SMTL ID : 3uf0.1 (2 other biounits)

Crystal structure of a putative NAD(P) dependent gluconate 5-dehydrogenase from Beutenbergia cavernae(EFI target EFI-502044) with bound NADP (low occupancy)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 28 residues within 4Å: Chain A: G.38, S.41, G.42, I.43, G.62, R.63, T.64, A.86, D.87, L.88, A.89, N.113, A.114, G.115, I.116, V.136, I.163, A.164, S.165, Y.178, K.182, P.208, G.209, Y.210, V.211, T.213, N.215, T.216 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:P.208 Hydrogen bonds: A:S.41, A:S.41, A:S.41, A:S.41, A:I.43, A:D.87, A:D.87, A:L.88, A:A.89, A:N.113, A:G.115, A:Y.178, A:K.182, A:V.211, A:V.211, A:T.213, A:N.215, A:N.215 Water bridges: A:G.40, A:G.44, A:N.113, A:A.214 Salt bridges: A:R.63 NAP.2: 28 residues within 4Å: Chain B: G.38, S.41, G.42, I.43, G.62, R.63, A.86, D.87, L.88, A.89, N.113, A.114, G.115, I.116, V.136, I.163, A.164, S.165, Y.178, K.182, P.208, G.209, Y.210, V.211, T.213, A.214, N.215, T.216 24 PLIP interactions: 24 interactions with chain B Hydrogen bonds: B:G.40, B:S.41, B:S.41, B:S.41, B:S.41, B:I.43, B:D.87, B:L.88, B:A.89, B:N.113, B:G.115, B:Y.178, B:K.182, B:V.211, B:V.211, B:T.213, B:A.214, B:N.215, B:N.215 Water bridges: B:G.44, B:N.113 Salt bridges: B:R.63 pi-Cation interactions: B:R.63, B:R.63 NAP.3: 28 residues within 4Å: Chain C: G.38, S.41, G.42, I.43, G.62, R.63, T.64, A.86, D.87, L.88, A.89, N.113, A.114, G.115, I.116, V.136, I.163, A.164, S.165, Y.178, K.182, P.208, G.209, Y.210, V.211, T.213, N.215, T.216 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:P.208 Hydrogen bonds: C:S.41, C:S.41, C:S.41, C:S.41, C:I.43, C:D.87, C:L.88, C:A.89, C:N.113, C:G.115, C:K.182, C:V.211, C:V.211, C:T.213, C:T.213, C:N.215, C:N.215 Water bridges: C:G.40, C:G.44, C:N.113, C:A.214 Salt bridges: C:R.63 NAP.4: 28 residues within 4Å: Chain D: G.38, S.41, G.42, I.43, G.62, R.63, A.86, D.87, L.88, A.89, N.113, A.114, G.115, I.116, V.136, I.163, A.164, S.165, Y.178, K.182, P.208, G.209, Y.210, V.211, T.213, A.214, N.215, T.216 24 PLIP interactions: 24 interactions with chain D Hydrogen bonds: D:G.40, D:S.41, D:S.41, D:S.41, D:S.41, D:I.43, D:D.87, D:L.88, D:A.89, D:N.113, D:G.115, D:K.182, D:V.211, D:V.211, D:T.213, D:T.213, D:A.214, D:N.215, D:N.215 Water bridges: D:G.44, D:N.113 Salt bridges: D:R.63 pi-Cation interactions: D:R.63, D:R.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vetting, M.W. et al., Crystal structure of a putative NAD(P) dependent gluconate 5-dehydrogenase from Beutenbergia cavernae(EFI target EFI-502044) with bound NADP (low occupancy). To be Published

Release Date

2011-11-23

Peptides

Short-chain dehydrogenase/reductase SDR: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Short-chain dehydrogenase/reductase SDR

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