[BiO BB] Getting PDB id from Swissprot entry
Peter Rice
pmr at ebi.ac.uk
Thu Jul 1 08:27:09 EDT 2004
Sourangshu Bhattacharya wrote:
> Hi,
>
> Is there a direct way (without reading the protein name from swissprot
> and searching in PDB) of getting the PDB id of the protein corresponding
> to a particular Swissprot id ?
Yes ... SwissProt has a DR (database reference) line that points to the
PDB entry (assuming, or course, that there is a solved structure in PDB
for that protein).
For example, this entry has 3 PDB references.
ID AMIC_PSEAE STANDARD; PRT; 384 AA.
AC P27017;
DT 01-AUG-1992 (Rel. 23, Created)
DT 16-OCT-2001 (Rel. 40, Last sequence update)
DT 15-JUN-2004 (Rel. 44, Last annotation update)
DE Aliphatic amidase expression-regulating protein.
GN AMIC OR PA3364.
OS Pseudomonas aeruginosa.
OC Bacteria; Proteobacteria; Gammaproteobacteria; Pseudomonadales;
OC Pseudomonadaceae; Pseudomonas.
..... reference (citation) section skipped .....
CC -!- FUNCTION: Negatively regulates the expression of the aliphatic
CC amidase operon. AmiC functions by inhibiting the action of amiR at
CC the protein level. It exhibits protein kinase activity.
CC -!- SUBUNIT: Homodimer. Forms a complex with amiR.
CC -!- DOMAIN: Consists of two beta-alpha-beta domains with a central
CC cleft in which the amide binds.
CC
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DR EMBL; X13776; CAA32024.1; -.
DR EMBL; AE004758; AAG06752.1; -.
DR PIR; C83226; C83226.
DR PDB; 1PEA; 03-APR-96.
DR PDB; 1QNL; 23-DEC-99.
DR PDB; 1QO0; 23-DEC-99.
DR InterPro; IPR000709; Leu_Ile_Val_bind.
DR PRINTS; PR00337; LEUILEVALBP.
KW Transferase; Kinase; Repressor; 3D-structure; Complete proteome;
KW Direct protein sequencing.
..... features and sequence skipped .....
Hope that helps,
Peter Rice
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