SMTL ID : 2y99.1

Crystal Structure of cis-Biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)from Pandoraea pnomenusa strain B-356 complex with co-enzyme NAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 27 residues within 4Å: Chain A: G.12, S.15, G.16, L.17, G.18, D.36, K.37, G.58, D.59, V.60, R.61, N.86, G.88, V.114, Y.119, T.140, I.141, S.142, N.143, Y.155, K.159, P.184, M.187, T.189, D.190, L.191, R.192 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:A.14, A:S.15, A:S.15, A:S.15, A:S.15, A:L.17, A:G.18, A:K.37, A:D.59, A:V.60, A:R.61, A:N.86, A:Y.119, A:Y.155, A:K.159, A:M.187, A:T.189, A:R.192 Water bridges: A:T.189 NAD.2: 29 residues within 4Å: Chain B: G.12, S.15, G.16, L.17, D.36, K.37, G.58, D.59, V.60, R.61, N.86, A.87, G.88, I.89, V.114, Y.119, T.140, I.141, S.142, N.143, Y.155, K.159, P.184, G.185, M.187, T.189, D.190, L.191, R.192 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:A.14, B:S.15, B:S.15, B:S.15, B:L.17, B:K.37, B:K.37, B:D.59, B:D.59, B:V.60, B:R.61, B:N.86, B:Y.119, B:Y.155, B:K.159, B:T.189, B:R.192 Water bridges: B:G.18, B:N.86 Salt bridges: B:R.192 pi-Cation interactions: B:K.37 NAD.3: 27 residues within 4Å: Chain C: G.12, S.15, G.16, L.17, G.18, D.36, K.37, G.58, D.59, V.60, R.61, N.86, G.88, V.114, Y.119, T.140, I.141, S.142, N.143, Y.155, K.159, P.184, M.187, T.189, D.190, L.191, R.192 17 PLIP interactions: 17 interactions with chain C Hydrogen bonds: C:A.14, C:S.15, C:S.15, C:S.15, C:S.15, C:L.17, C:G.18, C:K.37, C:D.59, C:V.60, C:R.61, C:N.86, C:K.159, C:M.187, C:T.189, C:T.189, C:R.192 NAD.4: 29 residues within 4Å: Chain D: G.12, S.15, G.16, L.17, D.36, K.37, G.58, D.59, V.60, R.61, N.86, A.87, G.88, I.89, V.114, Y.119, T.140, I.141, S.142, N.143, Y.155, K.159, P.184, G.185, M.187, T.189, D.190, L.191, R.192 17 PLIP interactions: 17 interactions with chain D Hydrogen bonds: D:A.14, D:S.15, D:S.15, D:S.15, D:L.17, D:K.37, D:K.37, D:D.59, D:V.60, D:R.61, D:N.86, D:K.159, D:R.192 Water bridges: D:G.18, D:N.86 Salt bridges: D:R.192 pi-Cation interactions: D:K.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dhindwal, S. et al., Biochemical Studies and Ligand-Bound Structures of Biphenyl Dehydrogenase from Pandoraea Pnomenusa Strain B-356 Reveal a Basis for Broad Specificity of the Enzyme. J.Biol.Chem. (2011)

Release Date

2011-08-31

Peptides

CIS-2,3-DIHYDROBIPHENYL-2,3-DIOL DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

CIS-2,3-DIHYDROBIPHENYL-2,3-DIOL DEHYDROGENASE

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