SMTL ID : 2iyo.1

Structural characterization of a bacterial 6PDH reveals aspects of specificity, mechanism and mode of inhibition

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x 6PG: 6-PHOSPHOGLUCONIC ACID(Non-covalent)

6PG.1: 18 residues within 4Å: Chain A: N.102, V.127, S.128, G.129, G.130, K.184, H.187, N.188, E.191, Y.192, N.261, K.262, T.264, R.289, I.367 Chain B: R.447, F.450, H.453 20 PLIP interactions: 17 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.102, A:G.129, A:G.130, A:K.184, A:K.184, A:N.188, A:E.191, A:Y.192, A:K.262, A:T.264 Water bridges: A:N.102, A:E.191, A:K.262, A:R.289, B:F.450 Salt bridges: A:K.184, A:H.187, A:R.289, B:R.447, B:H.453 6PG.3: 18 residues within 4Å: Chain A: R.447, F.450, H.453 Chain B: N.102, V.127, S.128, G.129, G.130, K.184, H.187, N.188, E.191, Y.192, N.261, K.262, T.264, R.289, I.367 18 PLIP interactions: 14 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.102, B:G.129, B:G.130, B:K.184, B:K.184, B:N.188, B:E.191, B:K.262, B:T.264, A:H.453 Water bridges: B:R.289, B:R.289, A:F.450 Salt bridges: B:K.184, B:H.187, B:R.289, A:R.447, A:H.453

2 x CAC: CACODYLATE ION(Non-covalent)

CAC.2: 4 residues within 4Å: Chain A: G.451, A.452, H.453 Chain B: K.262 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.262 CAC.4: 4 residues within 4Å: Chain A: K.262 Chain B: G.451, A.452, H.453 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.262, B:H.453

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sundaramoorthy, R. et al., Crystal Structures of a Bacterial 6-Phosphogluconate Dehydrogenase Reveal Aspects of Specificity, Mechanism and Mode of Inhibition by Analogues of High-Energy Reaction Intermediates. FEBS J. (2007)

Release Date

2007-01-23

Peptides

6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING