgColor white |
| 3559 | | |
| 3560 | | > set silhouettes true |
| 3561 | | |
| 3562 | | > set silhouetteWidth 3.5 |
| 3563 | | |
| 3564 | | > lighting soft |
| 3565 | | |
| 3566 | | > lighting shadows false |
| 3567 | | |
| 3568 | | > lighting depthCueStart 0.3 |
| 3569 | | |
| 3570 | | > lighting depthCueEnd 0.7 |
| 3571 | | |
| 3572 | | > lighting ambientIntensity 0.8 |
| 3573 | | |
| 3574 | | > lighting fillIntensity 0.8 |
| 3575 | | |
| 3576 | | > show #1 &~ #1/N5/O7/L8/L2/MS surfaces |
| 3577 | | |
| 3578 | | > show #1/N5/O7/L8/L2/MS cartoons |
| 3579 | | |
| 3580 | | > color #1 &~ #1/N5/O7/L8/L2/MS/1:85-104, 1153-1166, 1365-1370, 1187-1194, |
| 3581 | | > 1360-1366, 1540-1544 white smoke |
| 3582 | | |
| 3583 | | > color #1/N5 #F0E68C |
| 3584 | | |
| 3585 | | > color #1/O7 #FFD700 |
| 3586 | | |
| 3587 | | > color #1/L2 #FF8C00 |
| 3588 | | |
| 3589 | | > color #1/L8 #FF4500 |
| 3590 | | |
| 3591 | | > color #1/MS #00FF00 |
| 3592 | | |
| 3593 | | > color #1/1:85-104 #008080 surfaces |
| 3594 | | |
| 3595 | | > color #1/1:1153-1166 #AFEEEE surfaces |
| 3596 | | |
| 3597 | | > color #1/1:1365-1370 #00BFFF surfaces |
| 3598 | | |
| 3599 | | > color #1/1:1187-1194, 1360-1366 #4169E1 surfaces |
| 3600 | | |
| 3601 | | > color #1/1:1540-1544 #7B68EE surfaces |
| 3602 | | |
| 3603 | | > show #1/1:85-104, 1163-1167, 1153-1164, 1365-1370, 1187-1194, 1540-1544 |
| 3604 | | > surfaces |
| 3605 | | |
| 3606 | | > surface #1 &~ #1/N5/O7/L8/L2/MS resolution 8 |
| 3607 | | |
| 3608 | | 72 Gaussian surfaces, threshold level 0.073 - 0.105 |
| 3609 | | |
| 3610 | | > show #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 surfaces |
| 3611 | | |
| 3612 | | > show #2/LXX/LX0/LJJ/LG0/LA0 cartoons |
| 3613 | | |
| 3614 | | > color #2&~#2/LXX/LX0/LJJ/LG0/LA0/L50:80-105, 1191-1206, 1228-1236,1359-1367, |
| 3615 | | > 1188-1191,1368-1371, 1542-1545 white surfaces |
| 3616 | | |
| 3617 | | > color #2/LX0 #F0E68C |
| 3618 | | |
| 3619 | | > color #2/LJJ #FF8C00 |
| 3620 | | |
| 3621 | | > color #2/LA0 #FFD700 |
| 3622 | | |
| 3623 | | > color #2/LG0 #FF4500 |
| 3624 | | |
| 3625 | | > color #2/LXX #00FA9A |
| 3626 | | |
| 3627 | | > color #2/L50:80-105 #008080 |
| 3628 | | |
| 3629 | | > color #2/L50:1191-1206 #AFEEEE |
| 3630 | | |
| 3631 | | > color #2/L50:1228-1236,1359-1367 #4169E1 |
| 3632 | | |
| 3633 | | > color #2/L50:1188-1191,1368-1371 #00BFFF |
| 3634 | | |
| 3635 | | > color #2/L50:1542-1545 #7B68EE |
| 3636 | | |
| 3637 | | > surface #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 resolution 8 |
| 3638 | | |
| 3639 | | 73 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 3640 | | |
| 3641 | | > show #3 &~ #3/LX0/LJJ/LA0/LG0 surfaces |
| 3642 | | |
| 3643 | | > show #3/LX0/LJJ/LA0/LG0 cartoons |
| 3644 | | |
| 3645 | | > color #3 &~ #3/L50:95-113, 1233-1264, 1288-1294, 1463-1470, 1642-1647 |
| 3646 | | > #3/LX0/LJJ/LA0/LG0 white surfaces |
| 3647 | | |
| 3648 | | > color #3/LX0 #F0E68C |
| 3649 | | |
| 3650 | | > color #3/LJJ #FF8C00 |
| 3651 | | |
| 3652 | | > color #3/LA0 #FFD700 |
| 3653 | | |
| 3654 | | > color #3/LG0 #FF4500 |
| 3655 | | |
| 3656 | | > color #3/L50:95-113 #008080 |
| 3657 | | |
| 3658 | | > color #3/L50:1233-1264 #AFEEEE |
| 3659 | | |
| 3660 | | > color #3/L50:1288-1294, 1463-1470 #4169E1 |
| 3661 | | |
| 3662 | | > color #3/L50:1468-1473 #00BFFF |
| 3663 | | |
| 3664 | | > color #3/L50:1642-1647 #7B68EE |
| 3665 | | |
| 3666 | | > surface #3 &~ #3/LX0/LJJ/LA0/LG0 resolution 8 |
| 3667 | | |
| 3668 | | 70 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 3669 | | |
| 3670 | | > show #4 &~ #4/X/j/A/G surfaces |
| 3671 | | |
| 3672 | | > show #4/X/j/A/G cartoons |
| 3673 | | |
| 3674 | | > color #4/X #F0E68C |
| 3675 | | |
| 3676 | | > color #4/j #FFD700 |
| 3677 | | |
| 3678 | | > color #4/A #FF8C00 |
| 3679 | | |
| 3680 | | > color #4/G #FF4500 |
| 3681 | | |
| 3682 | | > color #4/8:108-139 #008080 |
| 3683 | | |
| 3684 | | > color #4/5:3-10/8:146-158 #191970 |
| 3685 | | |
| 3686 | | > color #4/5:1537-1584 #AFEEEE |
| 3687 | | |
| 3688 | | > color #4/5:2514-2595 #00BFFF |
| 3689 | | |
| 3690 | | > color #4/5:1615-1626, 1819-1829 #4169E1 |
| 3691 | | |
| 3692 | | > color #4/5:2158-2160 #7B68EE |
| 3693 | | |
| 3694 | | > color #4 &~ #4/8:108-139,146-158 #4/5:3-10,1537-1584,2514-2595,1615-1626, |
| 3695 | | > 1819-1829, 2158-2160 #4/X/j/A/G white surfaces |
| 3696 | | |
| 3697 | | > surface #4 &~ #4/X/j/A/G resolution 8 |
| 3698 | | |
| 3699 | | 45 Gaussian surfaces, threshold level 0.070 - 0.105 |
| 3700 | | |
| 3701 | | > lighting shadows true intensity 0.5 |
| 3702 | | |
| 3703 | | > lighting shadows false |
| 3704 | | |
| 3705 | | > cd /Users/ljs/Desktop/Figures/Figure1/1a |
| 3706 | | |
| 3707 | | Current working directory is: /Users/ljs/Desktop/Figures/Figure1/1a |
| 3708 | | |
| 3709 | | > view matrix camera |
| 3710 | | > -0.21148,0.78962,0.57599,497.47,-0.64221,-0.55651,0.52711,462.22,0.73676,-0.25844,0.6248,509.75 |
| 3711 | | |
| 3712 | | > hide #1 #2 #3 #4 target m |
| 3713 | | |
| 3714 | | > show #4 target m |
| 3715 | | |
| 3716 | | > save F1_Sace_2.png width 1000 height 1000 |
| 3717 | | |
| 3718 | | > hide #4 target m |
| 3719 | | |
| 3720 | | > show #3 target m |
| 3721 | | |
| 3722 | | > save F1_Palo_2.png width 1000 height 1000 |
| 3723 | | |
| 3724 | | > hide #3 target m |
| 3725 | | |
| 3726 | | > show #2 target m |
| 3727 | | |
| 3728 | | > save F1_Vane_2.png width 1000 height 1000 |
| 3729 | | |
| 3730 | | > hide #2 target m |
| 3731 | | |
| 3732 | | > show #1 target m |
| 3733 | | |
| 3734 | | > save F1_Encu_2.png width 1000 height 1000 |
| 3735 | | |
| 3736 | | > hide #1 target m |
| 3737 | | |
| 3738 | | > show #1 #2 #3 #4 target m |
| 3739 | | |
| 3740 | | > hide #!4 models |
| 3741 | | |
| 3742 | | > hide #!3 models |
| 3743 | | |
| 3744 | | > close session |
| 3745 | | |
| 3746 | | > cd /Users/ljs/Desktop/Figures/Structures |
| 3747 | | |
| 3748 | | Current working directory is: /Users/ljs/Desktop/Figures/Structures |
| 3749 | | |
| 3750 | | > open Rib_Encu.cif |
| 3751 | | |
| 3752 | | Rib_Encu.cif title: |
| 3753 | | Cryo-EM structure of the ribosome from Encephalitozoon cuniculi [more info...] |
| 3754 | | |
| 3755 | | Chain information for Rib_Encu.cif #1 |
| 3756 | | --- |
| 3757 | | Chain | Description | UniProt |
| 3758 | | 1 | 5.8S-23S ribosomal RNA | |
| 3759 | | 2 | 5S ribosomal RNA | |
| 3760 | | 3 | 18S ribosomal RNA | |
| 3761 | | C0 | 40S ribosomal protein S10 | Q8SS17_ENCCU |
| 3762 | | C1 | 40S ribosomal protein S11 | Q8SS53_ENCCU |
| 3763 | | C2 | 40S ribosomal protein S12 | Q8SSK9_ENCCU |
| 3764 | | C3 | 40S ribosomal protein S13 | RS13_ENCCU |
| 3765 | | C4 | 40S ribosomal protein S14 | RS14_ENCCU |
| 3766 | | C5 | ribosomal protein S15 | Q8SRE7_ENCCU |
| 3767 | | C6 | 40S ribosomal protein S16 | Q8SSC2_ENCCU |
| 3768 | | C7 | 40S ribosomal protein S17 | RS17_ENCCU |
| 3769 | | C8 | 40S ribosomal protein S18 | RS18_ENCCU |
| 3770 | | C9 | 40S ribosomal protein S19 | RS19_ENCCU |
| 3771 | | D0 | 40S ribosomal protein S20 | Q8SQX6_ENCCU |
| 3772 | | D1 | ECU11_0225 protein | I7L8M6_ENCCU |
| 3773 | | D2 | 40S RIBOSOMAL PROTEIN S15A (S22 in yeast) | Q8SQL9_ENCCU |
| 3774 | | D3 | 40S ribosomal protein S23 | RS23_ENCCU |
| 3775 | | D4 | 40S ribosomal protein S24 | Q8SR06_ENCCU |
| 3776 | | D5 | 40S ribosomal protein S25 | RS25_ENCCU |
| 3777 | | D6 | 40S ribosomal protein S26 | RS26_ENCCU |
| 3778 | | D7 | 40S ribosomal protein S27 | Q8SS34_ENCCU |
| 3779 | | D8 | 40S ribosomal protein S28 | Q8SQM2_ENCCU |
| 3780 | | D9 | 40S ribosomal protein S29 | |
| 3781 | | E1 | Similarity to monoubiquitin/carboxy-extension protein fusion | |
| 3782 | | Q8SWB3_ENCCU |
| 3783 | | L1 | 60S ribosomal protein L1 | RL1_ENCCU |
| 3784 | | L2 | 60S ribosomal protein L8 | RL8_ENCCU |
| 3785 | | L3 | 60S ribosomal protein L3 | RL3_ENCCU |
| 3786 | | L4 | 60S ribosomal protein L4 | Q8SRC2_ENCCU |
| 3787 | | L5 | 60S ribosomal protein L5 | Q8SRQ3_ENCCU |
| 3788 | | L6 | 60S ribosomal protein L6 | Q8SR91_ENCCU |
| 3789 | | L7 | 60S ribosomal protein L7 | RL7_ENCCU |
| 3790 | | L8 | 60S ribosomal protein L7a | RL7A_ENCCU |
| 3791 | | L9 | 60S ribosomal protein L9 | Q8SSF7_ENCCU |
| 3792 | | M0 | 60S ribosomal protein L10 | RL10_ENCCU |
| 3793 | | M1 | 60S ribosomal protein L11 | RL11_ENCCU |
| 3794 | | M3 | 60S ribosomal protein L13 | Q8SSC1_ENCCU |
| 3795 | | M4 | ECU06_1215 protein | I7L8J2_ENCCU |
| 3796 | | M5 | Ribosomal protein L15 | Q8SQU2_ENCCU |
| 3797 | | M6 | 60S ribosomal protein L13A (L16) | Q8SS16_ENCCU |
| 3798 | | M7 | 60S ribosomal protein L17 | Q8SRH7_ENCCU |
| 3799 | | M8 | 60S ribosomal protein L18 | Q8SS76_ENCCU |
| 3800 | | M9 | 60S ribosomal protein L19 | Q8SRP5_ENCCU |
| 3801 | | MD | Uncharacterized protein ECU01_0250 | Y125_ENCCU |
| 3802 | | MS | ECU06_1135 protein | I7IV41_ENCCU |
| 3803 | | N0 | 60S ribosomal protein L20 | Q8SRD7_ENCCU |
| 3804 | | N1 | 60S ribosomal protein L21 | RL21_ENCCU |
| 3805 | | N2 | 60S ribosomal protein L22 | RL22_ENCCU |
| 3806 | | N3 | 60S ribosomal protein L23 | RL23_ENCCU |
| 3807 | | N4 | Similarity to 60S RIBOSOMAL PROTEIN L24 | Q8SUZ9_ENCCU |
| 3808 | | N5 | 60S ribosomal protein L23A | Q8SR87_ENCCU |
| 3809 | | N6 | 60S ribosomal protein L26 | Q8SRE6_ENCCU |
| 3810 | | N7 | 60S ribosomal protein L27 | Q8SS64_ENCCU |
| 3811 | | N8 | 60S ribosomal protein L27a | RL27A_ENCCU |
| 3812 | | N9 | 60S ribosomal protein L29 | I7JTZ6_ENCCU |
| 3813 | | O0 | 60S ribosomal protein L30 | Q8SRU1_ENCCU |
| 3814 | | O1 | 60S ribosomal protein L31 | RL31_ENCCU |
| 3815 | | O2 | 60S ribosomal protein L32 | RL32_ENCCU |
| 3816 | | O3 | 60S ribosomal protein L35A (L33) | Q8SSF3_ENCCU |
| 3817 | | O4 | 60S ribosomal protein L34 | RL34_ENCCU |
| 3818 | | O5 | 60S ribosomal protein L35-1 | RL351_ENCCU |
| 3819 | | O6 | 60S ribosomal protein L36 | RL36_ENCCU |
| 3820 | | O7 | 60S ribosomal protein L37 | RL37_ENCCU |
| 3821 | | O9 | 60S ribosomal protein L39 | RL39_ENCCU |
| 3822 | | P0 | ubiquitin/ L40 ribosomal protein fusion | Q8SRH8_ENCCU |
| 3823 | | P2 | 60S ribosomal protein L44 | RL44_ENCCU |
| 3824 | | P3 | 60S ribosomal protein L37A (L43) | Q8SRJ2_ENCCU |
| 3825 | | RA | Guanine nucleotide binding protein β subunit | M1K775_ENCCN |
| 3826 | | S0 | 40S ribosomal protein S0 | RSSA_ENCCU |
| 3827 | | S1 | 40S ribosomal protein S1 | RS3A_ENCCU |
| 3828 | | S2 | 40S ribosomal protein S2 | Q8SRG6_ENCCU |
| 3829 | | S3 | 40S ribosomal protein S3 | RS3_ENCCU |
| 3830 | | S4 | 40S ribosomal protein S4 | RS4_ENCCU |
| 3831 | | S5 | 40S ribosomal protein S5 | RS5_ENCCU |
| 3832 | | S6 | 40S ribosomal protein S6 | RS6_ENCCU |
| 3833 | | S7 | 40S ribosomal protein S7 | RS7_ENCCU |
| 3834 | | S8 | 40S ribosomal protein S8 | Q8SWC9_ENCCU |
| 3835 | | S9 | 40S ribosomal protein S9 | RS9_ENCCU |
| 3836 | | |
| 3837 | | Non-standard residues in Rib_Encu.cif #1 |
| 3838 | | --- |
| 3839 | | AMP — adenosine monophosphate |
| 3840 | | SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34)) |
| 3841 | | ZN — zinc ion |
| 3842 | | |
| 3843 | | |
| 3844 | | > open Rib_Vnec.cif |
| 3845 | | |
| 3846 | | Rib_Vnec.cif title: |
| 3847 | | Evolutionary compaction and adaptation visualized by the structure of the |
| 3848 | | dormant microsporidian ribosome [more info...] |
| 3849 | | |
| 3850 | | Chain information for Rib_Vnec.cif #2 |
| 3851 | | --- |
| 3852 | | Chain | Description |
| 3853 | | L50 | 23S rRNA |
| 3854 | | L70 | 5S rRNA |
| 3855 | | LA0 | uL2 |
| 3856 | | LAA | uL15 |
| 3857 | | LB0 | uL3 |
| 3858 | | LBB | eL29 |
| 3859 | | LC0 | uL4 |
| 3860 | | LCC | eL30 |
| 3861 | | LD0 | uL18 |
| 3862 | | LDD | eL31 |
| 3863 | | LE0 | eL6 |
| 3864 | | LEE | eL32 |
| 3865 | | LF0 | uL30 |
| 3866 | | LFF | eL33 |
| 3867 | | LG0 | eL8 |
| 3868 | | LGG | eL34 |
| 3869 | | LH0 | uL6 |
| 3870 | | LHH | uL29 |
| 3871 | | LI0 | uL16 |
| 3872 | | LII | eL36 |
| 3873 | | LJ0 | uL5 |
| 3874 | | LJJ | eL37 |
| 3875 | | LL0 | eL13 |
| 3876 | | LLL | eL39 |
| 3877 | | LM0 | eL14 |
| 3878 | | LMM | eL40 |
| 3879 | | LN0 | eL15 |
| 3880 | | LNN | MDF2 |
| 3881 | | LO0 | uL13 |
| 3882 | | LOO | eL42 |
| 3883 | | LP0 | uL22 |
| 3884 | | LPP | eL43 |
| 3885 | | LQ0 | eL18 |
| 3886 | | LR0 | eL19 |
| 3887 | | LS0 | eL20 |
| 3888 | | LT0 | eL21 |
| 3889 | | LU0 | eL22 |
| 3890 | | LV0 | uL14 |
| 3891 | | LW0 | eL24 |
| 3892 | | LX0 | uL23 |
| 3893 | | LXX | msL1 |
| 3894 | | LY0 | uL24 |
| 3895 | | LZ0 | eL27 |
| 3896 | | S60 | 16S rRNA |
| 3897 | | SA0 | uS2 |
| 3898 | | SAA | eS26 |
| 3899 | | SB0 | eS1 |
| 3900 | | SBB | eS27 |
| 3901 | | SC0 | uS5 |
| 3902 | | SCC | eS28 |
| 3903 | | SD0 | uS3 |
| 3904 | | SDD | uS14 |
| 3905 | | SE0 | eS4 |
| 3906 | | SEE | eS30 |
| 3907 | | SF0 | uS7 |
| 3908 | | SFF | eS31 |
| 3909 | | SG0 | eS6 |
| 3910 | | SGG | RACK1 |
| 3911 | | SH0 | eS7 |
| 3912 | | SI0 | eS8 |
| 3913 | | SJ0 | uS4 |
| 3914 | | SK0 | eS10 |
| 3915 | | SL0 | uS17 |
| 3916 | | SM0 | eS12 |
| 3917 | | SN0 | uS15 |
| 3918 | | SNN | MDF1 |
| 3919 | | SO0 | uS11 |
| 3920 | | SP0 | uS19 |
| 3921 | | SQ0 | uS9 |
| 3922 | | SR0 | eS17 |
| 3923 | | SS0 | uS13 |
| 3924 | | ST0 | eS19 |
| 3925 | | SU0 | uS10 |
| 3926 | | SV0 | eS21 |
| 3927 | | SW0 | uS8 |
| 3928 | | SX0 | uS12 |
| 3929 | | SY0 | eS24 |
| 3930 | | SZ0 | eS25 |
| 3931 | | |
| 3932 | | Non-standard residues in Rib_Vnec.cif #2 |
| 3933 | | --- |
| 3934 | | MG — magnesium ion |
| 3935 | | ZN — zinc ion |
| 3936 | | |
| 3937 | | |
| 3938 | | > open Rib_Palo.cif |
| 3939 | | |
| 3940 | | Rib_Palo.cif title: |
| 3941 | | Structure of the Paranosema locustae ribosome in complex with Lso2 [more |
| 3942 | | info...] |
| 3943 | | |
| 3944 | | Chain information for Rib_Palo.cif #3 |
| 3945 | | --- |
| 3946 | | Chain | Description |
| 3947 | | L50 | 25S rRNA |
| 3948 | | L70 | 5S rRNA |
| 3949 | | LA0 | uL2 |
| 3950 | | LAA | uL15 |
| 3951 | | LB0 | uL3 |
| 3952 | | LBB | eL29 |
| 3953 | | LC0 | uL4 |
| 3954 | | LCC | eL30 |
| 3955 | | LD0 | uL18 |
| 3956 | | LDD | eL31 |
| 3957 | | LE0 | eL6 |
| 3958 | | LEE | eL32 |
| 3959 | | LF0 | uL30 |
| 3960 | | LFF | eL33 |
| 3961 | | LG0 | eL8 |
| 3962 | | LGG | eL34 |
| 3963 | | LH0 | uL6 |
| 3964 | | LHH | uL29 |
| 3965 | | LI0 | uL16 |
| 3966 | | LII | eL36 |
| 3967 | | LJ0 | uL5 |
| 3968 | | LJJ | eL37 |
| 3969 | | LL0 | eL13 |
| 3970 | | LLL | eL39 |
| 3971 | | LM0 | eL14 |
| 3972 | | LMM | eL40 |
| 3973 | | LN0 | eL15 |
| 3974 | | LNN | Lso2 |
| 3975 | | LO0 | uL13 |
| 3976 | | LOO | eL42 |
| 3977 | | LP0 | uL22 |
| 3978 | | LPP | eL43 |
| 3979 | | LQ0 | eL18 |
| 3980 | | LR0 | eL19 |
| 3981 | | LS0 | eL20 |
| 3982 | | LT0 | eL21 |
| 3983 | | LU0 | eL22 |
| 3984 | | LV0 | uL14 |
| 3985 | | LW0 | eL24 |
| 3986 | | LX0 | uL23 |
| 3987 | | LY0 | uL24 |
| 3988 | | LZ0 | eL27 |
| 3989 | | S60 | 18S rRNA |
| 3990 | | SA0 | uS2 |
| 3991 | | SAA | eS26 |
| 3992 | | SB0 | eS1 |
| 3993 | | SBB | eS27 |
| 3994 | | SC0 | uS5 |
| 3995 | | SCC | eS28 |
| 3996 | | SD0 | uS3 |
| 3997 | | SDD | uS14 |
| 3998 | | SE0 | eS4 |
| 3999 | | SEE | eS30 |
| 4000 | | SF0 | uS7 |
| 4001 | | SG0 | eS6 |
| 4002 | | SGG | RACK1 |
| 4003 | | SH0 | eS7 |
| 4004 | | SI0 | eS8 |
| 4005 | | SJ0 | uS4 |
| 4006 | | SK0 | eS10 |
| 4007 | | SL0 | uS17 |
| 4008 | | SN0 | uS15 |
| 4009 | | SO0 | uS11 |
| 4010 | | SP0 | uS19 |
| 4011 | | SQ0 | uS9 |
| 4012 | | SR0 | eS17 |
| 4013 | | SS0 | uS13 |
| 4014 | | ST0 | eS19 |
| 4015 | | SU0 | uS10 |
| 4016 | | SV0 | eS21 |
| 4017 | | SW0 | uS8 |
| 4018 | | SX0 | uS12 |
| 4019 | | SY0 | eS24 |
| 4020 | | SZ0 | eS25 |
| 4021 | | |
| 4022 | | Non-standard residues in Rib_Palo.cif #3 |
| 4023 | | --- |
| 4024 | | AMP — adenosine monophosphate |
| 4025 | | MG — magnesium ion |
| 4026 | | ZN — zinc ion |
| 4027 | | |
| 4028 | | |
| 4029 | | > open Sc_v2.pdb |
| 4030 | | |
| 4031 | | Summary of feedback from opening Sc_v2.pdb |
| 4032 | | --- |
| 4033 | | warnings | Duplicate atom serial number found: 99999 |
| 4034 | | Duplicate atom serial number found: 99999 |
| 4035 | | Duplicate atom serial number found: 99999 |
| 4036 | | Duplicate atom serial number found: 99999 |
| 4037 | | Duplicate atom serial number found: 99999 |
| 4038 | | 623 messages similar to the above omitted |
| 4039 | | Ignored bad PDB record found on line 97590 |
| 4040 | | TER 100628 ALA h 120 |
| 4041 | | |
| 4042 | | Duplicate atom serial number found: 99999 |
| 4043 | | Duplicate atom serial number found: 99999 |
| 4044 | | Duplicate atom serial number found: 99999 |
| 4045 | | Duplicate atom serial number found: 99999 |
| 4046 | | Duplicate atom serial number found: 99999 |
| 4047 | | 834 messages similar to the above omitted |
| 4048 | | Ignored bad PDB record found on line 98430 |
| 4049 | | TER 101468 LEU I 103 |
| 4050 | | |
| 4051 | | Duplicate atom serial number found: 99999 |
| 4052 | | Duplicate atom serial number found: 99999 |
| 4053 | | Duplicate atom serial number found: 99999 |
| 4054 | | Duplicate atom serial number found: 99999 |
| 4055 | | Duplicate atom serial number found: 99999 |
| 4056 | | 878 messages similar to the above omitted |
| 4057 | | Ignored bad PDB record found on line 99314 |
| 4058 | | TER 102352 ALA I 221 |
| 4059 | | |
| 4060 | | Duplicate atom serial number found: 99999 |
| 4061 | | Duplicate atom serial number found: 99999 |
| 4062 | | Duplicate atom serial number found: 99999 |
| 4063 | | Duplicate atom serial number found: 99999 |
| 4064 | | Duplicate atom serial number found: 99999 |
| 4065 | | 765 messages similar to the above omitted |
| 4066 | | Ignored bad PDB record found on line 100085 |
| 4067 | | TER 103123 HIS i 100 |
| 4068 | | |
| 4069 | | Duplicate atom serial number found: 99999 |
| 4070 | | Duplicate atom serial number found: 99999 |
| 4071 | | Duplicate atom serial number found: 99999 |
| 4072 | | Duplicate atom serial number found: 99999 |
| 4073 | | Duplicate atom serial number found: 99999 |
| 4074 | | 1348 messages similar to the above omitted |
| 4075 | | Ignored bad PDB record found on line 101439 |
| 4076 | | TER 104477 LYS J 174 |
| 4077 | | |
| 4078 | | Duplicate atom serial number found: 99999 |
| 4079 | | Duplicate atom serial number found: 99999 |
| 4080 | | Duplicate atom serial number found: 99999 |
| 4081 | | Duplicate atom serial number found: 99999 |
| 4082 | | Duplicate atom serial number found: 99999 |
| 4083 | | 676 messages similar to the above omitted |
| 4084 | | Ignored bad PDB record found on line 102121 |
| 4085 | | TER 105159 ALA j 88 |
| 4086 | | |
| 4087 | | Duplicate atom serial number found: 99999 |
| 4088 | | Duplicate atom serial number found: 99999 |
| 4089 | | Duplicate atom serial number found: 99999 |
| 4090 | | Duplicate atom serial number found: 99999 |
| 4091 | | Duplicate atom serial number found: 99999 |
| 4092 | | 71 messages similar to the above omitted |
| 4093 | | Ignored bad PDB record found on line 102198 |
| 4094 | | TER 105236 UNK K 23 |
| 4095 | | |
| 4096 | | Duplicate atom serial number found: 99999 |
| 4097 | | Duplicate atom serial number found: 99999 |
| 4098 | | Duplicate atom serial number found: 99999 |
| 4099 | | Duplicate atom serial number found: 99999 |
| 4100 | | Duplicate atom serial number found: 99999 |
| 4101 | | 120 messages similar to the above omitted |
| 4102 | | Ignored bad PDB record found on line 102324 |
| 4103 | | TER 105362 UNK K 52 |
| 4104 | | |
| 4105 | | Duplicate atom serial number found: 99999 |
| 4106 | | Duplicate atom serial number found: 99999 |
| 4107 | | Duplicate atom serial number found: 99999 |
| 4108 | | Duplicate atom serial number found: 99999 |
| 4109 | | Duplicate atom serial number found: 99999 |
| 4110 | | 545 messages similar to the above omitted |
| 4111 | | Ignored bad PDB record found on line 102875 |
| 4112 | | TER 105913 UNK K 163 |
| 4113 | | |
| 4114 | | Duplicate atom serial number found: 99999 |
| 4115 | | Duplicate atom serial number found: 99999 |
| 4116 | | Duplicate atom serial number found: 99999 |
| 4117 | | Duplicate atom serial number found: 99999 |
| 4118 | | Duplicate atom serial number found: 99999 |
| 4119 | | 603 messages similar to the above omitted |
| 4120 | | Ignored bad PDB record found on line 103484 |
| 4121 | | TER 106522 LEU k 78 |
| 4122 | | |
| 4123 | | Duplicate atom serial number found: 99999 |
| 4124 | | Duplicate atom serial number found: 99999 |
| 4125 | | Duplicate atom serial number found: 99999 |
| 4126 | | Duplicate atom serial number found: 99999 |
| 4127 | | Duplicate atom serial number found: 99999 |
| 4128 | | 1543 messages similar to the above omitted |
| 4129 | | Ignored bad PDB record found on line 105033 |
| 4130 | | TER 108071 ALA L 195 |
| 4131 | | |
| 4132 | | Duplicate atom serial number found: 99999 |
| 4133 | | Duplicate atom serial number found: 99999 |
| 4134 | | Duplicate atom serial number found: 99999 |
| 4135 | | Duplicate atom serial number found: 99999 |
| 4136 | | Duplicate atom serial number found: 99999 |
| 4137 | | 431 messages similar to the above omitted |
| 4138 | | Ignored bad PDB record found on line 105470 |
| 4139 | | TER 108508 ILE l 51 |
| 4140 | | |
| 4141 | | Duplicate atom serial number found: 99999 |
| 4142 | | Duplicate atom serial number found: 99999 |
| 4143 | | Duplicate atom serial number found: 99999 |
| 4144 | | Duplicate atom serial number found: 99999 |
| 4145 | | Duplicate atom serial number found: 99999 |
| 4146 | | 1054 messages similar to the above omitted |
| 4147 | | Ignored bad PDB record found on line 106530 |
| 4148 | | TER 109568 ALA M 138 |
| 4149 | | |
| 4150 | | Duplicate atom serial number found: 99999 |
| 4151 | | Duplicate atom serial number found: 99999 |
| 4152 | | Duplicate atom serial number found: 99999 |
| 4153 | | Duplicate atom serial number found: 99999 |
| 4154 | | Duplicate atom serial number found: 99999 |
| 4155 | | 412 messages similar to the above omitted |
| 4156 | | Ignored bad PDB record found on line 106948 |
| 4157 | | TER 109986 LYS m 128 |
| 4158 | | |
| 4159 | | Duplicate atom serial number found: 99999 |
| 4160 | | Duplicate atom serial number found: 99999 |
| 4161 | | Duplicate atom serial number found: 99999 |
| 4162 | | Duplicate atom serial number found: 99999 |
| 4163 | | Duplicate atom serial number found: 99999 |
| 4164 | | 1716 messages similar to the above omitted |
| 4165 | | Ignored bad PDB record found on line 108670 |
| 4166 | | TER 111708 LYS N 204 |
| 4167 | | |
| 4168 | | Duplicate atom serial number found: 99999 |
| 4169 | | Duplicate atom serial number found: 99999 |
| 4170 | | Duplicate atom serial number found: 99999 |
| 4171 | | Duplicate atom serial number found: 99999 |
| 4172 | | Duplicate atom serial number found: 99999 |
| 4173 | | 228 messages similar to the above omitted |
| 4174 | | Ignored bad PDB record found on line 108904 |
| 4175 | | TER 111942 LYS n 25 |
| 4176 | | |
| 4177 | | Duplicate atom serial number found: 99999 |
| 4178 | | Duplicate atom serial number found: 99999 |
| 4179 | | Duplicate atom serial number found: 99999 |
| 4180 | | Duplicate atom serial number found: 99999 |
| 4181 | | Duplicate atom serial number found: 99999 |
| 4182 | | 3114 messages similar to the above omitted |
| 4183 | | Ignored bad PDB record found on line 112024 |
| 4184 | | TER 115062 TYR O 199 |
| 4185 | | |
| 4186 | | Duplicate atom serial number found: 99999 |
| 4187 | | Duplicate atom serial number found: 99999 |
| 4188 | | Duplicate atom serial number found: 99999 |
| 4189 | | Duplicate atom serial number found: 99999 |
| 4190 | | Duplicate atom serial number found: 99999 |
| 4191 | | 842 messages similar to the above omitted |
| 4192 | | Ignored bad PDB record found on line 112872 |
| 4193 | | TER 115910 PHE o 106 |
| 4194 | | |
| 4195 | | Duplicate atom serial number found: 99999 |
| 4196 | | Duplicate atom serial number found: 99999 |
| 4197 | | Duplicate atom serial number found: 99999 |
| 4198 | | Duplicate atom serial number found: 99999 |
| 4199 | | Duplicate atom serial number found: 99999 |
| 4200 | | 1223 messages similar to the above omitted |
| 4201 | | Ignored bad PDB record found on line 114101 |
| 4202 | | TER 117139 ALA P 156 |
| 4203 | | |
| 4204 | | Duplicate atom serial number found: 99999 |
| 4205 | | Duplicate atom serial number found: 99999 |
| 4206 | | Duplicate atom serial number found: 99999 |
| 4207 | | Duplicate atom serial number found: 99999 |
| 4208 | | Duplicate atom serial number found: 99999 |
| 4209 | | 689 messages similar to the above omitted |
| 4210 | | Ignored bad PDB record found on line 114796 |
| 4211 | | TER 117834 ALA p 92 |
| 4212 | | |
| 4213 | | Duplicate atom serial number found: 99999 |
| 4214 | | Duplicate atom serial number found: 99999 |
| 4215 | | Duplicate atom serial number found: 99999 |
| 4216 | | Duplicate atom serial number found: 99999 |
| 4217 | | Duplicate atom serial number found: 99999 |
| 4218 | | 1437 messages similar to the above omitted |
| 4219 | | Ignored bad PDB record found on line 116239 |
| 4220 | | TER 119277 VAL Q 186 |
| 4221 | | |
| 4222 | | Duplicate atom serial number found: 99999 |
| 4223 | | Duplicate atom serial number found: 99999 |
| 4224 | | Duplicate atom serial number found: 99999 |
| 4225 | | Duplicate atom serial number found: 99999 |
| 4226 | | Duplicate atom serial number found: 99999 |
| 4227 | | 842 messages similar to the above omitted |
| 4228 | | Ignored bad PDB record found on line 117087 |
| 4229 | | TER 120125 ALA q 107 |
| 4230 | | |
| 4231 | | Duplicate atom serial number found: 99999 |
| 4232 | | Duplicate atom serial number found: 99999 |
| 4233 | | Duplicate atom serial number found: 99999 |
| 4234 | | Duplicate atom serial number found: 99999 |
| 4235 | | Duplicate atom serial number found: 99999 |
| 4236 | | 225 messages similar to the above omitted |
| 4237 | | Ignored bad PDB record found on line 117318 |
| 4238 | | TER 120356 UNK q 221 |
| 4239 | | |
| 4240 | | Duplicate atom serial number found: 99999 |
| 4241 | | Duplicate atom serial number found: 99999 |
| 4242 | | Duplicate atom serial number found: 99999 |
| 4243 | | Duplicate atom serial number found: 99999 |
| 4244 | | Duplicate atom serial number found: 99999 |
| 4245 | | 1516 messages similar to the above omitted |
| 4246 | | Ignored bad PDB record found on line 118840 |
| 4247 | | TER 121878 ALA R 189 |
| 4248 | | |
| 4249 | | Duplicate atom serial number found: 99999 |
| 4250 | | Duplicate atom serial number found: 99999 |
| 4251 | | Duplicate atom serial number found: 99999 |
| 4252 | | Duplicate atom serial number found: 99999 |
| 4253 | | Duplicate atom serial number found: 99999 |
| 4254 | | 230 messages similar to the above omitted |
| 4255 | | Ignored bad PDB record found on line 119076 |
| 4256 | | TER 122114 UNK r 47 |
| 4257 | | |
| 4258 | | Duplicate atom serial number found: 99999 |
| 4259 | | Duplicate atom serial number found: 99999 |
| 4260 | | Duplicate atom serial number found: 99999 |
| 4261 | | Duplicate atom serial number found: 99999 |
| 4262 | | Duplicate atom serial number found: 99999 |
| 4263 | | 1440 messages similar to the above omitted |
| 4264 | | Ignored bad PDB record found on line 120522 |
| 4265 | | TER 123560 TYR S 172 |
| 4266 | | |
| 4267 | | Duplicate atom serial number found: 99999 |
| 4268 | | Duplicate atom serial number found: 99999 |
| 4269 | | Duplicate atom serial number found: 99999 |
| 4270 | | Duplicate atom serial number found: 99999 |
| 4271 | | Duplicate atom serial number found: 99999 |
| 4272 | | 225 messages similar to the above omitted |
| 4273 | | Ignored bad PDB record found on line 120753 |
| 4274 | | TER 123791 UNK s 46 |
| 4275 | | |
| 4276 | | Duplicate atom serial number found: 99999 |
| 4277 | | Duplicate atom serial number found: 99999 |
| 4278 | | Duplicate atom serial number found: 99999 |
| 4279 | | Duplicate atom serial number found: 99999 |
| 4280 | | Duplicate atom serial number found: 99999 |
| 4281 | | 1271 messages similar to the above omitted |
| 4282 | | Ignored bad PDB record found on line 122030 |
| 4283 | | TER 125068 ILE T 160 |
| 4284 | | |
| 4285 | | Duplicate atom serial number found: 99999 |
| 4286 | | Duplicate atom serial number found: 99999 |
| 4287 | | Duplicate atom serial number found: 99999 |
| 4288 | | Duplicate atom serial number found: 99999 |
| 4289 | | Duplicate atom serial number found: 99999 |
| 4290 | | 773 messages similar to the above omitted |
| 4291 | | Ignored bad PDB record found on line 122809 |
| 4292 | | TER 125847 TYR U 108 |
| 4293 | | |
| 4294 | | Duplicate atom serial number found: 99999 |
| 4295 | | Duplicate atom serial number found: 99999 |
| 4296 | | Duplicate atom serial number found: 99999 |
| 4297 | | Duplicate atom serial number found: 99999 |
| 4298 | | Duplicate atom serial number found: 99999 |
| 4299 | | 998 messages similar to the above omitted |
| 4300 | | Ignored bad PDB record found on line 123813 |
| 4301 | | TER 126851 VAL V 137 |
| 4302 | | |
| 4303 | | Duplicate atom serial number found: 99999 |
| 4304 | | Duplicate atom serial number found: 99999 |
| 4305 | | Duplicate atom serial number found: 99999 |
| 4306 | | Duplicate atom serial number found: 99999 |
| 4307 | | Duplicate atom serial number found: 99999 |
| 4308 | | 1033 messages similar to the above omitted |
| 4309 | | Ignored bad PDB record found on line 124852 |
| 4310 | | TER 127890 SER W 135 |
| 4311 | | |
| 4312 | | Duplicate atom serial number found: 99999 |
| 4313 | | Duplicate atom serial number found: 99999 |
| 4314 | | Duplicate atom serial number found: 99999 |
| 4315 | | Duplicate atom serial number found: 99999 |
| 4316 | | Duplicate atom serial number found: 99999 |
| 4317 | | 954 messages similar to the above omitted |
| 4318 | | Ignored bad PDB record found on line 125812 |
| 4319 | | TER 128850 ILE X 142 |
| 4320 | | |
| 4321 | | Duplicate atom serial number found: 99999 |
| 4322 | | Duplicate atom serial number found: 99999 |
| 4323 | | Duplicate atom serial number found: 99999 |
| 4324 | | Duplicate atom serial number found: 99999 |
| 4325 | | Duplicate atom serial number found: 99999 |
| 4326 | | 988 messages similar to the above omitted |
| 4327 | | Ignored bad PDB record found on line 126806 |
| 4328 | | TER 129844 GLU Y 127 |
| 4329 | | |
| 4330 | | Duplicate atom serial number found: 99999 |
| 4331 | | Duplicate atom serial number found: 99999 |
| 4332 | | Duplicate atom serial number found: 99999 |
| 4333 | | Duplicate atom serial number found: 99999 |
| 4334 | | Duplicate atom serial number found: 99999 |
| 4335 | | 1087 messages similar to the above omitted |
| 4336 | | Ignored bad PDB record found on line 127899 |
| 4337 | | TER 130937 PHE Z 136 |
| 4338 | | |
| 4339 | | Duplicate atom serial number found: 99999 |
| 4340 | | Duplicate atom serial number found: 99999 |
| 4341 | | Duplicate atom serial number found: 99999 |
| 4342 | | Duplicate atom serial number found: 99999 |
| 4343 | | Duplicate atom serial number found: 99999 |
| 4344 | | 2783 messages similar to the above omitted |
| 4345 | | Ignored bad PDB record found on line 130688 |
| 4346 | | TER 133726 U 6 132 |
| 4347 | | |
| 4348 | | Duplicate atom serial number found: 99999 |
| 4349 | | Duplicate atom serial number found: 99999 |
| 4350 | | Duplicate atom serial number found: 99999 |
| 4351 | | Duplicate atom serial number found: 99999 |
| 4352 | | Duplicate atom serial number found: 99999 |
| 4353 | | 11291 messages similar to the above omitted |
| 4354 | | Ignored bad PDB record found on line 141985 |
| 4355 | | TER 145023 N 6 670 |
| 4356 | | |
| 4357 | | Duplicate atom serial number found: 99999 |
| 4358 | | Duplicate atom serial number found: 99999 |
| 4359 | | Duplicate atom serial number found: 99999 |
| 4360 | | Duplicate atom serial number found: 99999 |
| 4361 | | Duplicate atom serial number found: 99999 |
| 4362 | | 25515 messages similar to the above omitted |
| 4363 | | Ignored bad PDB record found on line 167507 |
| 4364 | | TER 170545 PRO A 207 |
| 4365 | | |
| 4366 | | Duplicate atom serial number found: 99999 |
| 4367 | | Duplicate atom serial number found: 99999 |
| 4368 | | Duplicate atom serial number found: 99999 |
| 4369 | | Duplicate atom serial number found: 99999 |
| 4370 | | Duplicate atom serial number found: 99999 |
| 4371 | | 764 messages similar to the above omitted |
| 4372 | | Ignored bad PDB record found on line 168277 |
| 4373 | | TER 171315 PRO a 98 |
| 4374 | | |
| 4375 | | Duplicate atom serial number found: 99999 |
| 4376 | | Duplicate atom serial number found: 99999 |
| 4377 | | Duplicate atom serial number found: 99999 |
| 4378 | | Duplicate atom serial number found: 99999 |
| 4379 | | Duplicate atom serial number found: 99999 |
| 4380 | | 1718 messages similar to the above omitted |
| 4381 | | Ignored bad PDB record found on line 170001 |
| 4382 | | TER 173039 GLY B 235 |
| 4383 | | |
| 4384 | | Duplicate atom serial number found: 99999 |
| 4385 | | Duplicate atom serial number found: 99999 |
| 4386 | | Duplicate atom serial number found: 99999 |
| 4387 | | Duplicate atom serial number found: 99999 |
| 4388 | | Duplicate atom serial number found: 99999 |
| 4389 | | 605 messages similar to the above omitted |
| 4390 | | Ignored bad PDB record found on line 170612 |
| 4391 | | TER 173650 LYS b 82 |
| 4392 | | |
| 4393 | | Duplicate atom serial number found: 99999 |
| 4394 | | Duplicate atom serial number found: 99999 |
| 4395 | | Duplicate atom serial number found: 99999 |
| 4396 | | Duplicate atom serial number found: 99999 |
| 4397 | | Duplicate atom serial number found: 99999 |
| 4398 | | 1631 messages similar to the above omitted |
| 4399 | | Ignored bad PDB record found on line 172249 |
| 4400 | | TER 175287 GLN C 250 |
| 4401 | | |
| 4402 | | Duplicate atom serial number found: 99999 |
| 4403 | | Duplicate atom serial number found: 99999 |
| 4404 | | Duplicate atom serial number found: 99999 |
| 4405 | | Duplicate atom serial number found: 99999 |
| 4406 | | Duplicate atom serial number found: 99999 |
| 4407 | | 492 messages similar to the above omitted |
| 4408 | | Ignored bad PDB record found on line 172747 |
| 4409 | | TER 175785 ARG c 67 |
| 4410 | | |
| 4411 | | Duplicate atom serial number found: 99999 |
| 4412 | | Duplicate atom serial number found: 99999 |
| 4413 | | Duplicate atom serial number found: 99999 |
| 4414 | | Duplicate atom serial number found: 99999 |
| 4415 | | Duplicate atom serial number found: 99999 |
| 4416 | | 1729 messages similar to the above omitted |
| 4417 | | Ignored bad PDB record found on line 174482 |
| 4418 | | TER 177520 TYR D 225 |
| 4419 | | |
| 4420 | | Duplicate atom serial number found: 99999 |
| 4421 | | Duplicate atom serial number found: 99999 |
| 4422 | | Duplicate atom serial number found: 99999 |
| 4423 | | Duplicate atom serial number found: 99999 |
| 4424 | | Duplicate atom serial number found: 99999 |
| 4425 | | 437 messages similar to the above omitted |
| 4426 | | Ignored bad PDB record found on line 174925 |
| 4427 | | TER 177963 ARG d 56 |
| 4428 | | |
| 4429 | | Duplicate atom serial number found: 99999 |
| 4430 | | Duplicate atom serial number found: 99999 |
| 4431 | | Duplicate atom serial number found: 99999 |
| 4432 | | Duplicate atom serial number found: 99999 |
| 4433 | | Duplicate atom serial number found: 99999 |
| 4434 | | 2064 messages similar to the above omitted |
| 4435 | | Ignored bad PDB record found on line 176995 |
| 4436 | | TER 180033 LEU E 261 |
| 4437 | | |
| 4438 | | Duplicate atom serial number found: 99999 |
| 4439 | | Duplicate atom serial number found: 99999 |
| 4440 | | Duplicate atom serial number found: 99999 |
| 4441 | | Duplicate atom serial number found: 99999 |
| 4442 | | Duplicate atom serial number found: 99999 |
| 4443 | | 486 messages similar to the above omitted |
| 4444 | | Ignored bad PDB record found on line 177487 |
| 4445 | | TER 180525 GLN e 63 |
| 4446 | | |
| 4447 | | Duplicate atom serial number found: 99999 |
| 4448 | | Duplicate atom serial number found: 99999 |
| 4449 | | Duplicate atom serial number found: 99999 |
| 4450 | | Duplicate atom serial number found: 99999 |
| 4451 | | Duplicate atom serial number found: 99999 |
| 4452 | | 1604 messages similar to the above omitted |
| 4453 | | Ignored bad PDB record found on line 179097 |
| 4454 | | TER 182135 ARG F 225 |
| 4455 | | |
| 4456 | | Duplicate atom serial number found: 99999 |
| 4457 | | Duplicate atom serial number found: 99999 |
| 4458 | | Duplicate atom serial number found: 99999 |
| 4459 | | Duplicate atom serial number found: 99999 |
| 4460 | | Duplicate atom serial number found: 99999 |
| 4461 | | 539 messages similar to the above omitted |
| 4462 | | Ignored bad PDB record found on line 179642 |
| 4463 | | TER 182680 ALA f 152 |
| 4464 | | |
| 4465 | | Duplicate atom serial number found: 99999 |
| 4466 | | Duplicate atom serial number found: 99999 |
| 4467 | | Duplicate atom serial number found: 99999 |
| 4468 | | Duplicate atom serial number found: 99999 |
| 4469 | | Duplicate atom serial number found: 99999 |
| 4470 | | 1751 messages similar to the above omitted |
| 4471 | | Ignored bad PDB record found on line 181399 |
| 4472 | | TER 184437 GLU G 218 |
| 4473 | | |
| 4474 | | Duplicate atom serial number found: 99999 |
| 4475 | | Duplicate atom serial number found: 99999 |
| 4476 | | Duplicate atom serial number found: 99999 |
| 4477 | | Duplicate atom serial number found: 99999 |
| 4478 | | Duplicate atom serial number found: 99999 |
| 4479 | | 2437 messages similar to the above omitted |
| 4480 | | Ignored bad PDB record found on line 183842 |
| 4481 | | TER 186880 ASN g 319 |
| 4482 | | |
| 4483 | | Duplicate atom serial number found: 99999 |
| 4484 | | Duplicate atom serial number found: 99999 |
| 4485 | | Duplicate atom serial number found: 99999 |
| 4486 | | Duplicate atom serial number found: 99999 |
| 4487 | | Duplicate atom serial number found: 99999 |
| 4488 | | 1486 messages similar to the above omitted |
| 4489 | | Ignored bad PDB record found on line 185334 |
| 4490 | | TER 188372 SER H 187 |
| 4491 | | |
| 4492 | | Duplicate atom serial number found: 99999 |
| 4493 | | Duplicate atom serial number found: 99999 |
| 4494 | | Duplicate atom serial number found: 99999 |
| 4495 | | Duplicate atom serial number found: 99999 |
| 4496 | | Duplicate atom serial number found: 99999 |
| 4497 | | 972 messages similar to the above omitted |
| 4498 | | Ignored bad PDB record found on line 186312 |
| 4499 | | TER 189350 LYS I 123 |
| 4500 | | |
| 4501 | | Duplicate atom serial number found: 99999 |
| 4502 | | Duplicate atom serial number found: 99999 |
| 4503 | | Duplicate atom serial number found: 99999 |
| 4504 | | Duplicate atom serial number found: 99999 |
| 4505 | | Duplicate atom serial number found: 99999 |
| 4506 | | 507 messages similar to the above omitted |
| 4507 | | Ignored bad PDB record found on line 186825 |
| 4508 | | TER 189863 LYS I 200 |
| 4509 | | |
| 4510 | | Duplicate atom serial number found: 99999 |
| 4511 | | Duplicate atom serial number found: 99999 |
| 4512 | | Duplicate atom serial number found: 99999 |
| 4513 | | Duplicate atom serial number found: 99999 |
| 4514 | | Duplicate atom serial number found: 99999 |
| 4515 | | 1489 messages similar to the above omitted |
| 4516 | | Ignored bad PDB record found on line 188320 |
| 4517 | | TER 191358 GLU J 186 |
| 4518 | | |
| 4519 | | Duplicate atom serial number found: 99999 |
| 4520 | | Duplicate atom serial number found: 99999 |
| 4521 | | Duplicate atom serial number found: 99999 |
| 4522 | | Duplicate atom serial number found: 99999 |
| 4523 | | Duplicate atom serial number found: 99999 |
| 4524 | | 697 messages similar to the above omitted |
| 4525 | | Ignored bad PDB record found on line 189023 |
| 4526 | | TER 192061 GLU K 84 |
| 4527 | | |
| 4528 | | Duplicate atom serial number found: 99999 |
| 4529 | | Duplicate atom serial number found: 99999 |
| 4530 | | Duplicate atom serial number found: 99999 |
| 4531 | | Duplicate atom serial number found: 99999 |
| 4532 | | Duplicate atom serial number found: 99999 |
| 4533 | | 54 messages similar to the above omitted |
| 4534 | | Ignored bad PDB record found on line 189083 |
| 4535 | | TER 192121 THR K 98 |
| 4536 | | |
| 4537 | | Duplicate atom serial number found: 99999 |
| 4538 | | Duplicate atom serial number found: 99999 |
| 4539 | | Duplicate atom serial number found: 99999 |
| 4540 | | Duplicate atom serial number found: 99999 |
| 4541 | | Duplicate atom serial number found: 99999 |
| 4542 | | 1163 messages similar to the above omitted |
| 4543 | | Ignored bad PDB record found on line 190252 |
| 4544 | | TER 193290 GLY L 147 |
| 4545 | | |
| 4546 | | Duplicate atom serial number found: 99999 |
| 4547 | | Duplicate atom serial number found: 99999 |
| 4548 | | Duplicate atom serial number found: 99999 |
| 4549 | | Duplicate atom serial number found: 99999 |
| 4550 | | Duplicate atom serial number found: 99999 |
| 4551 | | 885 messages similar to the above omitted |
| 4552 | | Ignored bad PDB record found on line 191143 |
| 4553 | | TER 194181 GLN M 143 |
| 4554 | | |
| 4555 | | Duplicate atom serial number found: 99999 |
| 4556 | | Duplicate atom serial number found: 99999 |
| 4557 | | Duplicate atom serial number found: 99999 |
| 4558 | | Duplicate atom serial number found: 99999 |
| 4559 | | Duplicate atom serial number found: 99999 |
| 4560 | | 1187 messages similar to the above omitted |
| 4561 | | Ignored bad PDB record found on line 192336 |
| 4562 | | TER 195374 ASN N 151 |
| 4563 | | |
| 4564 | | Duplicate atom serial number found: 99999 |
| 4565 | | Duplicate atom serial number found: 99999 |
| 4566 | | Duplicate atom serial number found: 99999 |
| 4567 | | Duplicate atom serial number found: 99999 |
| 4568 | | Duplicate atom serial number found: 99999 |
| 4569 | | 944 messages similar to the above omitted |
| 4570 | | Ignored bad PDB record found on line 193286 |
| 4571 | | TER 196324 LEU O 137 |
| 4572 | | |
| 4573 | | Duplicate atom serial number found: 99999 |
| 4574 | | Duplicate atom serial number found: 99999 |
| 4575 | | Duplicate atom serial number found: 99999 |
| 4576 | | Duplicate atom serial number found: 99999 |
| 4577 | | Duplicate atom serial number found: 99999 |
| 4578 | | 1034 messages similar to the above omitted |
| 4579 | | Ignored bad PDB record found on line 194326 |
| 4580 | | TER 197364 PHE P 138 |
| 4581 | | |
| 4582 | | Duplicate atom serial number found: 99999 |
| 4583 | | Duplicate atom serial number found: 99999 |
| 4584 | | Duplicate atom serial number found: 99999 |
| 4585 | | Duplicate atom serial number found: 99999 |
| 4586 | | Duplicate atom serial number found: 99999 |
| 4587 | | 1106 messages similar to the above omitted |
| 4588 | | Ignored bad PDB record found on line 195438 |
| 4589 | | TER 198476 ARG Q 143 |
| 4590 | | |
| 4591 | | Duplicate atom serial number found: 99999 |
| 4592 | | Duplicate atom serial number found: 99999 |
| 4593 | | Duplicate atom serial number found: 99999 |
| 4594 | | Duplicate atom serial number found: 99999 |
| 4595 | | Duplicate atom serial number found: 99999 |
| 4596 | | 731 messages similar to the above omitted |
| 4597 | | Ignored bad PDB record found on line 196175 |
| 4598 | | TER 199213 ALA R 90 |
| 4599 | | |
| 4600 | | Duplicate atom serial number found: 99999 |
| 4601 | | Duplicate atom serial number found: 99999 |
| 4602 | | Duplicate atom serial number found: 99999 |
| 4603 | | Duplicate atom serial number found: 99999 |
| 4604 | | Duplicate atom serial number found: 99999 |
| 4605 | | 165 messages similar to the above omitted |
| 4606 | | Ignored bad PDB record found on line 196346 |
| 4607 | | TER 199384 ILE R 122 |
| 4608 | | |
| 4609 | | Duplicate atom serial number found: 99999 |
| 4610 | | Duplicate atom serial number found: 99999 |
| 4611 | | Duplicate atom serial number found: 99999 |
| 4612 | | Duplicate atom serial number found: 99999 |
| 4613 | | Duplicate atom serial number found: 99999 |
| 4614 | | 1187 messages similar to the above omitted |
| 4615 | | Ignored bad PDB record found on line 197539 |
| 4616 | | TER 200577 ALA S 146 |
| 4617 | | |
| 4618 | | Duplicate atom serial number found: 99999 |
| 4619 | | Duplicate atom serial number found: 99999 |
| 4620 | | Duplicate atom serial number found: 99999 |
| 4621 | | Duplicate atom serial number found: 99999 |
| 4622 | | Duplicate atom serial number found: 99999 |
| 4623 | | 1107 messages similar to the above omitted |
| 4624 | | Ignored bad PDB record found on line 198652 |
| 4625 | | TER 201690 GLU T 144 |
| 4626 | | |
| 4627 | | Duplicate atom serial number found: 99999 |
| 4628 | | Duplicate atom serial number found: 99999 |
| 4629 | | Duplicate atom serial number found: 99999 |
| 4630 | | Duplicate atom serial number found: 99999 |
| 4631 | | Duplicate atom serial number found: 99999 |
| 4632 | | 877 messages similar to the above omitted |
| 4633 | | Ignored bad PDB record found on line 199535 |
| 4634 | | TER 202573 ASN U 121 |
| 4635 | | |
| 4636 | | Duplicate atom serial number found: 99999 |
| 4637 | | Duplicate atom serial number found: 99999 |
| 4638 | | Duplicate atom serial number found: 99999 |
| 4639 | | Duplicate atom serial number found: 99999 |
| 4640 | | Duplicate atom serial number found: 99999 |
| 4641 | | 679 messages similar to the above omitted |
| 4642 | | Ignored bad PDB record found on line 200220 |
| 4643 | | TER 203258 ARG V 87 |
| 4644 | | |
| 4645 | | Duplicate atom serial number found: 99999 |
| 4646 | | Duplicate atom serial number found: 99999 |
| 4647 | | Duplicate atom serial number found: 99999 |
| 4648 | | Duplicate atom serial number found: 99999 |
| 4649 | | Duplicate atom serial number found: 99999 |
| 4650 | | 1016 messages similar to the above omitted |
| 4651 | | Ignored bad PDB record found on line 201242 |
| 4652 | | TER 204280 TYR W 130 |
| 4653 | | |
| 4654 | | Duplicate atom serial number found: 99999 |
| 4655 | | Duplicate atom serial number found: 99999 |
| 4656 | | Duplicate atom serial number found: 99999 |
| 4657 | | Duplicate atom serial number found: 99999 |
| 4658 | | Duplicate atom serial number found: 99999 |
| 4659 | | 1116 messages similar to the above omitted |
| 4660 | | Ignored bad PDB record found on line 202364 |
| 4661 | | TER 205402 SER X 145 |
| 4662 | | |
| 4663 | | Duplicate atom serial number found: 99999 |
| 4664 | | Duplicate atom serial number found: 99999 |
| 4665 | | Duplicate atom serial number found: 99999 |
| 4666 | | Duplicate atom serial number found: 99999 |
| 4667 | | Duplicate atom serial number found: 99999 |
| 4668 | | 1068 messages similar to the above omitted |
| 4669 | | Ignored bad PDB record found on line 203438 |
| 4670 | | TER 206476 ASP Y 135 |
| 4671 | | |
| 4672 | | Duplicate atom serial number found: 99999 |
| 4673 | | Duplicate atom serial number found: 99999 |
| 4674 | | Duplicate atom serial number found: 99999 |
| 4675 | | Duplicate atom serial number found: 99999 |
| 4676 | | Duplicate atom serial number found: 99999 |
| 4677 | | 553 messages similar to the above omitted |
| 4678 | | |
| 4679 | | Chain information for Sc_v2.pdb #4 |
| 4680 | | --- |
| 4681 | | Chain | Description |
| 4682 | | 5 | No description available |
| 4683 | | 6 | No description available |
| 4684 | | 7 | No description available |
| 4685 | | 8 | No description available |
| 4686 | | A | No description available |
| 4687 | | B | No description available |
| 4688 | | C | No description available |
| 4689 | | D | No description available |
| 4690 | | E | No description available |
| 4691 | | F | No description available |
| 4692 | | G | No description available |
| 4693 | | H | No description available |
| 4694 | | I | No description available |
| 4695 | | J | No description available |
| 4696 | | K | No description available |
| 4697 | | L | No description available |
| 4698 | | M | No description available |
| 4699 | | N | No description available |
| 4700 | | O | No description available |
| 4701 | | P | No description available |
| 4702 | | Q | No description available |
| 4703 | | R | No description available |
| 4704 | | S | No description available |
| 4705 | | T | No description available |
| 4706 | | U | No description available |
| 4707 | | V | No description available |
| 4708 | | W | No description available |
| 4709 | | X | No description available |
| 4710 | | Y | No description available |
| 4711 | | Z | No description available |
| 4712 | | a | No description available |
| 4713 | | b | No description available |
| 4714 | | c | No description available |
| 4715 | | d | No description available |
| 4716 | | e | No description available |
| 4717 | | f | No description available |
| 4718 | | g | No description available |
| 4719 | | h | No description available |
| 4720 | | i | No description available |
| 4721 | | j | No description available |
| 4722 | | k | No description available |
| 4723 | | l | No description available |
| 4724 | | m | No description available |
| 4725 | | n | No description available |
| 4726 | | o | No description available |
| 4727 | | p | No description available |
| 4728 | | q | No description available |
| 4729 | | r | No description available |
| 4730 | | s | No description available |
| 4731 | | |
| 4732 | | |
| 4733 | | > matchmaker #1 to #4 |
| 4734 | | |
| 4735 | | Parameters |
| 4736 | | --- |
| 4737 | | Chain pairing | bb |
| 4738 | | Alignment algorithm | Needleman-Wunsch |
| 4739 | | Similarity matrix | BLOSUM-62 |
| 4740 | | SS fraction | 0.3 |
| 4741 | | Gap open (HH/SS/other) | 18/18/6 |
| 4742 | | Gap extend | 1 |
| 4743 | | SS matrix | | | H | S | O |
| 4744 | | ---|---|---|--- |
| 4745 | | H | 6 | -9 | -6 |
| 4746 | | S | | 6 | -6 |
| 4747 | | O | | | 4 |
| 4748 | | Iteration cutoff | 2 |
| 4749 | | |
| 4750 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Encu.cif, chain L3 (#1), sequence |
| 4751 | | alignment score = 1068.1 |
| 4752 | | RMSD between 301 pruned atom pairs is 1.132 angstroms; (across all 361 pairs: |
| 4753 | | 2.358) |
| 4754 | | |
| 4755 | | |
| 4756 | | > matchmaker #2 to #4 |
| 4757 | | |
| 4758 | | Parameters |
| 4759 | | --- |
| 4760 | | Chain pairing | bb |
| 4761 | | Alignment algorithm | Needleman-Wunsch |
| 4762 | | Similarity matrix | BLOSUM-62 |
| 4763 | | SS fraction | 0.3 |
| 4764 | | Gap open (HH/SS/other) | 18/18/6 |
| 4765 | | Gap extend | 1 |
| 4766 | | SS matrix | | | H | S | O |
| 4767 | | ---|---|---|--- |
| 4768 | | H | 6 | -9 | -6 |
| 4769 | | S | | 6 | -6 |
| 4770 | | O | | | 4 |
| 4771 | | Iteration cutoff | 2 |
| 4772 | | |
| 4773 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Vnec.cif, chain LB0 (#2), sequence |
| 4774 | | alignment score = 1086.1 |
| 4775 | | RMSD between 252 pruned atom pairs is 1.274 angstroms; (across all 365 pairs: |
| 4776 | | 3.072) |
| 4777 | | |
| 4778 | | |
| 4779 | | > matchmaker #3 to #4 |
| 4780 | | |
| 4781 | | Parameters |
| 4782 | | --- |
| 4783 | | Chain pairing | bb |
| 4784 | | Alignment algorithm | Needleman-Wunsch |
| 4785 | | Similarity matrix | BLOSUM-62 |
| 4786 | | SS fraction | 0.3 |
| 4787 | | Gap open (HH/SS/other) | 18/18/6 |
| 4788 | | Gap extend | 1 |
| 4789 | | SS matrix | | | H | S | O |
| 4790 | | ---|---|---|--- |
| 4791 | | H | 6 | -9 | -6 |
| 4792 | | S | | 6 | -6 |
| 4793 | | O | | | 4 |
| 4794 | | Iteration cutoff | 2 |
| 4795 | | |
| 4796 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Palo.cif, chain LB0 (#3), sequence |
| 4797 | | alignment score = 1052.3 |
| 4798 | | RMSD between 336 pruned atom pairs is 0.844 angstroms; (across all 362 pairs: |
| 4799 | | 1.618) |
| 4800 | | |
| 4801 | | |
| 4802 | | > hide #1 #2 #3 #4 atoms |
| 4803 | | |
| 4804 | | > cartoon style modeHelix tube width 4 thickness 2 |
| 4805 | | |
| 4806 | | > set bgColor white |
| 4807 | | |
| 4808 | | > set silhouettes true |
| 4809 | | |
| 4810 | | > set silhouetteWidth 3.5 |
| 4811 | | |
| 4812 | | > lighting soft |
| 4813 | | |
| 4814 | | > lighting shadows false |
| 4815 | | |
| 4816 | | > lighting depthCueStart 0.3 |
| 4817 | | |
| 4818 | | > lighting depthCueEnd 0.7 |
| 4819 | | |
| 4820 | | > lighting ambientIntensity 0.8 |
| 4821 | | |
| 4822 | | > lighting fillIntensity 0.8 |
| 4823 | | |
| 4824 | | > show #1 &~ #1/N5/O7/L8/L2/MS surfaces |
| 4825 | | |
| 4826 | | > show #1/N5/O7/L8/L2/MS cartoons |
| 4827 | | |
| 4828 | | > color #1 &~ #1/N5/O7/L8/L2/MS/1:85-104, 1153-1166, 1365-1370, 1187-1194, |
| 4829 | | > 1360-1366, 1540-1544 white smoke |
| 4830 | | |
| 4831 | | > color #1/N5 #F0E68C |
| 4832 | | |
| 4833 | | > color #1/O7 #FFD700 |
| 4834 | | |
| 4835 | | > color #1/L2 #FF8C00 |
| 4836 | | |
| 4837 | | > color #1/L8 #FF4500 |
| 4838 | | |
| 4839 | | > color #1/MS #00FF00 |
| 4840 | | |
| 4841 | | > color #1/1:85-104 #008080 surfaces |
| 4842 | | |
| 4843 | | > color #1/1:1153-1166 #AFEEEE surfaces |
| 4844 | | |
| 4845 | | > color #1/1:1365-1370 #00BFFF surfaces |
| 4846 | | |
| 4847 | | > color #1/1:1187-1194, 1360-1366 #4169E1 surfaces |
| 4848 | | |
| 4849 | | > color #1/1:1540-1544 #7B68EE surfaces |
| 4850 | | |
| 4851 | | > show #1/1:85-104, 1163-1167, 1153-1164, 1365-1370, 1187-1194, 1540-1544 |
| 4852 | | > surfaces |
| 4853 | | |
| 4854 | | > surface #1 &~ #1/N5/O7/L8/L2/MS resolution 8 |
| 4855 | | |
| 4856 | | 72 Gaussian surfaces, threshold level 0.073 - 0.105 |
| 4857 | | |
| 4858 | | > show #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 surfaces |
| 4859 | | |
| 4860 | | > show #2/LXX/LX0/LJJ/LG0/LA0 cartoons |
| 4861 | | |
| 4862 | | > color #2&~#2/LXX/LX0/LJJ/LG0/LA0/L50:80-105, 1191-1206, 1228-1236,1359-1367, |
| 4863 | | > 1188-1191,1368-1371, 1542-1545 white surfaces |
| 4864 | | |
| 4865 | | > color #2/LX0 #F0E68C |
| 4866 | | |
| 4867 | | > color #2/LJJ #FFD700 |
| 4868 | | |
| 4869 | | > color #2/LA0 #FF8C00 |
| 4870 | | |
| 4871 | | > color #2/LG0 #FF4500 |
| 4872 | | |
| 4873 | | > color #2/LXX #00FA9A |
| 4874 | | |
| 4875 | | > color #2/L50:80-105 #008080 |
| 4876 | | |
| 4877 | | > color #2/L50:1191-1206 #AFEEEE |
| 4878 | | |
| 4879 | | > color #2/L50:1228-1236,1359-1367 #4169E1 |
| 4880 | | |
| 4881 | | > color #2/L50:1188-1191,1368-1371 #00BFFF |
| 4882 | | |
| 4883 | | > color #2/L50:1542-1545 #7B68EE |
| 4884 | | |
| 4885 | | > surface #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 resolution 8 |
| 4886 | | |
| 4887 | | 73 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 4888 | | |
| 4889 | | > show #3 &~ #3/LX0/LJJ/LA0/LG0 surfaces |
| 4890 | | |
| 4891 | | > show #3/LX0/LJJ/LA0/LG0 cartoons |
| 4892 | | |
| 4893 | | > color #3 &~ #3/L50:95-113, 1233-1264, 1288-1294, 1463-1470, 1642-1647 |
| 4894 | | > #3/LX0/LJJ/LA0/LG0 white surfaces |
| 4895 | | |
| 4896 | | > color #3/LX0 #F0E68C |
| 4897 | | |
| 4898 | | > color #3/LJJ #FFD700 |
| 4899 | | |
| 4900 | | > color #3/LA0 #FF8C00 |
| 4901 | | |
| 4902 | | > color #3/LG0 #FF4500 |
| 4903 | | |
| 4904 | | > color #3/L50:95-113 #008080 |
| 4905 | | |
| 4906 | | > color #3/L50:1233-1264 #AFEEEE |
| 4907 | | |
| 4908 | | > color #3/L50:1288-1294, 1463-1470 #4169E1 |
| 4909 | | |
| 4910 | | > color #3/L50:1468-1473 #00BFFF |
| 4911 | | |
| 4912 | | > color #3/L50:1642-1647 #7B68EE |
| 4913 | | |
| 4914 | | > surface #3 &~ #3/LX0/LJJ/LA0/LG0 resolution 8 |
| 4915 | | |
| 4916 | | 70 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 4917 | | |
| 4918 | | > show #4 &~ #4/X/j/A/G surfaces |
| 4919 | | |
| 4920 | | > show #4/X/j/A/G cartoons |
| 4921 | | |
| 4922 | | > color #4/X #F0E68C |
| 4923 | | |
| 4924 | | > color #4/j #FFD700 |
| 4925 | | |
| 4926 | | > color #4/A #FF8C00 |
| 4927 | | |
| 4928 | | > color #4/G #FF4500 |
| 4929 | | |
| 4930 | | > color #4/8:108-139 #008080 |
| 4931 | | |
| 4932 | | > color #4/5:3-10/8:146-158 #191970 |
| 4933 | | |
| 4934 | | > color #4/5:1537-1584 #AFEEEE |
| 4935 | | |
| 4936 | | > color #4/5:2514-2595 #00BFFF |
| 4937 | | |
| 4938 | | > color #4/5:1615-1626, 1819-1829 #4169E1 |
| 4939 | | |
| 4940 | | > color #4/5:2158-2160 #7B68EE |
| 4941 | | |
| 4942 | | > color #4 &~ #4/8:108-139,146-158 #4/5:3-10,1537-1584,2514-2595,1615-1626, |
| 4943 | | > 1819-1829, 2158-2160 #4/X/j/A/G white surfaces |
| 4944 | | |
| 4945 | | > surface #4 &~ #4/X/j/A/G resolution 8 |
| 4946 | | |
| 4947 | | 45 Gaussian surfaces, threshold level 0.070 - 0.105 |
| 4948 | | |
| 4949 | | > lighting shadows true intensity 0.5 |
| 4950 | | |
| 4951 | | > lighting shadows false |
| 4952 | | |
| 4953 | | > cd /Users/ljs/Desktop/Figures/Figure1/1a |
| 4954 | | |
| 4955 | | Current working directory is: /Users/ljs/Desktop/Figures/Figure1/1a |
| 4956 | | |
| 4957 | | > view matrix camera |
| 4958 | | > -0.21148,0.78962,0.57599,497.47,-0.64221,-0.55651,0.52711,462.22,0.73676,-0.25844,0.6248,509.75 |
| 4959 | | |
| 4960 | | > hide #1 #2 #3 #4 target m |
| 4961 | | |
| 4962 | | > show #4 target m |
| 4963 | | |
| 4964 | | > save F1_Sace_2.png width 1000 height 1000 |
| 4965 | | |
| 4966 | | > hide #4 target m |
| 4967 | | |
| 4968 | | > show #3 target m |
| 4969 | | |
| 4970 | | > save F1_Palo_2.png width 1000 height 1000 |
| 4971 | | |
| 4972 | | > hide #3 target m |
| 4973 | | |
| 4974 | | > show #2 target m |
| 4975 | | |
| 4976 | | > save F1_Vane_2.png width 1000 height 1000 |
| 4977 | | |
| 4978 | | > hide #2 target m |
| 4979 | | |
| 4980 | | > show #1 target m |
| 4981 | | |
| 4982 | | > save F1_Encu_2.png width 1000 height 1000 |
| 4983 | | |
| 4984 | | > hide #1 target m |
| 4985 | | |
| 4986 | | > close session |
| 4987 | | |
| 4988 | | > open "/Users/ljs/Desktop/Figure Pictures/Ribosomes.cxs" format session |
| 4989 | | |
| 4990 | | No such file/path: /Users/ljs/Desktop/Figure Pictures/Ribosomes.cxs |
| 4991 | | |
| 4992 | | > cd /Users/ljs/Desktop/Figures/Structures |
| 4993 | | |
| 4994 | | Current working directory is: /Users/ljs/Desktop/Figures/Structures |
| 4995 | | |
| 4996 | | > open Rib_Encu.cif |
| 4997 | | |
| 4998 | | Rib_Encu.cif title: |
| 4999 | | Cryo-EM structure of the ribosome from Encephalitozoon cuniculi [more info...] |
| 5000 | | |
| 5001 | | Chain information for Rib_Encu.cif #1 |
| 5002 | | --- |
| 5003 | | Chain | Description | UniProt |
| 5004 | | 1 | 5.8S-23S ribosomal RNA | |
| 5005 | | 2 | 5S ribosomal RNA | |
| 5006 | | 3 | 18S ribosomal RNA | |
| 5007 | | C0 | 40S ribosomal protein S10 | Q8SS17_ENCCU |
| 5008 | | C1 | 40S ribosomal protein S11 | Q8SS53_ENCCU |
| 5009 | | C2 | 40S ribosomal protein S12 | Q8SSK9_ENCCU |
| 5010 | | C3 | 40S ribosomal protein S13 | RS13_ENCCU |
| 5011 | | C4 | 40S ribosomal protein S14 | RS14_ENCCU |
| 5012 | | C5 | ribosomal protein S15 | Q8SRE7_ENCCU |
| 5013 | | C6 | 40S ribosomal protein S16 | Q8SSC2_ENCCU |
| 5014 | | C7 | 40S ribosomal protein S17 | RS17_ENCCU |
| 5015 | | C8 | 40S ribosomal protein S18 | RS18_ENCCU |
| 5016 | | C9 | 40S ribosomal protein S19 | RS19_ENCCU |
| 5017 | | D0 | 40S ribosomal protein S20 | Q8SQX6_ENCCU |
| 5018 | | D1 | ECU11_0225 protein | I7L8M6_ENCCU |
| 5019 | | D2 | 40S RIBOSOMAL PROTEIN S15A (S22 in yeast) | Q8SQL9_ENCCU |
| 5020 | | D3 | 40S ribosomal protein S23 | RS23_ENCCU |
| 5021 | | D4 | 40S ribosomal protein S24 | Q8SR06_ENCCU |
| 5022 | | D5 | 40S ribosomal protein S25 | RS25_ENCCU |
| 5023 | | D6 | 40S ribosomal protein S26 | RS26_ENCCU |
| 5024 | | D7 | 40S ribosomal protein S27 | Q8SS34_ENCCU |
| 5025 | | D8 | 40S ribosomal protein S28 | Q8SQM2_ENCCU |
| 5026 | | D9 | 40S ribosomal protein S29 | |
| 5027 | | E1 | Similarity to monoubiquitin/carboxy-extension protein fusion | |
| 5028 | | Q8SWB3_ENCCU |
| 5029 | | L1 | 60S ribosomal protein L1 | RL1_ENCCU |
| 5030 | | L2 | 60S ribosomal protein L8 | RL8_ENCCU |
| 5031 | | L3 | 60S ribosomal protein L3 | RL3_ENCCU |
| 5032 | | L4 | 60S ribosomal protein L4 | Q8SRC2_ENCCU |
| 5033 | | L5 | 60S ribosomal protein L5 | Q8SRQ3_ENCCU |
| 5034 | | L6 | 60S ribosomal protein L6 | Q8SR91_ENCCU |
| 5035 | | L7 | 60S ribosomal protein L7 | RL7_ENCCU |
| 5036 | | L8 | 60S ribosomal protein L7a | RL7A_ENCCU |
| 5037 | | L9 | 60S ribosomal protein L9 | Q8SSF7_ENCCU |
| 5038 | | M0 | 60S ribosomal protein L10 | RL10_ENCCU |
| 5039 | | M1 | 60S ribosomal protein L11 | RL11_ENCCU |
| 5040 | | M3 | 60S ribosomal protein L13 | Q8SSC1_ENCCU |
| 5041 | | M4 | ECU06_1215 protein | I7L8J2_ENCCU |
| 5042 | | M5 | Ribosomal protein L15 | Q8SQU2_ENCCU |
| 5043 | | M6 | 60S ribosomal protein L13A (L16) | Q8SS16_ENCCU |
| 5044 | | M7 | 60S ribosomal protein L17 | Q8SRH7_ENCCU |
| 5045 | | M8 | 60S ribosomal protein L18 | Q8SS76_ENCCU |
| 5046 | | M9 | 60S ribosomal protein L19 | Q8SRP5_ENCCU |
| 5047 | | MD | Uncharacterized protein ECU01_0250 | Y125_ENCCU |
| 5048 | | MS | ECU06_1135 protein | I7IV41_ENCCU |
| 5049 | | N0 | 60S ribosomal protein L20 | Q8SRD7_ENCCU |
| 5050 | | N1 | 60S ribosomal protein L21 | RL21_ENCCU |
| 5051 | | N2 | 60S ribosomal protein L22 | RL22_ENCCU |
| 5052 | | N3 | 60S ribosomal protein L23 | RL23_ENCCU |
| 5053 | | N4 | Similarity to 60S RIBOSOMAL PROTEIN L24 | Q8SUZ9_ENCCU |
| 5054 | | N5 | 60S ribosomal protein L23A | Q8SR87_ENCCU |
| 5055 | | N6 | 60S ribosomal protein L26 | Q8SRE6_ENCCU |
| 5056 | | N7 | 60S ribosomal protein L27 | Q8SS64_ENCCU |
| 5057 | | N8 | 60S ribosomal protein L27a | RL27A_ENCCU |
| 5058 | | N9 | 60S ribosomal protein L29 | I7JTZ6_ENCCU |
| 5059 | | O0 | 60S ribosomal protein L30 | Q8SRU1_ENCCU |
| 5060 | | O1 | 60S ribosomal protein L31 | RL31_ENCCU |
| 5061 | | O2 | 60S ribosomal protein L32 | RL32_ENCCU |
| 5062 | | O3 | 60S ribosomal protein L35A (L33) | Q8SSF3_ENCCU |
| 5063 | | O4 | 60S ribosomal protein L34 | RL34_ENCCU |
| 5064 | | O5 | 60S ribosomal protein L35-1 | RL351_ENCCU |
| 5065 | | O6 | 60S ribosomal protein L36 | RL36_ENCCU |
| 5066 | | O7 | 60S ribosomal protein L37 | RL37_ENCCU |
| 5067 | | O9 | 60S ribosomal protein L39 | RL39_ENCCU |
| 5068 | | P0 | ubiquitin/ L40 ribosomal protein fusion | Q8SRH8_ENCCU |
| 5069 | | P2 | 60S ribosomal protein L44 | RL44_ENCCU |
| 5070 | | P3 | 60S ribosomal protein L37A (L43) | Q8SRJ2_ENCCU |
| 5071 | | RA | Guanine nucleotide binding protein β subunit | M1K775_ENCCN |
| 5072 | | S0 | 40S ribosomal protein S0 | RSSA_ENCCU |
| 5073 | | S1 | 40S ribosomal protein S1 | RS3A_ENCCU |
| 5074 | | S2 | 40S ribosomal protein S2 | Q8SRG6_ENCCU |
| 5075 | | S3 | 40S ribosomal protein S3 | RS3_ENCCU |
| 5076 | | S4 | 40S ribosomal protein S4 | RS4_ENCCU |
| 5077 | | S5 | 40S ribosomal protein S5 | RS5_ENCCU |
| 5078 | | S6 | 40S ribosomal protein S6 | RS6_ENCCU |
| 5079 | | S7 | 40S ribosomal protein S7 | RS7_ENCCU |
| 5080 | | S8 | 40S ribosomal protein S8 | Q8SWC9_ENCCU |
| 5081 | | S9 | 40S ribosomal protein S9 | RS9_ENCCU |
| 5082 | | |
| 5083 | | Non-standard residues in Rib_Encu.cif #1 |
| 5084 | | --- |
| 5085 | | AMP — adenosine monophosphate |
| 5086 | | SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34)) |
| 5087 | | ZN — zinc ion |
| 5088 | | |
| 5089 | | |
| 5090 | | > open Rib_Vnec.cif |
| 5091 | | |
| 5092 | | Rib_Vnec.cif title: |
| 5093 | | Evolutionary compaction and adaptation visualized by the structure of the |
| 5094 | | dormant microsporidian ribosome [more info...] |
| 5095 | | |
| 5096 | | Chain information for Rib_Vnec.cif #2 |
| 5097 | | --- |
| 5098 | | Chain | Description |
| 5099 | | L50 | 23S rRNA |
| 5100 | | L70 | 5S rRNA |
| 5101 | | LA0 | uL2 |
| 5102 | | LAA | uL15 |
| 5103 | | LB0 | uL3 |
| 5104 | | LBB | eL29 |
| 5105 | | LC0 | uL4 |
| 5106 | | LCC | eL30 |
| 5107 | | LD0 | uL18 |
| 5108 | | LDD | eL31 |
| 5109 | | LE0 | eL6 |
| 5110 | | LEE | eL32 |
| 5111 | | LF0 | uL30 |
| 5112 | | LFF | eL33 |
| 5113 | | LG0 | eL8 |
| 5114 | | LGG | eL34 |
| 5115 | | LH0 | uL6 |
| 5116 | | LHH | uL29 |
| 5117 | | LI0 | uL16 |
| 5118 | | LII | eL36 |
| 5119 | | LJ0 | uL5 |
| 5120 | | LJJ | eL37 |
| 5121 | | LL0 | eL13 |
| 5122 | | LLL | eL39 |
| 5123 | | LM0 | eL14 |
| 5124 | | LMM | eL40 |
| 5125 | | LN0 | eL15 |
| 5126 | | LNN | MDF2 |
| 5127 | | LO0 | uL13 |
| 5128 | | LOO | eL42 |
| 5129 | | LP0 | uL22 |
| 5130 | | LPP | eL43 |
| 5131 | | LQ0 | eL18 |
| 5132 | | LR0 | eL19 |
| 5133 | | LS0 | eL20 |
| 5134 | | LT0 | eL21 |
| 5135 | | LU0 | eL22 |
| 5136 | | LV0 | uL14 |
| 5137 | | LW0 | eL24 |
| 5138 | | LX0 | uL23 |
| 5139 | | LXX | msL1 |
| 5140 | | LY0 | uL24 |
| 5141 | | LZ0 | eL27 |
| 5142 | | S60 | 16S rRNA |
| 5143 | | SA0 | uS2 |
| 5144 | | SAA | eS26 |
| 5145 | | SB0 | eS1 |
| 5146 | | SBB | eS27 |
| 5147 | | SC0 | uS5 |
| 5148 | | SCC | eS28 |
| 5149 | | SD0 | uS3 |
| 5150 | | SDD | uS14 |
| 5151 | | SE0 | eS4 |
| 5152 | | SEE | eS30 |
| 5153 | | SF0 | uS7 |
| 5154 | | SFF | eS31 |
| 5155 | | SG0 | eS6 |
| 5156 | | SGG | RACK1 |
| 5157 | | SH0 | eS7 |
| 5158 | | SI0 | eS8 |
| 5159 | | SJ0 | uS4 |
| 5160 | | SK0 | eS10 |
| 5161 | | SL0 | uS17 |
| 5162 | | SM0 | eS12 |
| 5163 | | SN0 | uS15 |
| 5164 | | SNN | MDF1 |
| 5165 | | SO0 | uS11 |
| 5166 | | SP0 | uS19 |
| 5167 | | SQ0 | uS9 |
| 5168 | | SR0 | eS17 |
| 5169 | | SS0 | uS13 |
| 5170 | | ST0 | eS19 |
| 5171 | | SU0 | uS10 |
| 5172 | | SV0 | eS21 |
| 5173 | | SW0 | uS8 |
| 5174 | | SX0 | uS12 |
| 5175 | | SY0 | eS24 |
| 5176 | | SZ0 | eS25 |
| 5177 | | |
| 5178 | | Non-standard residues in Rib_Vnec.cif #2 |
| 5179 | | --- |
| 5180 | | MG — magnesium ion |
| 5181 | | ZN — zinc ion |
| 5182 | | |
| 5183 | | |
| 5184 | | > open Rib_Palo.cif |
| 5185 | | |
| 5186 | | Rib_Palo.cif title: |
| 5187 | | Structure of the Paranosema locustae ribosome in complex with Lso2 [more |
| 5188 | | info...] |
| 5189 | | |
| 5190 | | Chain information for Rib_Palo.cif #3 |
| 5191 | | --- |
| 5192 | | Chain | Description |
| 5193 | | L50 | 25S rRNA |
| 5194 | | L70 | 5S rRNA |
| 5195 | | LA0 | uL2 |
| 5196 | | LAA | uL15 |
| 5197 | | LB0 | uL3 |
| 5198 | | LBB | eL29 |
| 5199 | | LC0 | uL4 |
| 5200 | | LCC | eL30 |
| 5201 | | LD0 | uL18 |
| 5202 | | LDD | eL31 |
| 5203 | | LE0 | eL6 |
| 5204 | | LEE | eL32 |
| 5205 | | LF0 | uL30 |
| 5206 | | LFF | eL33 |
| 5207 | | LG0 | eL8 |
| 5208 | | LGG | eL34 |
| 5209 | | LH0 | uL6 |
| 5210 | | LHH | uL29 |
| 5211 | | LI0 | uL16 |
| 5212 | | LII | eL36 |
| 5213 | | LJ0 | uL5 |
| 5214 | | LJJ | eL37 |
| 5215 | | LL0 | eL13 |
| 5216 | | LLL | eL39 |
| 5217 | | LM0 | eL14 |
| 5218 | | LMM | eL40 |
| 5219 | | LN0 | eL15 |
| 5220 | | LNN | Lso2 |
| 5221 | | LO0 | uL13 |
| 5222 | | LOO | eL42 |
| 5223 | | LP0 | uL22 |
| 5224 | | LPP | eL43 |
| 5225 | | LQ0 | eL18 |
| 5226 | | LR0 | eL19 |
| 5227 | | LS0 | eL20 |
| 5228 | | LT0 | eL21 |
| 5229 | | LU0 | eL22 |
| 5230 | | LV0 | uL14 |
| 5231 | | LW0 | eL24 |
| 5232 | | LX0 | uL23 |
| 5233 | | LY0 | uL24 |
| 5234 | | LZ0 | eL27 |
| 5235 | | S60 | 18S rRNA |
| 5236 | | SA0 | uS2 |
| 5237 | | SAA | eS26 |
| 5238 | | SB0 | eS1 |
| 5239 | | SBB | eS27 |
| 5240 | | SC0 | uS5 |
| 5241 | | SCC | eS28 |
| 5242 | | SD0 | uS3 |
| 5243 | | SDD | uS14 |
| 5244 | | SE0 | eS4 |
| 5245 | | SEE | eS30 |
| 5246 | | SF0 | uS7 |
| 5247 | | SG0 | eS6 |
| 5248 | | SGG | RACK1 |
| 5249 | | SH0 | eS7 |
| 5250 | | SI0 | eS8 |
| 5251 | | SJ0 | uS4 |
| 5252 | | SK0 | eS10 |
| 5253 | | SL0 | uS17 |
| 5254 | | SN0 | uS15 |
| 5255 | | SO0 | uS11 |
| 5256 | | SP0 | uS19 |
| 5257 | | SQ0 | uS9 |
| 5258 | | SR0 | eS17 |
| 5259 | | SS0 | uS13 |
| 5260 | | ST0 | eS19 |
| 5261 | | SU0 | uS10 |
| 5262 | | SV0 | eS21 |
| 5263 | | SW0 | uS8 |
| 5264 | | SX0 | uS12 |
| 5265 | | SY0 | eS24 |
| 5266 | | SZ0 | eS25 |
| 5267 | | |
| 5268 | | Non-standard residues in Rib_Palo.cif #3 |
| 5269 | | --- |
| 5270 | | AMP — adenosine monophosphate |
| 5271 | | MG — magnesium ion |
| 5272 | | ZN — zinc ion |
| 5273 | | |
| 5274 | | |
| 5275 | | > open Sc_v2.pdb |
| 5276 | | |
| 5277 | | Summary of feedback from opening Sc_v2.pdb |
| 5278 | | --- |
| 5279 | | warnings | Duplicate atom serial number found: 99999 |
| 5280 | | Duplicate atom serial number found: 99999 |
| 5281 | | Duplicate atom serial number found: 99999 |
| 5282 | | Duplicate atom serial number found: 99999 |
| 5283 | | Duplicate atom serial number found: 99999 |
| 5284 | | 623 messages similar to the above omitted |
| 5285 | | Ignored bad PDB record found on line 97590 |
| 5286 | | TER 100628 ALA h 120 |
| 5287 | | |
| 5288 | | Duplicate atom serial number found: 99999 |
| 5289 | | Duplicate atom serial number found: 99999 |
| 5290 | | Duplicate atom serial number found: 99999 |
| 5291 | | Duplicate atom serial number found: 99999 |
| 5292 | | Duplicate atom serial number found: 99999 |
| 5293 | | 834 messages similar to the above omitted |
| 5294 | | Ignored bad PDB record found on line 98430 |
| 5295 | | TER 101468 LEU I 103 |
| 5296 | | |
| 5297 | | Duplicate atom serial number found: 99999 |
| 5298 | | Duplicate atom serial number found: 99999 |
| 5299 | | Duplicate atom serial number found: 99999 |
| 5300 | | Duplicate atom serial number found: 99999 |
| 5301 | | Duplicate atom serial number found: 99999 |
| 5302 | | 878 messages similar to the above omitted |
| 5303 | | Ignored bad PDB record found on line 99314 |
| 5304 | | TER 102352 ALA I 221 |
| 5305 | | |
| 5306 | | Duplicate atom serial number found: 99999 |
| 5307 | | Duplicate atom serial number found: 99999 |
| 5308 | | Duplicate atom serial number found: 99999 |
| 5309 | | Duplicate atom serial number found: 99999 |
| 5310 | | Duplicate atom serial number found: 99999 |
| 5311 | | 765 messages similar to the above omitted |
| 5312 | | Ignored bad PDB record found on line 100085 |
| 5313 | | TER 103123 HIS i 100 |
| 5314 | | |
| 5315 | | Duplicate atom serial number found: 99999 |
| 5316 | | Duplicate atom serial number found: 99999 |
| 5317 | | Duplicate atom serial number found: 99999 |
| 5318 | | Duplicate atom serial number found: 99999 |
| 5319 | | Duplicate atom serial number found: 99999 |
| 5320 | | 1348 messages similar to the above omitted |
| 5321 | | Ignored bad PDB record found on line 101439 |
| 5322 | | TER 104477 LYS J 174 |
| 5323 | | |
| 5324 | | Duplicate atom serial number found: 99999 |
| 5325 | | Duplicate atom serial number found: 99999 |
| 5326 | | Duplicate atom serial number found: 99999 |
| 5327 | | Duplicate atom serial number found: 99999 |
| 5328 | | Duplicate atom serial number found: 99999 |
| 5329 | | 676 messages similar to the above omitted |
| 5330 | | Ignored bad PDB record found on line 102121 |
| 5331 | | TER 105159 ALA j 88 |
| 5332 | | |
| 5333 | | Duplicate atom serial number found: 99999 |
| 5334 | | Duplicate atom serial number found: 99999 |
| 5335 | | Duplicate atom serial number found: 99999 |
| 5336 | | Duplicate atom serial number found: 99999 |
| 5337 | | Duplicate atom serial number found: 99999 |
| 5338 | | 71 messages similar to the above omitted |
| 5339 | | Ignored bad PDB record found on line 102198 |
| 5340 | | TER 105236 UNK K 23 |
| 5341 | | |
| 5342 | | Duplicate atom serial number found: 99999 |
| 5343 | | Duplicate atom serial number found: 99999 |
| 5344 | | Duplicate atom serial number found: 99999 |
| 5345 | | Duplicate atom serial number found: 99999 |
| 5346 | | Duplicate atom serial number found: 99999 |
| 5347 | | 120 messages similar to the above omitted |
| 5348 | | Ignored bad PDB record found on line 102324 |
| 5349 | | TER 105362 UNK K 52 |
| 5350 | | |
| 5351 | | Duplicate atom serial number found: 99999 |
| 5352 | | Duplicate atom serial number found: 99999 |
| 5353 | | Duplicate atom serial number found: 99999 |
| 5354 | | Duplicate atom serial number found: 99999 |
| 5355 | | Duplicate atom serial number found: 99999 |
| 5356 | | 545 messages similar to the above omitted |
| 5357 | | Ignored bad PDB record found on line 102875 |
| 5358 | | TER 105913 UNK K 163 |
| 5359 | | |
| 5360 | | Duplicate atom serial number found: 99999 |
| 5361 | | Duplicate atom serial number found: 99999 |
| 5362 | | Duplicate atom serial number found: 99999 |
| 5363 | | Duplicate atom serial number found: 99999 |
| 5364 | | Duplicate atom serial number found: 99999 |
| 5365 | | 603 messages similar to the above omitted |
| 5366 | | Ignored bad PDB record found on line 103484 |
| 5367 | | TER 106522 LEU k 78 |
| 5368 | | |
| 5369 | | Duplicate atom serial number found: 99999 |
| 5370 | | Duplicate atom serial number found: 99999 |
| 5371 | | Duplicate atom serial number found: 99999 |
| 5372 | | Duplicate atom serial number found: 99999 |
| 5373 | | Duplicate atom serial number found: 99999 |
| 5374 | | 1543 messages similar to the above omitted |
| 5375 | | Ignored bad PDB record found on line 105033 |
| 5376 | | TER 108071 ALA L 195 |
| 5377 | | |
| 5378 | | Duplicate atom serial number found: 99999 |
| 5379 | | Duplicate atom serial number found: 99999 |
| 5380 | | Duplicate atom serial number found: 99999 |
| 5381 | | Duplicate atom serial number found: 99999 |
| 5382 | | Duplicate atom serial number found: 99999 |
| 5383 | | 431 messages similar to the above omitted |
| 5384 | | Ignored bad PDB record found on line 105470 |
| 5385 | | TER 108508 ILE l 51 |
| 5386 | | |
| 5387 | | Duplicate atom serial number found: 99999 |
| 5388 | | Duplicate atom serial number found: 99999 |
| 5389 | | Duplicate atom serial number found: 99999 |
| 5390 | | Duplicate atom serial number found: 99999 |
| 5391 | | Duplicate atom serial number found: 99999 |
| 5392 | | 1054 messages similar to the above omitted |
| 5393 | | Ignored bad PDB record found on line 106530 |
| 5394 | | TER 109568 ALA M 138 |
| 5395 | | |
| 5396 | | Duplicate atom serial number found: 99999 |
| 5397 | | Duplicate atom serial number found: 99999 |
| 5398 | | Duplicate atom serial number found: 99999 |
| 5399 | | Duplicate atom serial number found: 99999 |
| 5400 | | Duplicate atom serial number found: 99999 |
| 5401 | | 412 messages similar to the above omitted |
| 5402 | | Ignored bad PDB record found on line 106948 |
| 5403 | | TER 109986 LYS m 128 |
| 5404 | | |
| 5405 | | Duplicate atom serial number found: 99999 |
| 5406 | | Duplicate atom serial number found: 99999 |
| 5407 | | Duplicate atom serial number found: 99999 |
| 5408 | | Duplicate atom serial number found: 99999 |
| 5409 | | Duplicate atom serial number found: 99999 |
| 5410 | | 1716 messages similar to the above omitted |
| 5411 | | Ignored bad PDB record found on line 108670 |
| 5412 | | TER 111708 LYS N 204 |
| 5413 | | |
| 5414 | | Duplicate atom serial number found: 99999 |
| 5415 | | Duplicate atom serial number found: 99999 |
| 5416 | | Duplicate atom serial number found: 99999 |
| 5417 | | Duplicate atom serial number found: 99999 |
| 5418 | | Duplicate atom serial number found: 99999 |
| 5419 | | 228 messages similar to the above omitted |
| 5420 | | Ignored bad PDB record found on line 108904 |
| 5421 | | TER 111942 LYS n 25 |
| 5422 | | |
| 5423 | | Duplicate atom serial number found: 99999 |
| 5424 | | Duplicate atom serial number found: 99999 |
| 5425 | | Duplicate atom serial number found: 99999 |
| 5426 | | Duplicate atom serial number found: 99999 |
| 5427 | | Duplicate atom serial number found: 99999 |
| 5428 | | 3114 messages similar to the above omitted |
| 5429 | | Ignored bad PDB record found on line 112024 |
| 5430 | | TER 115062 TYR O 199 |
| 5431 | | |
| 5432 | | Duplicate atom serial number found: 99999 |
| 5433 | | Duplicate atom serial number found: 99999 |
| 5434 | | Duplicate atom serial number found: 99999 |
| 5435 | | Duplicate atom serial number found: 99999 |
| 5436 | | Duplicate atom serial number found: 99999 |
| 5437 | | 842 messages similar to the above omitted |
| 5438 | | Ignored bad PDB record found on line 112872 |
| 5439 | | TER 115910 PHE o 106 |
| 5440 | | |
| 5441 | | Duplicate atom serial number found: 99999 |
| 5442 | | Duplicate atom serial number found: 99999 |
| 5443 | | Duplicate atom serial number found: 99999 |
| 5444 | | Duplicate atom serial number found: 99999 |
| 5445 | | Duplicate atom serial number found: 99999 |
| 5446 | | 1223 messages similar to the above omitted |
| 5447 | | Ignored bad PDB record found on line 114101 |
| 5448 | | TER 117139 ALA P 156 |
| 5449 | | |
| 5450 | | Duplicate atom serial number found: 99999 |
| 5451 | | Duplicate atom serial number found: 99999 |
| 5452 | | Duplicate atom serial number found: 99999 |
| 5453 | | Duplicate atom serial number found: 99999 |
| 5454 | | Duplicate atom serial number found: 99999 |
| 5455 | | 689 messages similar to the above omitted |
| 5456 | | Ignored bad PDB record found on line 114796 |
| 5457 | | TER 117834 ALA p 92 |
| 5458 | | |
| 5459 | | Duplicate atom serial number found: 99999 |
| 5460 | | Duplicate atom serial number found: 99999 |
| 5461 | | Duplicate atom serial number found: 99999 |
| 5462 | | Duplicate atom serial number found: 99999 |
| 5463 | | Duplicate atom serial number found: 99999 |
| 5464 | | 1437 messages similar to the above omitted |
| 5465 | | Ignored bad PDB record found on line 116239 |
| 5466 | | TER 119277 VAL Q 186 |
| 5467 | | |
| 5468 | | Duplicate atom serial number found: 99999 |
| 5469 | | Duplicate atom serial number found: 99999 |
| 5470 | | Duplicate atom serial number found: 99999 |
| 5471 | | Duplicate atom serial number found: 99999 |
| 5472 | | Duplicate atom serial number found: 99999 |
| 5473 | | 842 messages similar to the above omitted |
| 5474 | | Ignored bad PDB record found on line 117087 |
| 5475 | | TER 120125 ALA q 107 |
| 5476 | | |
| 5477 | | Duplicate atom serial number found: 99999 |
| 5478 | | Duplicate atom serial number found: 99999 |
| 5479 | | Duplicate atom serial number found: 99999 |
| 5480 | | Duplicate atom serial number found: 99999 |
| 5481 | | Duplicate atom serial number found: 99999 |
| 5482 | | 225 messages similar to the above omitted |
| 5483 | | Ignored bad PDB record found on line 117318 |
| 5484 | | TER 120356 UNK q 221 |
| 5485 | | |
| 5486 | | Duplicate atom serial number found: 99999 |
| 5487 | | Duplicate atom serial number found: 99999 |
| 5488 | | Duplicate atom serial number found: 99999 |
| 5489 | | Duplicate atom serial number found: 99999 |
| 5490 | | Duplicate atom serial number found: 99999 |
| 5491 | | 1516 messages similar to the above omitted |
| 5492 | | Ignored bad PDB record found on line 118840 |
| 5493 | | TER 121878 ALA R 189 |
| 5494 | | |
| 5495 | | Duplicate atom serial number found: 99999 |
| 5496 | | Duplicate atom serial number found: 99999 |
| 5497 | | Duplicate atom serial number found: 99999 |
| 5498 | | Duplicate atom serial number found: 99999 |
| 5499 | | Duplicate atom serial number found: 99999 |
| 5500 | | 230 messages similar to the above omitted |
| 5501 | | Ignored bad PDB record found on line 119076 |
| 5502 | | TER 122114 UNK r 47 |
| 5503 | | |
| 5504 | | Duplicate atom serial number found: 99999 |
| 5505 | | Duplicate atom serial number found: 99999 |
| 5506 | | Duplicate atom serial number found: 99999 |
| 5507 | | Duplicate atom serial number found: 99999 |
| 5508 | | Duplicate atom serial number found: 99999 |
| 5509 | | 1440 messages similar to the above omitted |
| 5510 | | Ignored bad PDB record found on line 120522 |
| 5511 | | TER 123560 TYR S 172 |
| 5512 | | |
| 5513 | | Duplicate atom serial number found: 99999 |
| 5514 | | Duplicate atom serial number found: 99999 |
| 5515 | | Duplicate atom serial number found: 99999 |
| 5516 | | Duplicate atom serial number found: 99999 |
| 5517 | | Duplicate atom serial number found: 99999 |
| 5518 | | 225 messages similar to the above omitted |
| 5519 | | Ignored bad PDB record found on line 120753 |
| 5520 | | TER 123791 UNK s 46 |
| 5521 | | |
| 5522 | | Duplicate atom serial number found: 99999 |
| 5523 | | Duplicate atom serial number found: 99999 |
| 5524 | | Duplicate atom serial number found: 99999 |
| 5525 | | Duplicate atom serial number found: 99999 |
| 5526 | | Duplicate atom serial number found: 99999 |
| 5527 | | 1271 messages similar to the above omitted |
| 5528 | | Ignored bad PDB record found on line 122030 |
| 5529 | | TER 125068 ILE T 160 |
| 5530 | | |
| 5531 | | Duplicate atom serial number found: 99999 |
| 5532 | | Duplicate atom serial number found: 99999 |
| 5533 | | Duplicate atom serial number found: 99999 |
| 5534 | | Duplicate atom serial number found: 99999 |
| 5535 | | Duplicate atom serial number found: 99999 |
| 5536 | | 773 messages similar to the above omitted |
| 5537 | | Ignored bad PDB record found on line 122809 |
| 5538 | | TER 125847 TYR U 108 |
| 5539 | | |
| 5540 | | Duplicate atom serial number found: 99999 |
| 5541 | | Duplicate atom serial number found: 99999 |
| 5542 | | Duplicate atom serial number found: 99999 |
| 5543 | | Duplicate atom serial number found: 99999 |
| 5544 | | Duplicate atom serial number found: 99999 |
| 5545 | | 998 messages similar to the above omitted |
| 5546 | | Ignored bad PDB record found on line 123813 |
| 5547 | | TER 126851 VAL V 137 |
| 5548 | | |
| 5549 | | Duplicate atom serial number found: 99999 |
| 5550 | | Duplicate atom serial number found: 99999 |
| 5551 | | Duplicate atom serial number found: 99999 |
| 5552 | | Duplicate atom serial number found: 99999 |
| 5553 | | Duplicate atom serial number found: 99999 |
| 5554 | | 1033 messages similar to the above omitted |
| 5555 | | Ignored bad PDB record found on line 124852 |
| 5556 | | TER 127890 SER W 135 |
| 5557 | | |
| 5558 | | Duplicate atom serial number found: 99999 |
| 5559 | | Duplicate atom serial number found: 99999 |
| 5560 | | Duplicate atom serial number found: 99999 |
| 5561 | | Duplicate atom serial number found: 99999 |
| 5562 | | Duplicate atom serial number found: 99999 |
| 5563 | | 954 messages similar to the above omitted |
| 5564 | | Ignored bad PDB record found on line 125812 |
| 5565 | | TER 128850 ILE X 142 |
| 5566 | | |
| 5567 | | Duplicate atom serial number found: 99999 |
| 5568 | | Duplicate atom serial number found: 99999 |
| 5569 | | Duplicate atom serial number found: 99999 |
| 5570 | | Duplicate atom serial number found: 99999 |
| 5571 | | Duplicate atom serial number found: 99999 |
| 5572 | | 988 messages similar to the above omitted |
| 5573 | | Ignored bad PDB record found on line 126806 |
| 5574 | | TER 129844 GLU Y 127 |
| 5575 | | |
| 5576 | | Duplicate atom serial number found: 99999 |
| 5577 | | Duplicate atom serial number found: 99999 |
| 5578 | | Duplicate atom serial number found: 99999 |
| 5579 | | Duplicate atom serial number found: 99999 |
| 5580 | | Duplicate atom serial number found: 99999 |
| 5581 | | 1087 messages similar to the above omitted |
| 5582 | | Ignored bad PDB record found on line 127899 |
| 5583 | | TER 130937 PHE Z 136 |
| 5584 | | |
| 5585 | | Duplicate atom serial number found: 99999 |
| 5586 | | Duplicate atom serial number found: 99999 |
| 5587 | | Duplicate atom serial number found: 99999 |
| 5588 | | Duplicate atom serial number found: 99999 |
| 5589 | | Duplicate atom serial number found: 99999 |
| 5590 | | 2783 messages similar to the above omitted |
| 5591 | | Ignored bad PDB record found on line 130688 |
| 5592 | | TER 133726 U 6 132 |
| 5593 | | |
| 5594 | | Duplicate atom serial number found: 99999 |
| 5595 | | Duplicate atom serial number found: 99999 |
| 5596 | | Duplicate atom serial number found: 99999 |
| 5597 | | Duplicate atom serial number found: 99999 |
| 5598 | | Duplicate atom serial number found: 99999 |
| 5599 | | 11291 messages similar to the above omitted |
| 5600 | | Ignored bad PDB record found on line 141985 |
| 5601 | | TER 145023 N 6 670 |
| 5602 | | |
| 5603 | | Duplicate atom serial number found: 99999 |
| 5604 | | Duplicate atom serial number found: 99999 |
| 5605 | | Duplicate atom serial number found: 99999 |
| 5606 | | Duplicate atom serial number found: 99999 |
| 5607 | | Duplicate atom serial number found: 99999 |
| 5608 | | 25515 messages similar to the above omitted |
| 5609 | | Ignored bad PDB record found on line 167507 |
| 5610 | | TER 170545 PRO A 207 |
| 5611 | | |
| 5612 | | Duplicate atom serial number found: 99999 |
| 5613 | | Duplicate atom serial number found: 99999 |
| 5614 | | Duplicate atom serial number found: 99999 |
| 5615 | | Duplicate atom serial number found: 99999 |
| 5616 | | Duplicate atom serial number found: 99999 |
| 5617 | | 764 messages similar to the above omitted |
| 5618 | | Ignored bad PDB record found on line 168277 |
| 5619 | | TER 171315 PRO a 98 |
| 5620 | | |
| 5621 | | Duplicate atom serial number found: 99999 |
| 5622 | | Duplicate atom serial number found: 99999 |
| 5623 | | Duplicate atom serial number found: 99999 |
| 5624 | | Duplicate atom serial number found: 99999 |
| 5625 | | Duplicate atom serial number found: 99999 |
| 5626 | | 1718 messages similar to the above omitted |
| 5627 | | Ignored bad PDB record found on line 170001 |
| 5628 | | TER 173039 GLY B 235 |
| 5629 | | |
| 5630 | | Duplicate atom serial number found: 99999 |
| 5631 | | Duplicate atom serial number found: 99999 |
| 5632 | | Duplicate atom serial number found: 99999 |
| 5633 | | Duplicate atom serial number found: 99999 |
| 5634 | | Duplicate atom serial number found: 99999 |
| 5635 | | 605 messages similar to the above omitted |
| 5636 | | Ignored bad PDB record found on line 170612 |
| 5637 | | TER 173650 LYS b 82 |
| 5638 | | |
| 5639 | | Duplicate atom serial number found: 99999 |
| 5640 | | Duplicate atom serial number found: 99999 |
| 5641 | | Duplicate atom serial number found: 99999 |
| 5642 | | Duplicate atom serial number found: 99999 |
| 5643 | | Duplicate atom serial number found: 99999 |
| 5644 | | 1631 messages similar to the above omitted |
| 5645 | | Ignored bad PDB record found on line 172249 |
| 5646 | | TER 175287 GLN C 250 |
| 5647 | | |
| 5648 | | Duplicate atom serial number found: 99999 |
| 5649 | | Duplicate atom serial number found: 99999 |
| 5650 | | Duplicate atom serial number found: 99999 |
| 5651 | | Duplicate atom serial number found: 99999 |
| 5652 | | Duplicate atom serial number found: 99999 |
| 5653 | | 492 messages similar to the above omitted |
| 5654 | | Ignored bad PDB record found on line 172747 |
| 5655 | | TER 175785 ARG c 67 |
| 5656 | | |
| 5657 | | Duplicate atom serial number found: 99999 |
| 5658 | | Duplicate atom serial number found: 99999 |
| 5659 | | Duplicate atom serial number found: 99999 |
| 5660 | | Duplicate atom serial number found: 99999 |
| 5661 | | Duplicate atom serial number found: 99999 |
| 5662 | | 1729 messages similar to the above omitted |
| 5663 | | Ignored bad PDB record found on line 174482 |
| 5664 | | TER 177520 TYR D 225 |
| 5665 | | |
| 5666 | | Duplicate atom serial number found: 99999 |
| 5667 | | Duplicate atom serial number found: 99999 |
| 5668 | | Duplicate atom serial number found: 99999 |
| 5669 | | Duplicate atom serial number found: 99999 |
| 5670 | | Duplicate atom serial number found: 99999 |
| 5671 | | 437 messages similar to the above omitted |
| 5672 | | Ignored bad PDB record found on line 174925 |
| 5673 | | TER 177963 ARG d 56 |
| 5674 | | |
| 5675 | | Duplicate atom serial number found: 99999 |
| 5676 | | Duplicate atom serial number found: 99999 |
| 5677 | | Duplicate atom serial number found: 99999 |
| 5678 | | Duplicate atom serial number found: 99999 |
| 5679 | | Duplicate atom serial number found: 99999 |
| 5680 | | 2064 messages similar to the above omitted |
| 5681 | | Ignored bad PDB record found on line 176995 |
| 5682 | | TER 180033 LEU E 261 |
| 5683 | | |
| 5684 | | Duplicate atom serial number found: 99999 |
| 5685 | | Duplicate atom serial number found: 99999 |
| 5686 | | Duplicate atom serial number found: 99999 |
| 5687 | | Duplicate atom serial number found: 99999 |
| 5688 | | Duplicate atom serial number found: 99999 |
| 5689 | | 486 messages similar to the above omitted |
| 5690 | | Ignored bad PDB record found on line 177487 |
| 5691 | | TER 180525 GLN e 63 |
| 5692 | | |
| 5693 | | Duplicate atom serial number found: 99999 |
| 5694 | | Duplicate atom serial number found: 99999 |
| 5695 | | Duplicate atom serial number found: 99999 |
| 5696 | | Duplicate atom serial number found: 99999 |
| 5697 | | Duplicate atom serial number found: 99999 |
| 5698 | | 1604 messages similar to the above omitted |
| 5699 | | Ignored bad PDB record found on line 179097 |
| 5700 | | TER 182135 ARG F 225 |
| 5701 | | |
| 5702 | | Duplicate atom serial number found: 99999 |
| 5703 | | Duplicate atom serial number found: 99999 |
| 5704 | | Duplicate atom serial number found: 99999 |
| 5705 | | Duplicate atom serial number found: 99999 |
| 5706 | | Duplicate atom serial number found: 99999 |
| 5707 | | 539 messages similar to the above omitted |
| 5708 | | Ignored bad PDB record found on line 179642 |
| 5709 | | TER 182680 ALA f 152 |
| 5710 | | |
| 5711 | | Duplicate atom serial number found: 99999 |
| 5712 | | Duplicate atom serial number found: 99999 |
| 5713 | | Duplicate atom serial number found: 99999 |
| 5714 | | Duplicate atom serial number found: 99999 |
| 5715 | | Duplicate atom serial number found: 99999 |
| 5716 | | 1751 messages similar to the above omitted |
| 5717 | | Ignored bad PDB record found on line 181399 |
| 5718 | | TER 184437 GLU G 218 |
| 5719 | | |
| 5720 | | Duplicate atom serial number found: 99999 |
| 5721 | | Duplicate atom serial number found: 99999 |
| 5722 | | Duplicate atom serial number found: 99999 |
| 5723 | | Duplicate atom serial number found: 99999 |
| 5724 | | Duplicate atom serial number found: 99999 |
| 5725 | | 2437 messages similar to the above omitted |
| 5726 | | Ignored bad PDB record found on line 183842 |
| 5727 | | TER 186880 ASN g 319 |
| 5728 | | |
| 5729 | | Duplicate atom serial number found: 99999 |
| 5730 | | Duplicate atom serial number found: 99999 |
| 5731 | | Duplicate atom serial number found: 99999 |
| 5732 | | Duplicate atom serial number found: 99999 |
| 5733 | | Duplicate atom serial number found: 99999 |
| 5734 | | 1486 messages similar to the above omitted |
| 5735 | | Ignored bad PDB record found on line 185334 |
| 5736 | | TER 188372 SER H 187 |
| 5737 | | |
| 5738 | | Duplicate atom serial number found: 99999 |
| 5739 | | Duplicate atom serial number found: 99999 |
| 5740 | | Duplicate atom serial number found: 99999 |
| 5741 | | Duplicate atom serial number found: 99999 |
| 5742 | | Duplicate atom serial number found: 99999 |
| 5743 | | 972 messages similar to the above omitted |
| 5744 | | Ignored bad PDB record found on line 186312 |
| 5745 | | TER 189350 LYS I 123 |
| 5746 | | |
| 5747 | | Duplicate atom serial number found: 99999 |
| 5748 | | Duplicate atom serial number found: 99999 |
| 5749 | | Duplicate atom serial number found: 99999 |
| 5750 | | Duplicate atom serial number found: 99999 |
| 5751 | | Duplicate atom serial number found: 99999 |
| 5752 | | 507 messages similar to the above omitted |
| 5753 | | Ignored bad PDB record found on line 186825 |
| 5754 | | TER 189863 LYS I 200 |
| 5755 | | |
| 5756 | | Duplicate atom serial number found: 99999 |
| 5757 | | Duplicate atom serial number found: 99999 |
| 5758 | | Duplicate atom serial number found: 99999 |
| 5759 | | Duplicate atom serial number found: 99999 |
| 5760 | | Duplicate atom serial number found: 99999 |
| 5761 | | 1489 messages similar to the above omitted |
| 5762 | | Ignored bad PDB record found on line 188320 |
| 5763 | | TER 191358 GLU J 186 |
| 5764 | | |
| 5765 | | Duplicate atom serial number found: 99999 |
| 5766 | | Duplicate atom serial number found: 99999 |
| 5767 | | Duplicate atom serial number found: 99999 |
| 5768 | | Duplicate atom serial number found: 99999 |
| 5769 | | Duplicate atom serial number found: 99999 |
| 5770 | | 697 messages similar to the above omitted |
| 5771 | | Ignored bad PDB record found on line 189023 |
| 5772 | | TER 192061 GLU K 84 |
| 5773 | | |
| 5774 | | Duplicate atom serial number found: 99999 |
| 5775 | | Duplicate atom serial number found: 99999 |
| 5776 | | Duplicate atom serial number found: 99999 |
| 5777 | | Duplicate atom serial number found: 99999 |
| 5778 | | Duplicate atom serial number found: 99999 |
| 5779 | | 54 messages similar to the above omitted |
| 5780 | | Ignored bad PDB record found on line 189083 |
| 5781 | | TER 192121 THR K 98 |
| 5782 | | |
| 5783 | | Duplicate atom serial number found: 99999 |
| 5784 | | Duplicate atom serial number found: 99999 |
| 5785 | | Duplicate atom serial number found: 99999 |
| 5786 | | Duplicate atom serial number found: 99999 |
| 5787 | | Duplicate atom serial number found: 99999 |
| 5788 | | 1163 messages similar to the above omitted |
| 5789 | | Ignored bad PDB record found on line 190252 |
| 5790 | | TER 193290 GLY L 147 |
| 5791 | | |
| 5792 | | Duplicate atom serial number found: 99999 |
| 5793 | | Duplicate atom serial number found: 99999 |
| 5794 | | Duplicate atom serial number found: 99999 |
| 5795 | | Duplicate atom serial number found: 99999 |
| 5796 | | Duplicate atom serial number found: 99999 |
| 5797 | | 885 messages similar to the above omitted |
| 5798 | | Ignored bad PDB record found on line 191143 |
| 5799 | | TER 194181 GLN M 143 |
| 5800 | | |
| 5801 | | Duplicate atom serial number found: 99999 |
| 5802 | | Duplicate atom serial number found: 99999 |
| 5803 | | Duplicate atom serial number found: 99999 |
| 5804 | | Duplicate atom serial number found: 99999 |
| 5805 | | Duplicate atom serial number found: 99999 |
| 5806 | | 1187 messages similar to the above omitted |
| 5807 | | Ignored bad PDB record found on line 192336 |
| 5808 | | TER 195374 ASN N 151 |
| 5809 | | |
| 5810 | | Duplicate atom serial number found: 99999 |
| 5811 | | Duplicate atom serial number found: 99999 |
| 5812 | | Duplicate atom serial number found: 99999 |
| 5813 | | Duplicate atom serial number found: 99999 |
| 5814 | | Duplicate atom serial number found: 99999 |
| 5815 | | 944 messages similar to the above omitted |
| 5816 | | Ignored bad PDB record found on line 193286 |
| 5817 | | TER 196324 LEU O 137 |
| 5818 | | |
| 5819 | | Duplicate atom serial number found: 99999 |
| 5820 | | Duplicate atom serial number found: 99999 |
| 5821 | | Duplicate atom serial number found: 99999 |
| 5822 | | Duplicate atom serial number found: 99999 |
| 5823 | | Duplicate atom serial number found: 99999 |
| 5824 | | 1034 messages similar to the above omitted |
| 5825 | | Ignored bad PDB record found on line 194326 |
| 5826 | | TER 197364 PHE P 138 |
| 5827 | | |
| 5828 | | Duplicate atom serial number found: 99999 |
| 5829 | | Duplicate atom serial number found: 99999 |
| 5830 | | Duplicate atom serial number found: 99999 |
| 5831 | | Duplicate atom serial number found: 99999 |
| 5832 | | Duplicate atom serial number found: 99999 |
| 5833 | | 1106 messages similar to the above omitted |
| 5834 | | Ignored bad PDB record found on line 195438 |
| 5835 | | TER 198476 ARG Q 143 |
| 5836 | | |
| 5837 | | Duplicate atom serial number found: 99999 |
| 5838 | | Duplicate atom serial number found: 99999 |
| 5839 | | Duplicate atom serial number found: 99999 |
| 5840 | | Duplicate atom serial number found: 99999 |
| 5841 | | Duplicate atom serial number found: 99999 |
| 5842 | | 731 messages similar to the above omitted |
| 5843 | | Ignored bad PDB record found on line 196175 |
| 5844 | | TER 199213 ALA R 90 |
| 5845 | | |
| 5846 | | Duplicate atom serial number found: 99999 |
| 5847 | | Duplicate atom serial number found: 99999 |
| 5848 | | Duplicate atom serial number found: 99999 |
| 5849 | | Duplicate atom serial number found: 99999 |
| 5850 | | Duplicate atom serial number found: 99999 |
| 5851 | | 165 messages similar to the above omitted |
| 5852 | | Ignored bad PDB record found on line 196346 |
| 5853 | | TER 199384 ILE R 122 |
| 5854 | | |
| 5855 | | Duplicate atom serial number found: 99999 |
| 5856 | | Duplicate atom serial number found: 99999 |
| 5857 | | Duplicate atom serial number found: 99999 |
| 5858 | | Duplicate atom serial number found: 99999 |
| 5859 | | Duplicate atom serial number found: 99999 |
| 5860 | | 1187 messages similar to the above omitted |
| 5861 | | Ignored bad PDB record found on line 197539 |
| 5862 | | TER 200577 ALA S 146 |
| 5863 | | |
| 5864 | | Duplicate atom serial number found: 99999 |
| 5865 | | Duplicate atom serial number found: 99999 |
| 5866 | | Duplicate atom serial number found: 99999 |
| 5867 | | Duplicate atom serial number found: 99999 |
| 5868 | | Duplicate atom serial number found: 99999 |
| 5869 | | 1107 messages similar to the above omitted |
| 5870 | | Ignored bad PDB record found on line 198652 |
| 5871 | | TER 201690 GLU T 144 |
| 5872 | | |
| 5873 | | Duplicate atom serial number found: 99999 |
| 5874 | | Duplicate atom serial number found: 99999 |
| 5875 | | Duplicate atom serial number found: 99999 |
| 5876 | | Duplicate atom serial number found: 99999 |
| 5877 | | Duplicate atom serial number found: 99999 |
| 5878 | | 877 messages similar to the above omitted |
| 5879 | | Ignored bad PDB record found on line 199535 |
| 5880 | | TER 202573 ASN U 121 |
| 5881 | | |
| 5882 | | Duplicate atom serial number found: 99999 |
| 5883 | | Duplicate atom serial number found: 99999 |
| 5884 | | Duplicate atom serial number found: 99999 |
| 5885 | | Duplicate atom serial number found: 99999 |
| 5886 | | Duplicate atom serial number found: 99999 |
| 5887 | | 679 messages similar to the above omitted |
| 5888 | | Ignored bad PDB record found on line 200220 |
| 5889 | | TER 203258 ARG V 87 |
| 5890 | | |
| 5891 | | Duplicate atom serial number found: 99999 |
| 5892 | | Duplicate atom serial number found: 99999 |
| 5893 | | Duplicate atom serial number found: 99999 |
| 5894 | | Duplicate atom serial number found: 99999 |
| 5895 | | Duplicate atom serial number found: 99999 |
| 5896 | | 1016 messages similar to the above omitted |
| 5897 | | Ignored bad PDB record found on line 201242 |
| 5898 | | TER 204280 TYR W 130 |
| 5899 | | |
| 5900 | | Duplicate atom serial number found: 99999 |
| 5901 | | Duplicate atom serial number found: 99999 |
| 5902 | | Duplicate atom serial number found: 99999 |
| 5903 | | Duplicate atom serial number found: 99999 |
| 5904 | | Duplicate atom serial number found: 99999 |
| 5905 | | 1116 messages similar to the above omitted |
| 5906 | | Ignored bad PDB record found on line 202364 |
| 5907 | | TER 205402 SER X 145 |
| 5908 | | |
| 5909 | | Duplicate atom serial number found: 99999 |
| 5910 | | Duplicate atom serial number found: 99999 |
| 5911 | | Duplicate atom serial number found: 99999 |
| 5912 | | Duplicate atom serial number found: 99999 |
| 5913 | | Duplicate atom serial number found: 99999 |
| 5914 | | 1068 messages similar to the above omitted |
| 5915 | | Ignored bad PDB record found on line 203438 |
| 5916 | | TER 206476 ASP Y 135 |
| 5917 | | |
| 5918 | | Duplicate atom serial number found: 99999 |
| 5919 | | Duplicate atom serial number found: 99999 |
| 5920 | | Duplicate atom serial number found: 99999 |
| 5921 | | Duplicate atom serial number found: 99999 |
| 5922 | | Duplicate atom serial number found: 99999 |
| 5923 | | 553 messages similar to the above omitted |
| 5924 | | |
| 5925 | | Chain information for Sc_v2.pdb #4 |
| 5926 | | --- |
| 5927 | | Chain | Description |
| 5928 | | 5 | No description available |
| 5929 | | 6 | No description available |
| 5930 | | 7 | No description available |
| 5931 | | 8 | No description available |
| 5932 | | A | No description available |
| 5933 | | B | No description available |
| 5934 | | C | No description available |
| 5935 | | D | No description available |
| 5936 | | E | No description available |
| 5937 | | F | No description available |
| 5938 | | G | No description available |
| 5939 | | H | No description available |
| 5940 | | I | No description available |
| 5941 | | J | No description available |
| 5942 | | K | No description available |
| 5943 | | L | No description available |
| 5944 | | M | No description available |
| 5945 | | N | No description available |
| 5946 | | O | No description available |
| 5947 | | P | No description available |
| 5948 | | Q | No description available |
| 5949 | | R | No description available |
| 5950 | | S | No description available |
| 5951 | | T | No description available |
| 5952 | | U | No description available |
| 5953 | | V | No description available |
| 5954 | | W | No description available |
| 5955 | | X | No description available |
| 5956 | | Y | No description available |
| 5957 | | Z | No description available |
| 5958 | | a | No description available |
| 5959 | | b | No description available |
| 5960 | | c | No description available |
| 5961 | | d | No description available |
| 5962 | | e | No description available |
| 5963 | | f | No description available |
| 5964 | | g | No description available |
| 5965 | | h | No description available |
| 5966 | | i | No description available |
| 5967 | | j | No description available |
| 5968 | | k | No description available |
| 5969 | | l | No description available |
| 5970 | | m | No description available |
| 5971 | | n | No description available |
| 5972 | | o | No description available |
| 5973 | | p | No description available |
| 5974 | | q | No description available |
| 5975 | | r | No description available |
| 5976 | | s | No description available |
| 5977 | | |
| 5978 | | |
| 5979 | | > matchmaker #1 to #4 |
| 5980 | | |
| 5981 | | Parameters |
| 5982 | | --- |
| 5983 | | Chain pairing | bb |
| 5984 | | Alignment algorithm | Needleman-Wunsch |
| 5985 | | Similarity matrix | BLOSUM-62 |
| 5986 | | SS fraction | 0.3 |
| 5987 | | Gap open (HH/SS/other) | 18/18/6 |
| 5988 | | Gap extend | 1 |
| 5989 | | SS matrix | | | H | S | O |
| 5990 | | ---|---|---|--- |
| 5991 | | H | 6 | -9 | -6 |
| 5992 | | S | | 6 | -6 |
| 5993 | | O | | | 4 |
| 5994 | | Iteration cutoff | 2 |
| 5995 | | |
| 5996 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Encu.cif, chain L3 (#1), sequence |
| 5997 | | alignment score = 1068.1 |
| 5998 | | RMSD between 301 pruned atom pairs is 1.132 angstroms; (across all 361 pairs: |
| 5999 | | 2.358) |
| 6000 | | |
| 6001 | | |
| 6002 | | > matchmaker #2 to #4 |
| 6003 | | |
| 6004 | | Parameters |
| 6005 | | --- |
| 6006 | | Chain pairing | bb |
| 6007 | | Alignment algorithm | Needleman-Wunsch |
| 6008 | | Similarity matrix | BLOSUM-62 |
| 6009 | | SS fraction | 0.3 |
| 6010 | | Gap open (HH/SS/other) | 18/18/6 |
| 6011 | | Gap extend | 1 |
| 6012 | | SS matrix | | | H | S | O |
| 6013 | | ---|---|---|--- |
| 6014 | | H | 6 | -9 | -6 |
| 6015 | | S | | 6 | -6 |
| 6016 | | O | | | 4 |
| 6017 | | Iteration cutoff | 2 |
| 6018 | | |
| 6019 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Vnec.cif, chain LB0 (#2), sequence |
| 6020 | | alignment score = 1086.1 |
| 6021 | | RMSD between 252 pruned atom pairs is 1.274 angstroms; (across all 365 pairs: |
| 6022 | | 3.072) |
| 6023 | | |
| 6024 | | |
| 6025 | | > matchmaker #3 to #4 |
| 6026 | | |
| 6027 | | Parameters |
| 6028 | | --- |
| 6029 | | Chain pairing | bb |
| 6030 | | Alignment algorithm | Needleman-Wunsch |
| 6031 | | Similarity matrix | BLOSUM-62 |
| 6032 | | SS fraction | 0.3 |
| 6033 | | Gap open (HH/SS/other) | 18/18/6 |
| 6034 | | Gap extend | 1 |
| 6035 | | SS matrix | | | H | S | O |
| 6036 | | ---|---|---|--- |
| 6037 | | H | 6 | -9 | -6 |
| 6038 | | S | | 6 | -6 |
| 6039 | | O | | | 4 |
| 6040 | | Iteration cutoff | 2 |
| 6041 | | |
| 6042 | | Matchmaker Sc_v2.pdb, chain B (#4) with Rib_Palo.cif, chain LB0 (#3), sequence |
| 6043 | | alignment score = 1052.3 |
| 6044 | | RMSD between 336 pruned atom pairs is 0.844 angstroms; (across all 362 pairs: |
| 6045 | | 1.618) |
| 6046 | | |
| 6047 | | |
| 6048 | | > hide #1 #2 #3 #4 atoms |
| 6049 | | |
| 6050 | | > cartoon style modeHelix tube width 4 thickness 2 |
| 6051 | | |
| 6052 | | > set bgColor white |
| 6053 | | |
| 6054 | | > set silhouettes true |
| 6055 | | |
| 6056 | | > set silhouetteWidth 3.5 |
| 6057 | | |
| 6058 | | > lighting soft |
| 6059 | | |
| 6060 | | > lighting shadows false |
| 6061 | | |
| 6062 | | > lighting depthCueStart 0.3 |
| 6063 | | |
| 6064 | | > lighting depthCueEnd 0.7 |
| 6065 | | |
| 6066 | | > lighting ambientIntensity 0.8 |
| 6067 | | |
| 6068 | | > lighting fillIntensity 0.8 |
| 6069 | | |
| 6070 | | > show #1 &~ #1/N5/O7/L8/L2/MS surfaces |
| 6071 | | |
| 6072 | | > show #1/N5/O7/L8/L2/MS cartoons |
| 6073 | | |
| 6074 | | > color #1 &~ #1/N5/O7/L8/L2/MS/1:85-104, 1153-1166, 1365-1370, 1187-1194, |
| 6075 | | > 1360-1366, 1540-1544 white smoke |
| 6076 | | |
| 6077 | | > color #1/N5 #F0E68C |
| 6078 | | |
| 6079 | | > color #1/O7 #FFD700 |
| 6080 | | |
| 6081 | | > color #1/L2 #FF8C00 |
| 6082 | | |
| 6083 | | > color #1/L8 #FF4500 |
| 6084 | | |
| 6085 | | > color #1/MS #00FF00 |
| 6086 | | |
| 6087 | | > color #1/1:85-104 #008080 surfaces |
| 6088 | | |
| 6089 | | > color #1/1:1153-1166 #48D1CC surfaces |
| 6090 | | |
| 6091 | | > color #1/1:1365-1370 #00BFFF surfaces |
| 6092 | | |
| 6093 | | > color #1/1:1187-1194, 1360-1366 #4169E1 surfaces |
| 6094 | | |
| 6095 | | > color #1/1:1540-1544 #7B68EE surfaces |
| 6096 | | |
| 6097 | | > show #1/1:85-104, 1163-1167, 1153-1164, 1365-1370, 1187-1194, 1540-1544 |
| 6098 | | > surfaces |
| 6099 | | |
| 6100 | | > surface #1 &~ #1/N5/O7/L8/L2/MS resolution 8 |
| 6101 | | |
| 6102 | | 72 Gaussian surfaces, threshold level 0.073 - 0.105 |
| 6103 | | |
| 6104 | | > show #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 surfaces |
| 6105 | | |
| 6106 | | > show #2/LXX/LX0/LJJ/LG0/LA0 cartoons |
| 6107 | | |
| 6108 | | > color #2&~#2/LXX/LX0/LJJ/LG0/LA0/L50:80-105, 1191-1206, 1228-1236,1359-1367, |
| 6109 | | > 1188-1191,1368-1371, 1542-1545 white surfaces |
| 6110 | | |
| 6111 | | > color #2/LX0 #F0E68C |
| 6112 | | |
| 6113 | | > color #2/LJJ #FFD700 |
| 6114 | | |
| 6115 | | > color #2/LA0 #FF8C00 |
| 6116 | | |
| 6117 | | > color #2/LG0 #FF4500 |
| 6118 | | |
| 6119 | | > color #2/LXX #00FA9A |
| 6120 | | |
| 6121 | | > color #2/L50:80-105 #008080 |
| 6122 | | |
| 6123 | | > color #2/L50:1191-1206 #48D1CC |
| 6124 | | |
| 6125 | | > color #2/L50:1228-1236,1359-1367 #4169E1 |
| 6126 | | |
| 6127 | | > color #2/L50:1188-1191,1368-1371 #00BFFF |
| 6128 | | |
| 6129 | | > color #2/L50:1542-1545 #7B68EE |
| 6130 | | |
| 6131 | | > surface #2 &~ #2/LXX/LX0/LJJ/LG0/LA0 resolution 8 |
| 6132 | | |
| 6133 | | 73 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 6134 | | |
| 6135 | | > show #3 &~ #3/LX0/LJJ/LA0/LG0 surfaces |
| 6136 | | |
| 6137 | | > show #3/LX0/LJJ/LA0/LG0 cartoons |
| 6138 | | |
| 6139 | | > color #3 &~ #3/L50:95-113, 1233-1264, 1288-1294, 1463-1470, 1642-1647 |
| 6140 | | > #3/LX0/LJJ/LA0/LG0 white surfaces |
| 6141 | | |
| 6142 | | > color #3/LX0 #F0E68C |
| 6143 | | |
| 6144 | | > color #3/LJJ #FFD700 |
| 6145 | | |
| 6146 | | > color #3/LA0 #FF8C00 |
| 6147 | | |
| 6148 | | > color #3/LG0 #FF4500 |
| 6149 | | |
| 6150 | | > color #3/L50:95-113 #008080 |
| 6151 | | |
| 6152 | | > color #3/L50:1233-1264 #48D1CC |
| 6153 | | |
| 6154 | | > color #3/L50:1288-1294, 1463-1470 #4169E1 |
| 6155 | | |
| 6156 | | > color #3/L50:1468-1473 #00BFFF |
| 6157 | | |
| 6158 | | > color #3/L50:1642-1647 #7B68EE |
| 6159 | | |
| 6160 | | > surface #3 &~ #3/LX0/LJJ/LA0/LG0 resolution 8 |
| 6161 | | |
| 6162 | | 70 Gaussian surfaces, threshold level 0.074 - 0.112 |
| 6163 | | |
| 6164 | | > show #4 &~ #4/X/j/A/G surfaces |
| 6165 | | |
| 6166 | | > show #4/X/j/A/G cartoons |
| 6167 | | |
| 6168 | | > color #4/X #F0E68C |
| 6169 | | |
| 6170 | | > color #4/j #FFD700 |
| 6171 | | |
| 6172 | | > color #4/A #FF8C00 |
| 6173 | | |
| 6174 | | > color #4/G #FF4500 |
| 6175 | | |
| 6176 | | > color #4/8:108-139 #008080 |
| 6177 | | |
| 6178 | | > color #4/5:3-10/8:146-158 #191970 |
| 6179 | | |
| 6180 | | > color #4/5:1537-1584 #48D1CC |
| 6181 | | |
| 6182 | | > color #4/5:2514-2595 #00BFFF |
| 6183 | | |
| 6184 | | > color #4/5:1615-1626, 1819-1829 #4169E1 |
| 6185 | | |
| 6186 | | > color #4/5:2158-2160 #7B68EE |
| 6187 | | |
| 6188 | | > color #4 &~ #4/8:108-139,146-158 #4/5:3-10,1537-1584,2514-2595,1615-1626, |
| 6189 | | > 1819-1829, 2158-2160 #4/X/j/A/G white surfaces |
| 6190 | | |
| 6191 | | > surface #4 &~ #4/X/j/A/G resolution 8 |
| 6192 | | |
| 6193 | | 45 Gaussian surfaces, threshold level 0.070 - 0.105 |
| 6194 | | |
| 6195 | | > lighting shadows true intensity 0.5 |
| 6196 | | |
| 6197 | | > lighting shadows false |
| 6198 | | |
| 6199 | | > cd /Users/ljs/Desktop/Figures/Figure1/1a |
| 6200 | | |
| 6201 | | Current working directory is: /Users/ljs/Desktop/Figures/Figure1/1a |
| 6202 | | |
| 6203 | | > view matrix camera |
| 6204 | | > -0.21148,0.78962,0.57599,497.47,-0.64221,-0.55651,0.52711,462.22,0.73676,-0.25844,0.6248,509.75 |
| 6205 | | |
| 6206 | | > hide #1 #2 #3 #4 target m |
| 6207 | | |
| 6208 | | > show #4 target m |
| 6209 | | |
| 6210 | | > save F1_Sace_2.png width 1000 height 1000 |
| 6211 | | |
| 6212 | | > hide #4 target m |
| 6213 | | |
| 6214 | | > show #3 target m |
| 6215 | | |
| 6216 | | > save F1_Palo_2.png width 1000 height 1000 |
| 6217 | | |
| 6218 | | > hide #3 target m |
| 6219 | | |
| 6220 | | > show #2 target m |
| 6221 | | |
| 6222 | | > save F1_Vane_2.png width 1000 height 1000 |
| 6223 | | |
| 6224 | | > hide #2 target m |
| 6225 | | |
| 6226 | | > show #1 target m |
| 6227 | | |
| 6228 | | > save F1_Encu_2.png width 1000 height 1000 |
| 6229 | | |
| 6230 | | > hide #1 target m |
| 6231 | | |
| 6232 | | > close session |
| 6233 | | |
| 6234 | | > cd /Users/ljs/Desktop/Figures/Structures |
| 6235 | | |
| 6236 | | Current working directory is: /Users/ljs/Desktop/Figures/Structures |
| 6237 | | |
| 6238 | | > open Rib_Encu.cif |
| 6239 | | |
| 6240 | | Rib_Encu.cif title: |
| 6241 | | Cryo-EM structure of the ribosome from Encephalitozoon cuniculi [more info...] |
| 6242 | | |
| 6243 | | Chain information for Rib_Encu.cif #1 |
| 6244 | | --- |
| 6245 | | Chain | Description | UniProt |
| 6246 | | 1 | 5.8S-23S ribosomal RNA | |
| 6247 | | 2 | 5S ribosomal RNA | |
| 6248 | | 3 | 18S ribosomal RNA | |
| 6249 | | C0 | 40S ribosomal protein S10 | Q8SS17_ENCCU |
| 6250 | | C1 | 40S ribosomal protein S11 | Q8SS53_ENCCU |
| 6251 | | C2 | 40S ribosomal protein S12 | Q8SSK9_ENCCU |
| 6252 | | C3 | 40S ribosomal protein S13 | RS13_ENCCU |
| 6253 | | C4 | 40S ribosomal protein S14 | RS14_ENCCU |
| 6254 | | C5 | ribosomal protein S15 | Q8SRE7_ENCCU |
| 6255 | | C6 | 40S ribosomal protein S16 | Q8SSC2_ENCCU |
| 6256 | | C7 | 40S ribosomal protein S17 | RS17_ENCCU |
| 6257 | | C8 | 40S ribosomal protein S18 | RS18_ENCCU |
| 6258 | | C9 | 40S ribosomal protein S19 | RS19_ENCCU |
| 6259 | | D0 | 40S ribosomal protein S20 | Q8SQX6_ENCCU |
| 6260 | | D1 | ECU11_0225 protein | I7L8M6_ENCCU |
| 6261 | | D2 | 40S RIBOSOMAL PROTEIN S15A (S22 in yeast) | Q8SQL9_ENCCU |
| 6262 | | D3 | 40S ribosomal protein S23 | RS23_ENCCU |
| 6263 | | D4 | 40S ribosomal protein S24 | Q8SR06_ENCCU |
| 6264 | | D5 | 40S ribosomal protein S25 | RS25_ENCCU |
| 6265 | | D6 | 40S ribosomal protein S26 | RS26_ENCCU |
| 6266 | | D7 | 40S ribosomal protein S27 | Q8SS34_ENCCU |
| 6267 | | D8 | 40S ribosomal protein S28 | Q8SQM2_ENCCU |
| 6268 | | D9 | 40S ribosomal protein S29 | |
| 6269 | | E1 | Similarity to monoubiquitin/carboxy-extension protein fusion | |
| 6270 | | Q8SWB3_ENCCU |
| 6271 | | L1 | 60S ribosomal protein L1 | RL1_ENCCU |
| 6272 | | L2 | 60S ribosomal protein L8 | RL8_ENCCU |
| 6273 | | L3 | 60S ribosomal protein L3 | RL3_ENCCU |
| 6274 | | L4 | 60S ribosomal protein L4 | Q8SRC2_ENCCU |
| 6275 | | L5 | 60S ribosomal protein L5 | Q8SRQ3_ENCCU |
| 6276 | | L6 | 60S ribosomal protein L6 | Q8SR91_ENCCU |
| 6277 | | L7 | 60S ribosomal protein L7 | RL7_ENCCU |
| 6278 | | L8 | 60S ribosomal protein L7a | RL7A_ENCCU |
| 6279 | | L9 | 60S ribosomal protein L9 | Q8SSF7_ENCCU |
| 6280 | | M0 | 60S ribosomal protein L10 | RL10_ENCCU |
| 6281 | | M1 | 60S ribosomal protein L11 | RL11_ENCCU |
| 6282 | | M3 | 60S ribosomal protein L13 | Q8SSC1_ENCCU |
| 6283 | | M4 | ECU06_1215 protein | I7L8J2_ENCCU |
| 6284 | | M5 | Ribosomal protein L15 | Q8SQU2_ENCCU |
| 6285 | | M6 | 60S ribosomal protein L13A (L16) | Q8SS16_ENCCU |
| 6286 | | M7 | 60S ribosomal protein L17 | Q8SRH7_ENCCU |
| 6287 | | M8 | 60S ribosomal protein L18 | Q8SS76_ENCCU |
| 6288 | | M9 | 60S ribosomal protein L19 | Q8SRP5_ENCCU |
| 6289 | | MD | Uncharacterized protein ECU01_0250 | Y125_ENCCU |
| 6290 | | MS | ECU06_1135 protein | I7IV41_ENCCU |
| 6291 | | N0 | 60S ribosomal protein L20 | Q8SRD7_ENCCU |
| 6292 | | N1 | 60S ribosomal protein L21 | RL21_ENCCU |
| 6293 | | N2 | 60S ribosomal protein L22 | RL22_ENCCU |
| 6294 | | N3 | 60S ribosomal protein L23 | RL23_ENCCU |
| 6295 | | N4 | Similarity to 60S RIBOSOMAL PROTEIN L24 | Q8SUZ9_ENCCU |
| 6296 | | N5 | 60S ribosomal protein L23A | Q8SR87_ENCCU |
| 6297 | | N6 | 60S ribosomal protein L26 | Q8SRE6_ENCCU |
| 6298 | | N7 | 60S ribosomal protein L27 | Q8SS64_ENCCU |
| 6299 | | N8 | 60S ribosomal protein L27a | RL27A_ENCCU |
| 6300 | | N9 | 60S ribosomal protein L29 | I7JTZ6_ENCCU |
| 6301 | | O0 | 60S ribosomal protein L30 | Q8SRU1_ENCCU |
| 6302 | | O1 | 60S ribosomal protein L31 | RL31_ENCCU |
| 6303 | | O2 | 60S ribosomal protein L32 | RL32_ENCCU |
| 6304 | | O3 | 60S ribosomal protein L35A (L33) | Q8SSF3_ENCCU |
| 6305 | | O4 | 60S ribosomal protein L34 | RL34_ENCCU |
| 6306 | | O5 | 60S ribosomal protein L35-1 | RL351_ENCCU |
| 6307 | | O6 | 60S ribosomal protein L36 | RL36_ENCCU |
| 6308 | | O7 | 60S ribosomal protein L37 | RL37_ENCCU |
| 6309 | | O9 | 60S ribosomal protein L39 | RL39_ENCCU |
| 6310 | | P0 | ubiquitin/ L40 ribosomal protein fusion | Q8SRH8_ENCCU |
| 6311 | | P2 | 60S ribosomal protein L44 | RL44_ENCCU |
| 6312 | | P3 | 60S ribosomal protein L37A (L43) | Q8SRJ2_ENCCU |
| 6313 | | RA | Guanine nucleotide binding protein β subunit | M1K775_ENCCN |
| 6314 | | S0 | 40S ribosomal protein S0 | RSSA_ENCCU |
| 6315 | | S1 | 40S ribosomal protein S1 | RS3A_ENCCU |
| 6316 | | S2 | 40S ribosomal protein S2 | Q8SRG6_ENCCU |
| 6317 | | S3 | 40S ribosomal protein S3 | RS3_ENCCU |
| 6318 | | S4 | 40S ribosomal protein S4 | RS4_ENCCU |
| 6319 | | S5 | 40S ribosomal protein S5 | RS5_ENCCU |
| 6320 | | S6 | 40S ribosomal protein S6 | RS6_ENCCU |
| 6321 | | S7 | 40S ribosomal protein S7 | RS7_ENCCU |
| 6322 | | S8 | 40S ribosomal protein S8 | Q8SWC9_ENCCU |
| 6323 | | S9 | 40S ribosomal protein S9 | RS9_ENCCU |
| 6324 | | |
| 6325 | | Non-standard residues in Rib_Encu.cif #1 |
| 6326 | | --- |
| 6327 | | AMP — adenosine monophosphate |
| 6328 | | SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34)) |
| 6329 | | ZN — zinc ion |
| 6330 | | |
| 6331 | | |
| 6332 | | > open Rib_Vnec.cif |
| 6333 | | |
| 6334 | | Rib_Vnec.cif title: |
| 6335 | | Evolutionary compaction and adaptation visualized by the structure of the |
| 6336 | | dormant microsporidian ribosome [more info...] |
| 6337 | | |
| 6338 | | Chain information for Rib_Vnec.cif #2 |
| 6339 | | --- |
| 6340 | | Chain | Description |
| 6341 | | L50 | 23S rRNA |
| 6342 | | L70 | 5S rRNA |
| 6343 | | LA0 | uL2 |
| 6344 | | LAA | uL15 |
| 6345 | | LB0 | uL3 |
| 6346 | | LBB | eL29 |
| 6347 | | LC0 | uL4 |
| 6348 | | LCC | eL30 |
| 6349 | | LD0 | uL18 |
| 6350 | | LDD | eL31 |
| 6351 | | LE0 | eL6 |
| 6352 | | LEE | eL32 |
| 6353 | | LF0 | uL30 |
| 6354 | | LFF | eL33 |
| 6355 | | LG0 | eL8 |
| 6356 | | LGG | eL34 |
| 6357 | | LH0 | uL6 |
| 6358 | | LHH | uL29 |
| 6359 | | LI0 | uL16 |
| 6360 | | LII | eL36 |
| 6361 | | LJ0 | uL5 |
| 6362 | | LJJ | eL37 |
| 6363 | | LL0 | eL13 |
| 6364 | | LLL | eL39 |
| 6365 | | LM0 | eL14 |
| 6366 | | LMM | eL40 |
| 6367 | | LN0 | eL15 |
| 6368 | | LNN | MDF2 |
| 6369 | | LO0 | uL13 |
| 6370 | | LOO | eL42 |
| 6371 | | LP0 | uL22 |
| 6372 | | LPP | eL43 |
| 6373 | | LQ0 | eL18 |
| 6374 | | LR0 | eL19 |
| 6375 | | LS0 | eL20 |
| 6376 | | LT0 | eL21 |
| 6377 | | LU0 | eL22 |
| 6378 | | LV0 | uL14 |
| 6379 | | LW0 | eL24 |
| 6380 | | LX0 | uL23 |
| 6381 | | LXX | msL1 |
| 6382 | | LY0 | uL24 |
| 6383 | | LZ0 | eL27 |
| 6384 | | S60 | 16S rRNA |
| 6385 | | SA0 | uS2 |
| 6386 | | SAA | eS26 |
| 6387 | | SB0 | eS1 |
| 6388 | | SBB | eS27 |
| 6389 | | SC0 | uS5 |
| 6390 | | SCC | eS28 |
| 6391 | | SD0 | uS3 |
| 6392 | | SDD | uS14 |
| 6393 | | SE0 | eS4 |
| 6394 | | SEE | eS30 |
| 6395 | | SF0 | uS7 |
| 6396 | | SFF | eS31 |
| 6397 | | SG0 | eS6 |
| 6398 | | SGG | RACK1 |
| 6399 | | SH0 | eS7 |
| 6400 | | SI0 | eS8 |
| 6401 | | SJ0 | uS4 |
| 6402 | | SK0 | eS10 |
| 6403 | | SL0 | uS17 |
| 6404 | | SM0 | eS12 |
| 6405 | | SN0 | uS15 |
| 6406 | | SNN | MDF1 |
| 6407 | | SO0 | uS11 |
| 6408 | | SP0 | uS19 |
| 6409 | | SQ0 | uS9 |
| 6410 | | SR0 | eS17 |
| 6411 | | SS0 | uS13 |
| 6412 | | ST0 | eS19 |
| 6413 | | SU0 | uS10 |
| 6414 | | SV0 | eS21 |
| 6415 | | SW0 | uS8 |
| 6416 | | SX0 | uS12 |
| 6417 | | SY0 | eS24 |
| 6418 | | SZ0 | eS25 |
| 6419 | | |
| 6420 | | Non-standard residues in Rib_Vnec.cif #2 |
| 6421 | | --- |
| 6422 | | MG — magnesium ion |
| 6423 | | ZN — zinc ion |
| 6424 | | |
| 6425 | | |
| 6426 | | > cd /Users/ljs/Desktop/Figures/Maps |
| 6427 | | |
| 6428 | | Current working directory is: /Users/ljs/Desktop/Figures/Maps |
| 6429 | | |
| 6430 | | > open Encu_density.map |
| 6431 | | |
| 6432 | | Opened Encu_density.map as #3, grid size 512,512,512, pixel 0.861, shown at |
| 6433 | | level 0.0562, step 2, values float32 |
| 6434 | | |
| 6435 | | > open Vane_density.map |
| 6436 | | |
| 6437 | | Opened Vane_density.map as #4, grid size 340,340,340, pixel 1.2, shown at |
| 6438 | | level 0.0213, step 2, values float32 |
| 6439 | | |
| 6440 | | > fitmap #1 inMap #3 |
| 6441 | | |
| 6442 | | Fit molecule Rib_Encu.cif (#1) to map Encu_density.map (#3) using 166139 atoms |
| 6443 | | average map value = 0.1299, steps = 48 |
| 6444 | | shifted from previous position = 0.0723 |
| 6445 | | rotated from previous position = 0.0681 degrees |
| 6446 | | atoms outside contour = 53393, contour level = 0.056249 |
| 6447 | | |
| 6448 | | Position of Rib_Encu.cif (#1) relative to Encu_density.map (#3) coordinates: |
| 6449 | | Matrix rotation and translation |
| 6450 | | 0.99999929 -0.00035972 0.00113257 -0.24013265 |
| 6451 | | 0.00035977 0.99999993 -0.00004529 -0.06784702 |
| 6452 | | -0.00113255 0.00004570 0.99999936 0.22580017 |
| 6453 | | Axis 0.03825959 0.95237749 0.30251169 |
| 6454 | | Axis point 200.72061012 0.00000000 211.96419690 |
| 6455 | | Rotation angle (degrees) 0.06813577 |
| 6456 | | Shift along axis -0.00549616 |
| 6457 | | |
| 6458 | | |
| 6459 | | > fitmap #2 inMap #4 |
| 6460 | | |
| 6461 | | Fit molecule Rib_Vnec.cif (#2) to map Vane_density.map (#4) using 164223 atoms |
| 6462 | | average map value = 0.02778, steps = 48 |
| 6463 | | shifted from previous position = 0.0122 |
| 6464 | | rotated from previous position = 0.0106 degrees |
| 6465 | | atoms outside contour = 101630, contour level = 0.021278 |
| 6466 | | |
| 6467 | | Position of Rib_Vnec.cif (#2) relative to Vane_density.map (#4) coordinates: |
| 6468 | | Matrix rotation and translation |
| 6469 | | 0.99999999 -0.00009768 0.00013307 -0.00567592 |
| 6470 | | 0.00009769 0.99999999 -0.00008222 -0.01395260 |
| 6471 | | -0.00013306 0.00008223 0.99999999 0.01186239 |
| 6472 | | Axis 0.44586735 0.72155368 0.52968160 |
| 6473 | | Axis point 114.28418330 0.00000000 21.50603347 |
| 6474 | | Rotation angle (degrees) 0.01056637 |
| 6475 | | Shift along axis -0.00631496 |
| 6476 | | |
| 6477 | | |
| 6478 | | > matchmaker #1 to #2 |
| 6479 | | |
| 6480 | | Parameters |
| 6481 | | --- |
| 6482 | | Chain pairing | bb |
| 6483 | | Alignment algorithm | Needleman-Wunsch |
| 6484 | | Similarity matrix | BLOSUM-62 |
| 6485 | | SS fraction | 0.3 |
| 6486 | | Gap open (HH/SS/other) | 18/18/6 |
| 6487 | | Gap extend | 1 |
| 6488 | | SS matrix | | | H | S | O |
| 6489 | | ---|---|---|--- |
| 6490 | | H | 6 | -9 | -6 |
| 6491 | | S | | 6 | -6 |
| 6492 | | O | | | 4 |
| 6493 | | Iteration cutoff | 2 |
| 6494 | | |
| 6495 | | Matchmaker Rib_Vnec.cif, chain LB0 (#2) with Rib_Encu.cif, chain L3 (#1), |
| 6496 | | sequence alignment score = 1313.3 |
| 6497 | | RMSD between 339 pruned atom pairs is 0.751 angstroms; (across all 356 pairs: |
| 6498 | | 1.118) |
| 6499 | | |
| 6500 | | |
| 6501 | | > view position #3 sameAsModels #1 |
| 6502 | | |
| 6503 | | > view position #4 sameAsModels #2 |
| 6504 | | |
| 6505 | | > hide #1 #2 atoms |
| 6506 | | |
| 6507 | | > cartoon style modeHelix wrap width 1 thickness 0.5 |
| 6508 | | |
| 6509 | | > set bgColor white |
| 6510 | | |
| 6511 | | > set silhouettes true |
| 6512 | | |
| 6513 | | > set silhouetteWidth 3.5 |
| 6514 | | |
| 6515 | | > lighting soft |
| 6516 | | |
| 6517 | | > lighting shadows false |
| 6518 | | |
| 6519 | | > lighting depthCueStart 0.4 |
| 6520 | | |
| 6521 | | > lighting depthCueEnd 1 |
| 6522 | | |
| 6523 | | > color #1/MS #00FF00 |
| 6524 | | |
| 6525 | | > color #1/MS:24 crimson |
| 6526 | | |
| 6527 | | > show #1/MS cartoons |
| 6528 | | |
| 6529 | | > show #1/MS atoms |
| 6530 | | |
| 6531 | | > transparency #1/MS 0 atoms |
| 6532 | | |
| 6533 | | > volume zone #3 nearAtoms #1/MS range 1.5 |
| 6534 | | |
| 6535 | | > volume#3 step 1 |
| 6536 | | |
| 6537 | | Unknown command: volume#3 step 1 |
| 6538 | | |
| 6539 | | > color #3 grey |
| 6540 | | |
| 6541 | | > transparency #3 80 surfaces |
| 6542 | | |
| 6543 | | > color #2/LXX #00FA9A |
| 6544 | | |
| 6545 | | > color #2/LXX:45 crimson |
| 6546 | | |
| 6547 | | > show #2/LXX cartoons |
| 6548 | | |
| 6549 | | > show #2/LXX atoms |
| 6550 | | |
| 6551 | | > transparency #2/LXX 0 atoms |
| 6552 | | |
| 6553 | | > volume zone #4 nearAtoms #2/LXX range 2 |
| 6554 | | |
| 6555 | | > volume #4 step 1 |
| 6556 | | |
| 6557 | | > color #4 grey |
| 6558 | | |
| 6559 | | > transparency #4 80 surfaces |
| 6560 | | |
| 6561 | | > style #1/MS #2/LXX stick |
| 6562 | | |
| 6563 | | Changed 1054 atom styles |
| 6564 | | |
| 6565 | | > view matrix camera |
| 6566 | | > -0.64937,0.32949,0.68539,471.78,-0.62325,-0.74702,-0.23137,178.75,0.43577,-0.57741,0.69044,442.1 |
| 6567 | | |
| 6568 | | > cd /Users/ljs/Desktop/Figures/Figure1/1c |
| 6569 | | |
| 6570 | | Current working directory is: /Users/ljs/Desktop/Figures/Figure1/1c |
| 6571 | | |
| 6572 | | > close session |
| 6573 | | |
| 6574 | | > cd /Users/ljs/Desktop/Figures/Structures |
| 6575 | | |
| 6576 | | Current working directory is: /Users/ljs/Desktop/Figures/Structures |
| 6577 | | |
| 6578 | | > open Rib_Encu.cif |
| 6579 | | |
| 6580 | | Rib_Encu.cif title: |
| 6581 | | Cryo-EM structure of the ribosome from Encephalitozoon cuniculi [more info...] |
| 6582 | | |
| 6583 | | Chain information for Rib_Encu.cif #1 |
| 6584 | | --- |
| 6585 | | Chain | Description | UniProt |
| 6586 | | 1 | 5.8S-23S ribosomal RNA | |
| 6587 | | 2 | 5S ribosomal RNA | |
| 6588 | | 3 | 18S ribosomal RNA | |
| 6589 | | C0 | 40S ribosomal protein S10 | Q8SS17_ENCCU |
| 6590 | | C1 | 40S ribosomal protein S11 | Q8SS53_ENCCU |
| 6591 | | C2 | 40S ribosomal protein S12 | Q8SSK9_ENCCU |
| 6592 | | C3 | 40S ribosomal protein S13 | RS13_ENCCU |
| 6593 | | C4 | 40S ribosomal protein S14 | RS14_ENCCU |
| 6594 | | C5 | ribosomal protein S15 | Q8SRE7_ENCCU |
| 6595 | | C6 | 40S ribosomal protein S16 | Q8SSC2_ENCCU |
| 6596 | | C7 | 40S ribosomal protein S17 | RS17_ENCCU |
| 6597 | | C8 | 40S ribosomal protein S18 | RS18_ENCCU |
| 6598 | | C9 | 40S ribosomal protein S19 | RS19_ENCCU |
| 6599 | | D0 | 40S ribosomal protein S20 | Q8SQX6_ENCCU |
| 6600 | | D1 | ECU11_0225 protein | I7L8M6_ENCCU |
| 6601 | | D2 | 40S RIBOSOMAL PROTEIN S15A (S22 in yeast) | Q8SQL9_ENCCU |
| 6602 | | D3 | 40S ribosomal protein S23 | RS23_ENCCU |
| 6603 | | D4 | 40S ribosomal protein S24 | Q8SR06_ENCCU |
| 6604 | | D5 | 40S ribosomal protein S25 | RS25_ENCCU |
| 6605 | | D6 | 40S ribosomal protein S26 | RS26_ENCCU |
| 6606 | | D7 | 40S ribosomal protein S27 | Q8SS34_ENCCU |
| 6607 | | D8 | 40S ribosomal protein S28 | Q8SQM2_ENCCU |
| 6608 | | D9 | 40S ribosomal protein S29 | |
| 6609 | | E1 | Similarity to monoubiquitin/carboxy-extension protein fusion | |
| 6610 | | Q8SWB3_ENCCU |
| 6611 | | L1 | 60S ribosomal protein L1 | RL1_ENCCU |
| 6612 | | L2 | 60S ribosomal protein L8 | RL8_ENCCU |
| 6613 | | L3 | 60S ribosomal protein L3 | RL3_ENCCU |
| 6614 | | L4 | 60S ribosomal protein L4 | Q8SRC2_ENCCU |
| 6615 | | L5 | 60S ribosomal protein L5 | Q8SRQ3_ENCCU |
| 6616 | | L6 | 60S ribosomal protein L6 | Q8SR91_ENCCU |
| 6617 | | L7 | 60S ribosomal protein L7 | RL7_ENCCU |
| 6618 | | L8 | 60S ribosomal protein L7a | RL7A_ENCCU |
| 6619 | | L9 | 60S ribosomal protein L9 | Q8SSF7_ENCCU |
| 6620 | | M0 | 60S ribosomal protein L10 | RL10_ENCCU |
| 6621 | | M1 | 60S ribosomal protein L11 | RL11_ENCCU |
| 6622 | | M3 | 60S ribosomal protein L13 | Q8SSC1_ENCCU |
| 6623 | | M4 | ECU06_1215 protein | I7L8J2_ENCCU |
| 6624 | | M5 | Ribosomal protein L15 | Q8SQU2_ENCCU |
| 6625 | | M6 | 60S ribosomal protein L13A (L16) | Q8SS16_ENCCU |
| 6626 | | M7 | 60S ribosomal protein L17 | Q8SRH7_ENCCU |
| 6627 | | M8 | 60S ribosomal protein L18 | Q8SS76_ENCCU |
| 6628 | | M9 | 60S ribosomal protein L19 | Q8SRP5_ENCCU |
| 6629 | | MD | Uncharacterized protein ECU01_0250 | Y125_ENCCU |
| 6630 | | MS | ECU06_1135 protein | I7IV41_ENCCU |
| 6631 | | N0 | 60S ribosomal protein L20 | Q8SRD7_ENCCU |
| 6632 | | N1 | 60S ribosomal protein L21 | RL21_ENCCU |
| 6633 | | N2 | 60S ribosomal protein L22 | RL22_ENCCU |
| 6634 | | N3 | 60S ribosomal protein L23 | RL23_ENCCU |
| 6635 | | N4 | Similarity to 60S RIBOSOMAL PROTEIN L24 | Q8SUZ9_ENCCU |
| 6636 | | N5 | 60S ribosomal protein L23A | Q8SR87_ENCCU |
| 6637 | | N6 | 60S ribosomal protein L26 | Q8SRE6_ENCCU |
| 6638 | | N7 | 60S ribosomal protein L27 | Q8SS64_ENCCU |
| 6639 | | N8 | 60S ribosomal protein L27a | RL27A_ENCCU |
| 6640 | | N9 | 60S ribosomal protein L29 | I7JTZ6_ENCCU |
| 6641 | | O0 | 60S ribosomal protein L30 | Q8SRU1_ENCCU |
| 6642 | | O1 | 60S ribosomal protein L31 | RL31_ENCCU |
| 6643 | | O2 | 60S ribosomal protein L32 | RL32_ENCCU |
| 6644 | | O3 | 60S ribosomal protein L35A (L33) | Q8SSF3_ENCCU |
| 6645 | | O4 | 60S ribosomal protein L34 | RL34_ENCCU |
| 6646 | | O5 | 60S ribosomal protein L35-1 | RL351_ENCCU |
| 6647 | | O6 | 60S ribosomal protein L36 | RL36_ENCCU |
| 6648 | | O7 | 60S ribosomal protein L37 | RL37_ENCCU |
| 6649 | | O9 | 60S ribosomal protein L39 | RL39_ENCCU |
| 6650 | | P0 | ubiquitin/ L40 ribosomal protein fusion | Q8SRH8_ENCCU |
| 6651 | | P2 | 60S ribosomal protein L44 | RL44_ENCCU |
| 6652 | | P3 | 60S ribosomal protein L37A (L43) | Q8SRJ2_ENCCU |
| 6653 | | RA | Guanine nucleotide binding protein β subunit | M1K775_ENCCN |
| 6654 | | S0 | 40S ribosomal protein S0 | RSSA_ENCCU |
| 6655 | | S1 | 40S ribosomal protein S1 | RS3A_ENCCU |
| 6656 | | S2 | 40S ribosomal protein S2 | Q8SRG6_ENCCU |
| 6657 | | S3 | 40S ribosomal protein S3 | RS3_ENCCU |
| 6658 | | S4 | 40S ribosomal protein S4 | RS4_ENCCU |
| 6659 | | S5 | 40S ribosomal protein S5 | RS5_ENCCU |
| 6660 | | S6 | 40S ribosomal protein S6 | RS6_ENCCU |
| 6661 | | S7 | 40S ribosomal protein S7 | RS7_ENCCU |
| 6662 | | S8 | 40S ribosomal protein S8 | Q8SWC9_ENCCU |
| 6663 | | S9 | 40S ribosomal protein S9 | RS9_ENCCU |
| 6664 | | |
| 6665 | | Non-standard residues in Rib_Encu.cif #1 |
| 6666 | | --- |
| 6667 | | AMP — adenosine monophosphate |
| 6668 | | SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34)) |
| 6669 | | ZN — zinc ion |
| 6670 | | |
| 6671 | | |
| 6672 | | > open Rib_Vnec.cif |
| 6673 | | |
| 6674 | | Rib_Vnec.cif title: |
| 6675 | | Evolutionary compaction and adaptation visualized by the structure of the |
| 6676 | | dormant microsporidian ribosome [more info...] |
| 6677 | | |
| 6678 | | Chain information for Rib_Vnec.cif #2 |
| 6679 | | --- |
| 6680 | | Chain | Description |
| 6681 | | L50 | 23S rRNA |
| 6682 | | L70 | 5S rRNA |
| 6683 | | LA0 | uL2 |
| 6684 | | LAA | uL15 |
| 6685 | | LB0 | uL3 |
| 6686 | | LBB | eL29 |
| 6687 | | LC0 | uL4 |
| 6688 | | LCC | eL30 |
| 6689 | | LD0 | uL18 |
| 6690 | | LDD | eL31 |
| 6691 | | LE0 | eL6 |
| 6692 | | LEE | eL32 |
| 6693 | | LF0 | uL30 |
| 6694 | | LFF | eL33 |
| 6695 | | LG0 | eL8 |
| 6696 | | LGG | eL34 |
| 6697 | | LH0 | uL6 |
| 6698 | | LHH | uL29 |
| 6699 | | LI0 | uL16 |
| 6700 | | LII | eL36 |
| 6701 | | LJ0 | uL5 |
| 6702 | | LJJ | eL37 |
| 6703 | | LL0 | eL13 |
| 6704 | | LLL | eL39 |
| 6705 | | LM0 | eL14 |
| 6706 | | LMM | eL40 |
| 6707 | | LN0 | eL15 |
| 6708 | | LNN | MDF2 |
| 6709 | | LO0 | uL13 |
| 6710 | | LOO | eL42 |
| 6711 | | LP0 | uL22 |
| 6712 | | LPP | eL43 |
| 6713 | | LQ0 | eL18 |
| 6714 | | LR0 | eL19 |
| 6715 | | LS0 | eL20 |
| 6716 | | LT0 | eL21 |
| 6717 | | LU0 | eL22 |
| 6718 | | LV0 | uL14 |
| 6719 | | LW0 | eL24 |
| 6720 | | LX0 | uL23 |
| 6721 | | LXX | msL1 |
| 6722 | | LY0 | uL24 |
| 6723 | | LZ0 | eL27 |
| 6724 | | S60 | 16S rRNA |
| 6725 | | SA0 | uS2 |
| 6726 | | SAA | eS26 |
| 6727 | | SB0 | eS1 |
| 6728 | | SBB | eS27 |
| 6729 | | SC0 | uS5 |
| 6730 | | SCC | eS28 |
| 6731 | | SD0 | uS3 |
| 6732 | | SDD | uS14 |
| 6733 | | SE0 | eS4 |
| 6734 | | SEE | eS30 |
| 6735 | | SF0 | uS7 |
| 6736 | | SFF | eS31 |
| 6737 | | SG0 | eS6 |
| 6738 | | SGG | RACK1 |
| 6739 | | SH0 | eS7 |
| 6740 | | SI0 | eS8 |
| 6741 | | SJ0 | uS4 |
| 6742 | | SK0 | eS10 |
| 6743 | | SL0 | uS17 |
| 6744 | | SM0 | eS12 |
| 6745 | | SN0 | uS15 |
| 6746 | | SNN | MDF1 |
| 6747 | | SO0 | uS11 |
| 6748 | | SP0 | uS19 |
| 6749 | | SQ0 | uS9 |
| 6750 | | SR0 | eS17 |
| 6751 | | SS0 | uS13 |
| 6752 | | ST0 | eS19 |
| 6753 | | SU0 | uS10 |
| 6754 | | SV0 | eS21 |
| 6755 | | SW0 | uS8 |
| 6756 | | SX0 | uS12 |
| 6757 | | SY0 | eS24 |
| 6758 | | SZ0 | eS25 |
| 6759 | | |
| 6760 | | Non-standard residues in Rib_Vnec.cif #2 |
| 6761 | | --- |
| 6762 | | MG — magnesium ion |
| 6763 | | ZN — zinc ion |
| 6764 | | |
| 6765 | | |
| 6766 | | > cd /Users/ljs/Desktop/Figures/Maps |
| 6767 | | |
| 6768 | | Current working directory is: /Users/ljs/Desktop/Figures/Maps |
| 6769 | | |
| 6770 | | > open Encu_density.map |
| 6771 | | |
| 6772 | | Opened Encu_density.map as #3, grid size 512,512,512, pixel 0.861, shown at |
| 6773 | | level 0.0562, step 2, values float32 |
| 6774 | | |
| 6775 | | > open Vane_density.map |
| 6776 | | |
| 6777 | | Opened Vane_density.map as #4, grid size 340,340,340, pixel 1.2, shown at |
| 6778 | | level 0.0213, step 2, values float32 |
| 6779 | | |
| 6780 | | > fitmap #1 inMap #3 |
| 6781 | | |
| 6782 | | Fit molecule Rib_Encu.cif (#1) to map Encu_density.map (#3) using 166139 atoms |
| 6783 | | average map value = 0.1299, steps = 48 |
| 6784 | | shifted from previous position = 0.0723 |
| 6785 | | rotated from previous position = 0.0681 degrees |
| 6786 | | atoms outside contour = 53393, contour level = 0.056249 |
| 6787 | | |
| 6788 | | Position of Rib_Encu.cif (#1) relative to Encu_density.map (#3) coordinates: |
| 6789 | | Matrix rotation and translation |
| 6790 | | 0.99999929 -0.00035972 0.00113257 -0.24013265 |
| 6791 | | 0.00035977 0.99999993 -0.00004529 -0.06784702 |
| 6792 | | -0.00113255 0.00004570 0.99999936 0.22580017 |
| 6793 | | Axis 0.03825959 0.95237749 0.30251169 |
| 6794 | | Axis point 200.72061012 0.00000000 211.96419690 |
| 6795 | | Rotation angle (degrees) 0.06813577 |
| 6796 | | Shift along axis -0.00549616 |
| 6797 | | |
| 6798 | | |
| 6799 | | > fitmap #2 inMap #4 |
| 6800 | | |
| 6801 | | Fit molecule Rib_Vnec.cif (#2) to map Vane_density.map (#4) using 164223 atoms |
| 6802 | | average map value = 0.02778, steps = 48 |
| 6803 | | shifted from previous position = 0.0122 |
| 6804 | | rotated from previous position = 0.0106 degrees |
| 6805 | | atoms outside contour = 101630, contour level = 0.021278 |
| 6806 | | |
| 6807 | | Position of Rib_Vnec.cif (#2) relative to Vane_density.map (#4) coordinates: |
| 6808 | | Matrix rotation and translation |
| 6809 | | 0.99999999 -0.00009768 0.00013307 -0.00567592 |
| 6810 | | 0.00009769 0.99999999 -0.00008222 -0.01395260 |
| 6811 | | -0.00013306 0.00008223 0.99999999 0.01186239 |
| 6812 | | Axis 0.44586735 0.72155368 0.52968160 |
| 6813 | | Axis point 114.28418330 0.00000000 21.50603347 |
| 6814 | | Rotation angle (degrees) 0.01056637 |
| 6815 | | Shift along axis -0.00631496 |
| 6816 | | |
| | 2403 | |
| | 2404 | [had to delete a bunch of stuff to fit within ticket limits] |
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
