Changes between Version 1 and Version 2 of Ticket #6067, comment 4


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Timestamp:
Apr 19, 2022, 5:56:41 PM (4 years ago)
Author:
Tom Goddard

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  • Ticket #6067, comment 4

    v1 v2  
    1 It can also happen that there are more than one set of symmetry operators which is said to produce chain identifiers like A-3-25.  So they can get longish.  The use the original PDB chain ids as the prefix, so we may also see for a model with chain 1, chain ids like 1-2, 1-3, 1-4, 1-27.  At any rate if you know the tricks still get by in ChimeraX with these files.
     1It can also happen that there are more than one set of symmetry operators which is said to produce chain identifiers like A-3-25.  So they can get longish.  They use the original PDB chain ids as the prefix, so we may also see for a model with chain 1, chain ids like 1-2, 1-3, 1-4, 1-27.  At any rate if you know the tricks you can still get by in ChimeraX with these files.
    22
    33But some things in addition to hand-type atom-specs are broken.  For instance menu Select / Chains / A-10 does not select anything producing command "select #2/A-10".  And other GUI generated commands are likely to fail unless we spruce up the Python code that produces atom specifier strings so it looks for "-" in chain identifiers.  The mmCIF spec seems to allow not only "-" but also "/", ":", ",", "&", "|", ">", ... basically any punctuation in the chain identifier.  If anyone starts using these in mmCIF files ChimeraX is going to be pretty upset about it.