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UCSF ChimeraX Citations

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Selected Citations

Substrate and product complexes reveal mechanisms of Hedgehog acylation by HHAT. Jiang Y, Benz TL, Long SB. Science. 2021 Jun 11;372(6547):1215-1219.

Prevalent, protective, and convergent IgG recognition of SARS-CoV-2 non-RBD spike epitopes. Voss WN, Hou YJ et al. Science. 2021 Jun 4;372(6546):1108-1112.

Structure of human telomerase holoenzyme with bound telomeric DNA. Ghanim GE, Fountain AJ et al. Nature. 2021 May 20;593(7859):449-453.

Structure and dynamics of a mycobacterial type VII secretion system. Bunduc CM, Fahrenkamp D et al. Nature. 2021 May 20;593(7859):445-448.

Cork-in-bottle mechanism of inhibitor binding to mammalian complex I. Chung I, Serreli R et al. Sci Adv. 2021 May 14;7(20):eabg4000.

Broadly neutralizing antibody cocktails targeting Nipah virus and Hendra virus fusion glycoproteins. Dang HV, Cross RW et al. Nat Struct Mol Biol. 2021 May;28(5):426-434.

Structural insights into preinitiation complex assembly on core promoters. Chen X, Qi Y et al. Science. 2021 Apr 30;372(6541):eaba8490.

Structural insights into the lipid and ligand regulation of serotonin receptors. Xu P, Huang S et al. Nature. 2021 Apr 15;592(7854):469-473.

Structure and gating mechanism of the α7 nicotinic acetylcholine receptor. Noviello CM, Gharpure A et al. Cell. 2021 Apr 15;184(8):2121-2134.e13.

Sweet taste of heavy water. Ben Abu N, Mason PE et al. Commun Biol. 2021 Apr 6;4(1):440.

Structure of Gcn1 bound to stalled and colliding 80S ribosomes. Pochopien AA, Beckert B et al. Proc Natl Acad Sci USA. 2021 Apr 6;118(14):e2022756118.

Structure of the human Mediator-bound transcription preinitiation complex. Abdella R, Talyzina A et al. Science. 2021 Apr 2;372(6537):52-56.

Adaptive Cartesian and torsional restraints for interactive model rebuilding. Croll TI, Read RJ. Acta Crystallogr D Struct Biol. 2021 Apr 1;77(Pt 4):438-446.

Structure-based decoupling of the pro- and anti-inflammatory functions of interleukin-10. Saxton RA, Tsutsumi N et al. Science. 2021 Mar 19;371(6535):eabc8433.

Improving SARS-CoV-2 structures: Peer review by early coordinate release. Croll TI, Williams CJ et al. Biophys J. 2021 Mar 16;120(6):1085-1096.

Architecture and structural dynamics of the heteromeric GluK2/K5 kainate receptor. Khanra N, Brown PM et al. eLife. 2021 Mar 16;10:e66097.

Substrate-engaged type III secretion system structures reveal gating mechanism for unfolded protein translocation. Miletic S, Fahrenkamp D et al. Nat Commun. 2021 Mar 9;12(1):1546.

Structure of a bacterial OapB protein with its OLE RNA target gives insights into the architecture of the OLE ribonucleoprotein complex. Yang Y, Harris KA et al. Proc Natl Acad Sci USA. 2021 Mar 2;118(9):e2020393118.

Shulin packages axonemal outer dynein arms for ciliary targeting. Mali GR, Ali FA et al. Science. 2021 Feb 26;371(6532):910-916.

Molecular architecture of the endocytic TPLATE complex. Yperman K, Wang J et al. Sci Adv. 2021 Feb 26;7(9):eabe7999.

Mechanism of membrane-tethered mitochondrial protein synthesis. Itoh Y, Andréll J et al. Science. 2021 Feb 19;371(6531):846-849.

Structure-guided multivalent nanobodies block SARS-CoV-2 infection and suppress mutational escape. Koenig PA, Das H et al. Science. 2021 Feb 12;371(6530):eabe6230.

Mitochondrial sorting and assembly machinery operates by β-barrel switching. Takeda H, Tsutsumi A et al. Nature. 2021 Feb 4;590(7844):163-169.

Structure and mechanism of the proton-driven motor that powers type 9 secretion and gliding motility. Hennell James R, Deme JC et al. Nat Microbiol. 2021 Feb;6(2):221-233.

Structures of the glucocorticoid-bound adhesion receptor GPR97-G(o) complex. Ping YQ, Mao C et al. Nature. 2021 Jan 28;589(7843):620-626.

Mechanism of spliceosome remodeling by the ATPase/helicase Prp2 and its coactivator Spp2. Bai R, Wan R et al. Science. 2021 Jan 8;371(6525):eabe8863.

Structure of mycobacterial ATP synthase bound to the tuberculosis drug bedaquiline. Guo H, Courbon GM et al. Nature. 2021 Jan 7;589(7840):143-147.

Structure of the class D GPCR Ste2 dimer coupled to two G proteins. Velazhahan V, Ma N et al. Nature. 2021 Jan 7;589(7840):148-153.

Causes and consequences of RNA polymerase II stalling during transcript elongation. Noe Gonzalez M, Blears D, Svejstrup JQ. Nat Rev Mol Cell Biol. 2021 Jan;22(1):3-21.

Using Integrative Modeling Platform to compute, validate, and archive a model of a protein complex structure. Saltzberg DJ, Viswanath S et al. Protein Sci. 2021 Jan;30(1):250-261.

An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike. Schoof M, Faust B et al. Science. 2020 Dec 18;370(6523):1473-1479.

Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2. Xiang Y, Nambulli S et al. Science. 2020 Dec 18;370(6523):1479-1484.

Genetic interaction mapping informs integrative structure determination of protein complexes. Braberg H, Echeverria I et al. Science. 2020 Dec 11;370(6522):eaaz4910.

Structures and pH-sensing mechanism of the proton-activated chloride channel. Ruan Z, Osei-Owusu J et al. Nature. 2020 Dec 10;588(7837):350-354.

Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. Gordon DE, Hiatt J et al. Science. 2020 Dec 4;370(6521):eabe9403.

Structure of the activated ROQ1 resistosome directly recognizing the pathogen effector XopQ. Martin R, Qi T et al. Science. 2020 Dec 4;370(6521):eabd9993.

Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate. Bangaru S, Ozorowski G et al. Science. 2020 Nov 27;370(6520):1089-1094.

Ultrapotent human antibodies protect against SARS-CoV-2 challenge via multiple mechanisms. Tortorici MA, Beltramello M et al. Science. 2020 Nov 20;370(6519):950-957.

Structure of the human sodium leak channel NALCN. Kschonsak M, Chua HC et al. Nature. 2020 Nov 12;587(7833):313-318.

The 3.2-Å resolution structure of human mTORC2. Scaiola A, Mangia F et al. Sci Adv. 2020 Nov 6;6(45):eabc1251.

Single-particle cryo-EM at atomic resolution. Nakane T, Kotecha A et al. Nature. 2020 Nov 5;587(7832):152-156.

Cryo-EM reveals the transition of Arp2/3 complex from inactive to nucleation-competent state. Shaaban M, Chowdhury S, Nolen BJ. Nat Struct Mol Biol. 2020 Nov;27(11):1009-1016.

Molecular architecture of the SARS-CoV-2 virus. Yao H, Song Y et al. Cell. 2020 Oct 29;183(3):730-738.e13.

De novo design of picomolar SARS-CoV-2 miniprotein inhibitors. Cao L, Goreshnik I et al. Science. 2020 Oct 23;370(6515):426-431.

Specific features and assembly of the plant mitochondrial complex I revealed by cryo-EM. Soufari H, Parrot C et al. Nat Commun. 2020 Oct 15;11(1):5195.

In situ structural analysis of SARS-CoV-2 spike reveals flexibility mediated by three hinges. Turoňová B, Sikora M et al. Science. 2020 Oct 9;370(6513):203-208.

Structure-guided covalent stabilization of coronavirus spike glycoprotein trimers in the closed conformation. McCallum M, Walls AC et al. Nat Struct Mol Biol. 2020 Oct;27(10):942-949.

Mitochondrial complex I structure reveals ordered water molecules for catalysis and proton translocation. Grba DN, Hirst J. Nat Struct Mol Biol. 2020 Oct;27(10):892-900.

Structures of capsid and capsid-associated tegument complex inside the Epstein-Barr virus. Liu W, Cui Y et al. Nat Microbiol. 2020 Oct;5(10):1285-1298.

The endoplasmic reticulum P5A-ATPase is a transmembrane helix dislocase. McKenna MJ, Sim SI et al. Science. 2020 Sep 25;369(6511). pii: eabc5809.

90S pre-ribosome transformation into the primordial 40S subunit. Cheng J, Lau B et al. Science. 2020 Sep 18;369(6510):1470-1476.

Structure of a human 48S translational initiation complex. Brito Querido J, Sokabe M et al. Science. 2020 Sep 4;369(6508):1220-1227.

Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2. Thoms M, Buschauer R et al. Science. 2020 Sep 4;369(6508):1249-1255.

Intrinsic curvature of the HIV-1 CA hexamer underlies capsid topology and interaction with cyclophilin A. Ni T, Gerard S et al. Nat Struct Mol Biol. 2020 Sep;27(9):846–854.

Structures of human pannexin 1 reveal ion pathways and mechanism of gating. Ruan Z, Orozco IJ et al. Nature. 2020 Aug 27;584(7822):646-651.

Potent neutralizing antibodies directed to multiple epitopes on SARS-CoV-2 spike. Liu L, Wang P et al. Nature. 2020 Aug 20;584(7821):450-456.

Binding mechanisms of therapeutic antibodies to human CD20. Kumar A, Planchais C et al. Science. 2020 Aug 14;369(6505):793-799.

Structural basis of the activation of a metabotropic GABA receptor. Shaye H, Ishchenko A et al. Nature. 2020 Aug 13;584(7820):298–303.

Structure of human GABAB receptor in an inactive state. Park J, Fu Z et al. Nature. 2020 Aug 13;584(7820):304-309.

Subnanometer structures of HIV-1 envelope trimers on aldrithiol-2-inactivated virus particles. Li Z, Li W et al. Nat Struct Mol Biol. 2020 Aug;27(8):726-734.

In-cell architecture of an actively transcribing-translating expressome. O'Reilly FJ, Xue L et al. Science. 2020 Jul 31;369(6503):554-557.

Structural insights into differences in G protein activation by family A and family B GPCRs. Hilger D, Kumar KK et al. Science. 2020 Jul 31;369(6503). pii: eaba3373.

Pre-initiation and elongation structures of full-length La Crosse virus polymerase reveal functionally important conformational changes. Arragain B, Effantin G et al. Nat Commun. 2020 Jul 17;11(1):3590.

Cross-neutralization of SARS-CoV-2 by a human monoclonal SARS-CoV antibody. Pinto D, Park YJ et al. Nature. 2020 Jul 9;583(7815):290-295.

How IGF-II binds to the human type 1 insulin-like growth factor receptor. Xu Y, Kirk NS et al. Structure. 2020 Jul 7;28(7):786-798.e6.

Electromechanical coupling in the hyperpolarization-activated K+ channel KAT1. Clark MD, Contreras GF et al. Nature. 2020 Jul 2;583(7814):145-149.

Cryo-EM structure of islet amyloid polypeptide fibrils reveals similarities with amyloid-β fibrils. Röder C, Kupreichyk T et al. Nat Struct Mol Biol. 2020 Jul;27(7):660-667.

Cryo-EM structure of the human cohesin-NIPBL-DNA complex. Shi Z, Gao H et al. Science. 2020 Jun 26;368(6498):1454-1459.

Ciliate mitoribosome illuminates evolutionary steps of mitochondrial translation. Tobiasson V, Amunts A. eLife. 2020 Jun 18;9. pii: e59264.

Structures of cell wall arabinosyltransferases with the anti-tuberculosis drug ethambutol. Zhang L, Zhao Y et al. Science. 2020 Jun 12;368(6496):1211-1219.

The His-Gly motif of acid-sensing ion channels resides in a reentrant 'loop' implicated in gating and ion selectivity. Yoder N, Gouaux E. eLife. 2020 Jun 4;9. pii: e56527.

AcrIF9 tethers non-sequence specific dsDNA to the CRISPR RNA-guided surveillance complex. Hirschi M, Lu WT et al. Nat Commun. 2020 Jun 1;11(1):2730.

HIV-1 envelope and MPER antibody structures in lipid assemblies. Rantalainen K, Berndsen ZT et al. Cell Rep. 2020 Apr 28;31(4):107583.

Structure of a trapped radical transfer pathway within a ribonucleotide reductase holocomplex. Kang G, Taguchi AT et al. Science. 2020 Apr 24;368(6489):424-427.

The Ccr4-Not complex monitors the translating ribosome for codon optimality. Buschauer R, Matsuo Y et al. Science. 2020 Apr 17;368(6488). pii: eaay6912.

Structure, function, and antigenicity of the SARS-CoV-2 spike glycoprotein. Walls AC, Park YJ et al. Cell. 2020 Apr 16;181(2):281-292.e6.

Cryo-EM structure of the RNA-rich plant mitochondrial ribosome. Waltz F, Soufari H et al. Nat Plants. 2020 Apr;6(4):377-383.

Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA. Madru C, Henneke G et al. Nat Commun. 2020 Mar 27;11(1):1591.

Cryo-EM structure of SWI/SNF complex bound to a nucleosome. Han Y, Reyes AA et al. Nature. 2020 Mar 19;579(7799):452-455.

Structure of V-ATPase from the mammalian brain. Abbas YM, Wu D et al. Science. 2020 Mar 13;367(6483):1240-1246.

Structure of CD20 in complex with the therapeutic monoclonal antibody rituximab. Rougé L, Chiang N et al. Science. 2020 Mar 13;367(6483):1224-1230.

Structure of the neurotensin receptor 1 in complex with β-arrestin 1. Huang W, Masureel M et al. Nature. 2020 Mar 12;579(7798):303-308.

Structure of a paramyxovirus polymerase complex reveals a unique methyltransferase-CTD conformation. Abdella R, Aggarwal M et al. Proc Natl Acad Sci USA. 2020 Mar 3;117(9):4931-4941.

Structure of nucleosome-bound human BAF complex. He S, Wu Z et al. Science. 2020 Feb 21;367(6480):875-881.

Constructing protein polyhedra via orthogonal chemical interactions. Golub E, Subramanian RH et al. Nature. 2020 Feb 6;578(7793):172-176.

Structure of the Bcs1 AAA-ATPase suggests an airlock-like translocation mechanism for folded proteins. Kater L, Wagener N et al. Nat Struct Mol Biol. 2020 Feb;27(2):142-149.

Structure of SAGA and mechanism of TBP deposition on gene promoters. Papai G, Frechard A et al. Nature. 2020 Jan 30;577(7792):711-716.

The inner junction complex of the cilia is an interaction hub that involves tubulin post-translational modifications. Khalifa AAZ, Ichikawa M et al. eLife. 2020 Jan 17;9. pii: e52760.

Architecture of the chromatin remodeler RSC and insights into its nucleosome engagement. Patel AB, Moore CM et al. eLife. 2019 Dec 30;8. pii: e54449.

Molecular basis of force-from-lipids gating in the mechanosensitive channel MscS. Reddy B, Bavi N et al. eLife. 2019 Dec 27;8. pii: e50486.

Cryo-electron microscopy structures of human oligosaccharyltransferase complexes OST-A and OST-B. Ramírez AS, Kowal J, Locher KP. Science. 2019 Dec 13;366(6471):1372-1375.

Federating structural models and data: Outcomes from a workshop on archiving integrative structures. Berman HM, Adams PD et al. Structure. 2019 Dec 3;27(12):1745-1759.

High-resolution view of the type III secretion export apparatus in situ reveals membrane remodeling and a secretion pathway. Butan C, Lara-Tejero M et al. Proc Natl Acad Sci USA. 2019 Dec 3;116(49):24786-24795.

Structures of MERS-CoV spike glycoprotein in complex with sialoside attachment receptors. Park YJ, Walls AC et al. Nat Struct Mol Biol. 2019 Dec;26(12):1151-1157.

Jump ahead with a twist: DNA acrobatics drive transposition forward. Arinkin V, Smyshlyaev G, Barabas O. Curr Opin Struct Biol. 2019 Dec;59:168-177.

Structures of a RAG-like transposase during cut-and-paste transposition. Liu C, Yang Y, Schatz DG. Nature. 2019 Nov 21;575(7783):540-544.

Defects in the assembly of ribosomes selected for β-amino acid incorporation. Ward FR, Watson ZL et al. Biochemistry. 2019 Nov 12;58(45):4494-4504.

Structure of the Fanconi anaemia monoubiquitin ligase complex. Shakeel S, Rajendra E et al. Nature. 2019 Nov 7;575(7781):234-237.

Atomic structures of an entire contractile injection system in both the extended and contracted states. Desfosses A, Venugopal H et al. Nat Microbiol. 2019 Nov;4(11):1885-1894.

Structure of a P element transposase-DNA complex reveals unusual DNA structures and GTP-DNA contacts. Ghanim GE, Kellogg EH et al. Nat Struct Mol Biol. 2019 Nov;26(11):1013-1022.

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