SMTL ID : 6a3g.1

Levoglucosan dehydrogenase, complex with NADH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

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

NAI.1: 26 residues within 4Å: Chain A: I.29, G.32, F.33, M.34, A.62, E.63, A.64, L.68, A.100, T.101, P.102, N.103, L.105, H.106, E.123, K.124, P.125, A.150, N.152, Y.153, W.195, R.196, D.209, H.213, Y.355, K.359 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:F.33 Hydrogen bonds: A:F.33, A:M.34, A:T.101, A:N.103, A:E.123, A:K.124, A:D.209, A:Y.355, A:K.359 Water bridges: A:G.32, A:G.35, A:E.63, A:N.103, A:W.195, A:R.196, A:R.196, A:R.196 Salt bridges: A:R.196 NAI.2: 26 residues within 4Å: Chain B: I.29, G.32, F.33, M.34, A.62, E.63, A.64, W.85, A.100, T.101, P.102, N.103, L.105, H.106, E.123, K.124, P.125, A.150, N.152, Y.153, W.195, R.196, D.209, H.213, Y.355, K.359 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.33 Hydrogen bonds: B:F.33, B:M.34, B:T.101, B:N.103, B:E.123, B:K.124, B:D.209, B:Y.355, B:K.359 Water bridges: B:G.32, B:G.35, B:E.63, B:N.103 Salt bridges: B:R.196 NAI.3: 27 residues within 4Å: Chain C: I.29, G.30, G.32, F.33, M.34, A.62, E.63, A.64, W.85, A.100, T.101, P.102, N.103, L.105, H.106, E.123, K.124, P.125, A.150, N.152, Y.153, W.195, R.196, D.209, H.213, Y.355, K.359 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:F.33 Hydrogen bonds: C:G.32, C:F.33, C:M.34, C:T.101, C:N.103, C:E.123, C:K.124, C:Y.153, C:K.359 Water bridges: C:G.35, C:E.63, C:N.103, C:R.196, C:R.196 Salt bridges: C:R.196 NAI.4: 26 residues within 4Å: Chain D: I.29, G.30, G.32, F.33, M.34, A.62, E.63, A.64, A.100, T.101, P.102, N.103, L.105, H.106, E.123, K.124, P.125, A.150, N.152, Y.153, W.195, R.196, D.209, H.213, Y.355, K.359 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:F.33, D:K.124 Hydrogen bonds: D:G.32, D:F.33, D:M.34, D:T.101, D:N.103, D:K.124, D:N.152, D:K.359 Water bridges: D:G.35, D:E.63, D:N.103, D:R.196 Salt bridges: D:R.196 pi-Cation interactions: D:K.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sugiura, M. et al., Identification, functional characterization, and crystal structure determination of bacterial levoglucosan dehydrogenase. J. Biol. Chem. (2018)

Release Date

2018-09-26

Peptides

Putative dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Putative dehydrogenase

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