Proposal to add ability to load CATH domains in Chimera
Dear Chimera people, Many thanks to all Chimera contributors. Please may I propose an addition to allow users to access our CATH domains in the same way that they can currently access SCOP domains ( https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/scop.html )? PDBs for CATH domains can be loaded from URI's of the form: http://data.cathdb.info/latest_release/pdb/1cukA01 For information, CATH domain IDs contain 7 digits: - 1-4 : (eg 1cuk ) : PDB code - 5 : (eg A ) : chain code - 6-7 : (eg 01 ) : 2-digit domain number ( '00' for whole chain domains ) We here at CATH would be very happy to provide any other information required to implement this. Many thanks for your help. Kind regards, Tony Dr Tony Lewis Orengo Group UCL
On Sep 29, 2014, at 7:27 AM, Tony Lewis <t.lewis@ucl.ac.uk> wrote:
Dear Chimera people,
Many thanks to all Chimera contributors.
Please may I propose an addition to allow users to access our CATH domains in the same way that they can currently access SCOP domains ( https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/scop.html )?
PDBs for CATH domains can be loaded from URI's of the form: http://data.cathdb.info/latest_release/pdb/1cukA01
For information, CATH domain IDs contain 7 digits: 1-4 : (eg 1cuk ) : PDB code 5 : (eg A ) : chain code 6-7 : (eg 01 ) : 2-digit domain number ( '00' for whole chain domains ) We here at CATH would be very happy to provide any other information required to implement this.
Hi Tony, I've added CATH fetching to Chimera and it will show up in the tonight's daily build. Look for builds dated September 27 or later. The above information was sufficient. Let me know if you find any rough edges. :-) --Eric Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu
Oh, and thanks for the info BTW. Very happy to add this capability to Chimera. --Eric On Sep 29, 2014, at 11:59 AM, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
On Sep 29, 2014, at 7:27 AM, Tony Lewis <t.lewis@ucl.ac.uk> wrote:
Dear Chimera people,
Many thanks to all Chimera contributors.
Please may I propose an addition to allow users to access our CATH domains in the same way that they can currently access SCOP domains ( https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/scop.html )?
PDBs for CATH domains can be loaded from URI's of the form: http://data.cathdb.info/latest_release/pdb/1cukA01
For information, CATH domain IDs contain 7 digits: 1-4 : (eg 1cuk ) : PDB code 5 : (eg A ) : chain code 6-7 : (eg 01 ) : 2-digit domain number ( '00' for whole chain domains ) We here at CATH would be very happy to provide any other information required to implement this.
Hi Tony, I've added CATH fetching to Chimera and it will show up in the tonight's daily build. Look for builds dated September 27 or later. The above information was sufficient. Let me know if you find any rough edges. :-)
--Eric
Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu
_______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users
Dear Eric, Thank you very much for adding this new feature and for doing it so quickly. I'm both impressed and grateful. Kind regards, Tony Dr Tony Lewis Orengo Group UCL On 29 September 2014 20:54, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
Oh, and thanks for the info BTW. Very happy to add this capability to Chimera.
--Eric
On Sep 29, 2014, at 11:59 AM, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
On Sep 29, 2014, at 7:27 AM, Tony Lewis <t.lewis@ucl.ac.uk> wrote:
Dear Chimera people,
Many thanks to all Chimera contributors.
Please may I propose an addition to allow users to access our CATH domains in the same way that they can currently access SCOP domains ( https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/scop.html )?
PDBs for CATH domains can be loaded from URI's of the form: http://data.cathdb.info/latest_release/pdb/1cukA01
For information, CATH domain IDs contain 7 digits:
- 1-4 : (eg 1cuk ) : PDB code - 5 : (eg A ) : chain code - 6-7 : (eg 01 ) : 2-digit domain number ( '00' for whole chain domains )
We here at CATH would be very happy to provide any other information required to implement this.
Hi Tony, I've added CATH fetching to Chimera and it will show up in the tonight's daily build. Look for builds dated September 27 or later. The above information was sufficient. Let me know if you find any rough edges. :-)
--Eric
Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu
_______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users
participants (2)
-
Eric Pettersen -
Tony Lewis