[Chimera-users] differentiating lower and upper case chain ID's

[Melissa Jurica]

OK- thanks.
M

^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Melissa S. Jurica, Ph.D.
Professor, Molecular, Cell & Developmental Biology
Center for Molecular Biology of RNA
University of California, Santa Cruz
1156 High Street
Santa Cruz, CA 95064

Office: 450 Sinsheimer Labs	Lab: 434 Sinsheimer Labs 
Office phone (831) 459-4427	Lab phone (831) 459-2463	Fax (831) 459-3139
http://www.mcd.ucsc.edu/faculty/jurica.html
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

On Sep 28, 2016, at 2:12 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Melissa,
> After you use split, there is no a longer a model with both upper- and lower-case chain IDs (since each model is now only one chain) and so the case is ignored.  After splitting you would have to specify by model number instead, e.g. #0.25.  It is only in models with both upper- and lower-case chain IDs that the case you type matters.
> Elaine
> 
>> On Sep 28, 2016, at 9:53 AM, Melissa Jurica <mjurica at ucsc.edu> wrote:
>> 
>> Hmm.  If I have a command file with the following, both chains end up being called smb1_b.  Am I missing something?  Prior to running this I used the “split” command to separate the chains into sub-models.
>> 
>> setattr m name  Brr2_B #0:.B
>> setattr m name  smb1_b #0:.b
>> 
>> Melissa
>> 
>> On Sep 28, 2016, at 9:43 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
>> 
>>> Hi Melissa,
>>> This is already done.  Although chain-ID capitalization is ignored when the file has only capitalized IDs, when both are present, the upper- or lower-case that you type is honored.  I tested by opening 5GM6, and making sure that the following give different results:
>>> 
>>> sel :.a
>>> sel :.A
>>> 
>>> Best,
>>> Elaine
>>> ----------
>>> Elaine C. Meng, Ph.D. 
>>> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
>>> Department of Pharmaceutical Chemistry
>>> University of California, San Francisco
>>> 
>>>> On Sep 27, 2016, at 4:24 PM, Melissa Jurica <mjurica at ucsc.edu> wrote:
>>>> 
>>>> Hi-
>>>> Is it possible to differentiate between chain ID’s that are in upper vs. lower case (i.e. A vs. a) in the command line?  Spliceosome complexes have too many chains (ex. 5GM6).
>>>> Thanks,
>>>> Melissa
>>> 
> 

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