SMTL ID : 5wjs.1

Crystal structure of oxidoreductase (short chain dehydrogenase/reductase family) from Burkholderia thailandensis complexed with NADH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

NAI.1: 29 residues within 4Å: Chain A: G.44, T.47, G.48, I.49, D.68, L.69, D.70, C.93, D.94, L.95, T.96, N.121, A.122, A.123, V.144, L.171, G.172, S.173, Y.186, K.190, P.216, G.217, W.218, V.219, T.221, K.223 Ligands: EDO.3, EDO.5, EDO.6 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:A.46, A:T.47, A:T.47, A:I.49, A:L.69, A:D.94, A:D.94, A:L.95, A:T.96, A:N.121, A:Y.186, A:K.190, A:V.219, A:V.219 Water bridges: A:G.50, A:N.121, A:Q.149, A:Q.224, A:Q.224 Salt bridges: A:K.223 NAI.9: 27 residues within 4Å: Chain B: G.44, T.47, G.48, I.49, D.68, L.69, C.93, D.94, L.95, T.96, N.121, A.122, A.123, V.144, L.171, G.172, S.173, Y.186, K.190, P.216, G.217, W.218, V.219, T.221, K.223 Ligands: EDO.11, EDO.17 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:T.47, B:T.47, B:T.47, B:I.49, B:L.69, B:D.94, B:L.95, B:T.96, B:N.121, B:Y.186, B:K.190, B:V.219, B:V.219 Water bridges: B:G.50, B:Q.149, B:Q.224, B:Q.224 Salt bridges: B:K.223

16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: S.23, A.24, Q.25, D.26, Y.29, A.30, Q.60 Ligand excluded by PLIP EDO.3: 4 residues within 4Å: Chain A: L.178, N.180 Ligands: NAI.1, EDO.6 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: R.198, A.269, Q.270 Chain B: M.177, V.273, A.279 Ligand excluded by PLIP EDO.5: 8 residues within 4Å: Chain A: A.123, N.124, D.125, Y.186, K.223, Q.224 Ligands: NAI.1, EDO.6 Ligand excluded by PLIP EDO.6: 9 residues within 4Å: Chain A: D.125, R.127, Y.183, Y.186, W.218, Q.224 Ligands: NAI.1, EDO.3, EDO.5 Ligand excluded by PLIP EDO.7: 5 residues within 4Å: Chain A: G.205, P.206, G.208 Chain B: I.243, D.244 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: I.243, D.244 Chain B: G.205, P.206, G.208 Ligand excluded by PLIP EDO.10: 6 residues within 4Å: Chain A: M.177, V.273, A.279 Chain B: R.198, A.269, Q.270 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain B: L.178, N.180, W.218 Ligands: NAI.9 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain B: A.131, V.133, T.134 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain B: S.23, A.24, Q.25, D.26, Y.29, A.30, Q.60 Ligand excluded by PLIP EDO.14: 2 residues within 4Å: Chain B: Q.154, D.158 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain B: A.58, R.59, G.61, A.84, A.85 Ligand excluded by PLIP EDO.16: 1 residues within 4Å: Chain B: A.107 Ligand excluded by PLIP EDO.17: 6 residues within 4Å: Chain B: A.123, N.124, D.125, Y.186, Q.224 Ligands: NAI.9 Ligand excluded by PLIP EDO.18: 2 residues within 4Å: Chain B: D.132, S.137 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Phan, J.N. et al., Crystal structure of oxidoreductase (short chain dehydrogenase/reductase family) from Burkholderia thailandensis complexed with NADH. TO BE PUBLISHED

Release Date

2017-08-09

Peptides

Oxidoreductase, short chain dehydrogenase/reductase family: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Oxidoreductase, short chain dehydrogenase/reductase family

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