SMTL ID : 3iqd.1

Structure of Octopine-dehydrogenase in complex with NADH and Agmatine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.1: 17 residues within 4Å: Chain A: G.10, G.11, N.12, G.13, T.33, F.35, E.38, P.91, F.93, A.94, P.116, T.143, L.144, W.146, A.147, C.148, R.324 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.144, A:L.144 Hydrogen bonds: A:G.10, A:G.10, A:N.12, A:N.12, A:G.13, A:E.38, A:Y.98, A:C.148, A:C.148 Salt bridges: A:R.324 pi-Stacking: A:F.35, A:F.35, A:F.93, A:F.93

1 x AG2: AGMATINE(Non-covalent)

AG2.2: 6 residues within 4Å: Chain A: E.142, T.143, M.206, S.207, H.212, W.278 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.143 Hydrogen bonds: A:E.142, A:W.278 Salt bridges: A:E.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smits, S.H.J. et al., Insights into the mechanism of ligand binding to octopine dehydrogenase from Pecten maximus by NMR and crystallography. Plos One (2010)

Release Date

2010-08-25

Peptides

Octopine dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Octopine dehydrogenase