SMTL ID : 5u4s.1

Crystal structure of a Short chain dehydrogenase from Burkholderia cenocepacia J2315 in complex with NADP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 27 residues within 4Å: Chain A: G.20, D.22, R.23, G.24, L.25, R.46, I.63, D.64, I.65, T.66, N.87, A.88, G.89, V.111, V.137, L.138, S.139, K.156, P.182, G.183, P.184, I.185, T.187, E.188, M.189, S.190 Ligands: BEZ.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:P.182 Hydrogen bonds: A:G.20, A:D.22, A:L.25, A:D.64, A:D.64, A:I.65, A:N.87, A:G.89, A:K.156, A:I.185, A:E.188, A:M.189, A:S.190, A:S.190 Water bridges: A:G.20, A:G.20, A:R.23, A:G.26, A:R.46, A:R.46, A:R.46, A:R.46, A:R.46, A:T.66, A:N.87 Salt bridges: A:R.23, A:R.46 pi-Cation interactions: A:R.46, A:R.46 NAP.4: 26 residues within 4Å: Chain B: G.20, D.22, R.23, G.24, L.25, R.46, I.63, D.64, I.65, T.66, N.87, A.88, G.89, V.111, V.137, L.138, K.156, P.182, G.183, P.184, I.185, T.187, E.188, M.189, S.190 Ligands: BEZ.5 32 PLIP interactions: 32 interactions with chain B Hydrophobic interactions: B:P.182 Hydrogen bonds: B:G.20, B:D.22, B:L.25, B:R.46, B:D.64, B:I.65, B:N.87, B:G.89, B:K.156, B:I.185, B:I.185, B:T.187, B:E.188, B:M.189, B:S.190 Water bridges: B:G.20, B:G.20, B:G.26, B:R.46, B:R.46, B:R.46, B:R.46, B:R.46, B:R.46, B:R.46, B:N.87 Salt bridges: B:R.23, B:R.23, B:R.46 pi-Cation interactions: B:R.46, B:R.46

2 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.2: 8 residues within 4Å: Chain A: N.91, S.139, I.140, L.141, M.149, L.152, P.184 Ligands: NAP.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.140, A:L.141, A:L.141, A:P.184 Hydrogen bonds: A:N.91, A:S.139, A:S.139 BEZ.5: 9 residues within 4Å: Chain B: N.91, S.139, I.140, L.141, M.149, L.152, P.184, M.223 Ligands: NAP.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:I.140, B:L.141, B:L.141, B:P.184 Hydrogen bonds: B:N.91, B:S.139

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 4 residues within 4Å: Chain A: R.143, R.235 Chain B: R.143, R.161 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:R.143 Water bridges: A:R.161, A:R.161, A:R.161, B:R.161, B:R.161, B:R.161, B:R.235 Salt bridges: A:R.143, A:R.235, B:R.143, B:R.161, B:R.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure of a Short chain dehydrogenase from Burkholderia cenocepacia J2315 in complex with NADP. to be published

Release Date

2017-01-18

Peptides

Putative short chain dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative short chain dehydrogenase