SMTL ID : 3fwn.1

Dimeric 6-phosphogluconate dehydrogenase complexed with 6-phosphogluconate and 2'-monophosphoadenosine-5'-diphosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

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

6PG.1: 16 residues within 4Å: Chain A: N.114, S.140, G.141, G.142, K.195, H.198, N.199, E.202, Y.203, N.271, K.272, R.299, I.377 Chain B: R.457, F.460, H.463 20 PLIP interactions: 18 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.141, A:G.142, A:K.195, A:K.195, A:N.199, A:E.202, A:Y.203, A:K.272 Water bridges: A:N.114, A:E.202, A:Y.203, A:K.272, A:T.274, A:T.274, A:R.299 Salt bridges: A:K.195, A:H.198, A:R.299, B:R.457, B:H.463 6PG.3: 16 residues within 4Å: Chain A: R.457, F.460, H.463 Chain B: N.114, S.140, G.141, G.142, K.195, H.198, N.199, E.202, Y.203, N.271, K.272, R.299, I.377 19 PLIP interactions: 13 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:N.114, B:G.141, B:G.142, B:K.195, B:K.195, B:N.199, B:E.202, B:K.272 Water bridges: B:R.299, B:R.299, A:G.461, A:G.461, A:H.463, A:H.463 Salt bridges: B:K.195, B:H.198, B:R.299, A:R.457, A:H.463

1 x ATR: 2'-MONOPHOSPHOADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ATR.2: 12 residues within 4Å: Chain B: G.22, M.23, A.24, N.45, R.46, S.47, K.50, V.86, K.87, G.91, A.94, K.272 20 PLIP interactions: 19 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:M.23, B:A.24, B:N.45, B:N.45, B:S.47, B:S.47, B:K.87 Water bridges: B:R.46, B:R.46, B:R.46, B:R.46, B:K.87, B:K.272, B:K.272, A:H.463 Salt bridges: B:R.46, B:K.50, B:K.272 pi-Cation interactions: B:R.46, B:R.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y.-Y. et al., Conformational changes associated with cofactor/substrate binding of 6-phosphogluconate dehydrogenase from Escherichia coli and Klebsiella pneumoniae: Implications for enzyme mechanism. J.Struct.Biol. (2010)

Release Date

2009-09-01

Peptides

6-phosphogluconate dehydrogenase, decarboxylating: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

6-phosphogluconate dehydrogenase, decarboxylating