SMTL ID : 2nva.1 (3 other biounits)

The X-ray crystal structure of the Paramecium bursaria Chlorella virus arginine decarboxylase bound to agmatine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x PL2: (4-{[(4-{[AMINO(IMINO)METHYL]AMINO}BUTYL)AMINO]METHYL}-5-HYDROXY-6-METHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE(Non-covalent)

PL2.1: 22 residues within 4Å: Chain A: A.46, K.48, D.67, A.90, L.145, H.176, S.179, G.180, G.215, G.216, E.252, P.253, G.254, R.255, N.292, F.295, E.296, Y.353, L.357 Chain B: Y.287, C.324, D.325 18 PLIP interactions: 15 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:K.48, A:G.180, A:G.216, A:G.254, A:R.255, A:N.292, A:Y.353, B:Y.287 Water bridges: A:R.133, A:L.217, A:L.217, A:F.256, B:C.324 Salt bridges: A:H.176, A:R.255, A:E.296, B:D.325 pi-Stacking: A:H.176 PL2.2: 23 residues within 4Å: Chain A: Y.287, C.324, D.325 Chain B: A.46, K.48, D.67, A.90, R.133, L.145, H.176, S.179, G.180, G.215, G.216, E.252, P.253, G.254, R.255, N.292, F.295, E.296, Y.353, L.357 18 PLIP interactions: 14 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.48, B:G.180, B:G.216, B:G.254, B:R.255, B:N.292, B:Y.353, A:Y.287 Water bridges: B:R.133, B:L.217, B:L.217, A:C.324 Salt bridges: B:H.176, B:R.255, B:E.296, A:D.325 pi-Stacking: B:H.176 Hydrophobic interactions: A:D.325

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shah, R. et al., X-ray Structure of Paramecium bursaria Chlorella Virus Arginine Decarboxylase: Insight into the Structural Basis for Substrate Specificity. Biochemistry (2007)

Release Date

2007-03-20

Peptides

arginine decarboxylase, A207R protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

arginine decarboxylase, A207R protein

Related Entries With Identical Sequence