[phenixbb] extract sequence from pdb

[Pavel Afonine]

Hi Maia,

it would be helpful if you can send us the PDB file so we can reproduce 
and fix this problem (send it to my address, not to the whole bb).

Pavel.


On 6/10/09 11:06 AM, Maia Cherney wrote:
> Thank you Francis and Sabine for your help.
>
> phenix.print_sequence worked fine. The only problem I had with one pdb, 
> for some reason the sequence of each subunit was doubled. There was no 
> such problem with the pdbset.
>
> Maia
>
>
> Maia
>
> Francis E Reyes wrote:
>   
>> phenix.print_sequence
>>
>>
>> phenix.* has a lot of good utils I didnt know about until I tab 
>> completed it.
>>
>> FR
>>
>> On Jun 8, 2009, at 9:17 AM, chern wrote:
>>
>>     
>>> Hi everybody,
>>>
>>> I am building a model of protein and the sequence has wrong parts. I 
>>> want to compare it to the original sequence side-by-side. How can I 
>>> extract a one-letter sequence from the pdb file?  This information 
>>> should be easily generated by auto build. I mean, I give the pdb and 
>>> get the fasta format sequence.
>>>
>>> Maia
>>> _______________________________________________
>>> phenixbb mailing list
>>> phenixbb at phenix-online.org
>>> http://www.phenix-online.org/mailman/listinfo/phenixbb
>>>       
>> ---------------------------------------------
>> Francis Reyes M.Sc.
>> 215 UCB
>> University of Colorado at Boulder
>>
>> gpg --keyserver pgp.mit.edu --recv-keys 67BA8D5D
>>
>> 8AE2 F2F4 90F7 9640 28BC  686F 78FD 6669 67BA 8D5D
>>
>>
>> ------------------------------------------------------------------------
>>
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>>   
>>     
>
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