Changes between Version 60 and Version 61 of NTTData


Ignore:
Timestamp:
Oct 21, 2021, 2:10:59 PM (4 years ago)
Author:
Elaine Meng
Comment:

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  • NTTData

    v60 v61  
    387387Elaine: other progress, Eric modified script to deal with structures missing many atoms, and correctly handle NMR ensembles. He also added a non-fattened ribbon output.
    388388
    389 
     389Phil: a couple of issues:
     390- EMDB is changing their data model, will stop supporting the current one in Feb 2022... will that cause problems, e.g. in getting the recommended threshold? Elaine: We haven't looked at what's changing yet, so can't say.
     391
     392Tangents on recommended threshold:
     393  - Philip: what else besides EMDB metadata could be used to help users set threshold? TomG: EMDB 3D viz tool Molstar, if they don't want to download/use ChimeraX. Maybe the NIH website could embed Molstar directly for this purpose, but you may have to feed it a reduced-size version of any huge maps. EMDB may already have reduced versions of such entries on their site.
     394  - Darrell has used the EMDB-recommended threshold in Chimera/X and it didn't look the same as the EMDB picture, at least years ago, but as far as we know we haven't seen this problem. TomG: maybe they specified in sigma units rather than in the map raw units and that caused a mismatch.
     395
     396Phil's other issue:
     397- problems with files that just have CA traces. Can we show ribbons for that?  Elaine: yes... sent Phil with example image and CA-only PDB file.
     398
     399Meghan posts link https://ds.litemol.org/ used for streaming in EMDB viewer (?)
     400