SMTL ID : 4tkm.1

Crystal structure of NADH-dependent reductase A1-R' complexed with NAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.67 Å

Oligo State

homo-tetramer

Ligands

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 1 residues within 4Å: Chain A: H.39 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.39 SO4.2: 2 residues within 4Å: Chain A: G.98, R.99 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.99 SO4.3: 6 residues within 4Å: Chain A: G.14, E.17, G.18, I.19, G.20, N.92 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.19, A:G.20, A:N.92 SO4.4: 3 residues within 4Å: Chain A: G.14, S.38, H.39 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.39 Salt bridges: A:H.39 SO4.6: 9 residues within 4Å: Chain B: S.150, I.151, A.193, P.194, G.195, D.250, V.251, N.252, I.256 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.151, B:A.193, B:N.252 SO4.7: 1 residues within 4Å: Chain C: H.39 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:H.39 SO4.8: 2 residues within 4Å: Chain C: G.98, R.99 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.99 SO4.9: 6 residues within 4Å: Chain C: G.14, E.17, G.18, I.19, G.20, N.92 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:I.19, C:G.20, C:N.92 SO4.10: 3 residues within 4Å: Chain C: G.14, S.38, H.39 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:H.39 Salt bridges: C:H.39 SO4.12: 9 residues within 4Å: Chain D: S.150, I.151, A.193, P.194, G.195, D.250, V.251, N.252, I.256 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:I.151, D:A.193, D:D.250, D:N.252

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.5: 25 residues within 4Å: Chain B: G.14, S.15, T.16, E.17, G.18, I.19, N.37, S.38, H.39, A.64, D.65, I.66, T.67, N.92, A.93, G.94, G.95, T.148, G.149, S.150, Y.164, K.168, P.194, G.195, T.196 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:G.14, B:T.16, B:E.17, B:E.17, B:E.17, B:E.17, B:I.19, B:H.39, B:H.39, B:D.65, B:D.65, B:I.66, B:N.92, B:G.94, B:Y.164, B:K.168 pi-Stacking: B:H.39 NAD.11: 25 residues within 4Å: Chain D: G.14, S.15, T.16, E.17, G.18, I.19, N.37, S.38, H.39, A.64, D.65, I.66, T.67, N.92, A.93, G.94, G.95, T.148, G.149, S.150, Y.164, K.168, P.194, G.195, T.196 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:G.14, D:T.16, D:E.17, D:E.17, D:E.17, D:I.19, D:H.39, D:D.65, D:I.66, D:N.92, D:G.94, D:K.168 pi-Stacking: D:H.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Takase, R. et al., Structure-based Conversion of the Coenzyme Requirement of a Short-chain Dehydrogenase/Reductase Involved in Bacterial Alginate Metabolism. J.Biol.Chem. (2014)

Release Date

2014-06-25

Peptides

NADH-dependent reductase for 4-deoxy-L-erythro-5-hexoseulose uronate: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

NADH-dependent reductase for 4-deoxy-L-erythro-5-hexoseulose uronate

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