SMTL ID : 6wsb.1

Crystal structure of a betaine aldehyde dehydrogenase from Burkholderia pseudomallei bound to cofactor NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Covalent)

NAD.1: 26 residues within 4Å: Chain A: I.149, G.150, A.151, W.152, N.153, K.176, P.177, S.178, E.179, D.208, G.209, G.212, A.213, F.226, T.227, G.228, G.229, T.232, K.235, V.236, E.251, L.252, G.253, C.285, E.386, F.388 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:A.151, A:T.227, A:F.388 Hydrogen bonds: A:G.150, A:K.176, A:E.179, A:G.229, A:T.232, A:G.253, A:E.386 Water bridges: A:N.153, A:E.179, A:S.216, A:T.232, A:K.235, A:K.235, A:K.235, A:K.235, A:K.235, A:E.251, A:E.251 NAD.3: 25 residues within 4Å: Chain B: I.149, G.150, A.151, W.152, N.153, K.176, P.177, S.178, E.179, D.208, G.209, G.212, A.213, F.226, T.227, G.228, G.229, T.232, V.236, E.251, L.252, G.253, C.285, E.386, F.388 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:A.151, B:T.227, B:F.388 Hydrogen bonds: B:G.150, B:K.176, B:E.179, B:G.229, B:T.232, B:T.232, B:G.253, B:K.335, B:E.386 Water bridges: B:T.232, B:K.235, B:K.235, B:K.235, B:E.251, B:E.386 NAD.5: 26 residues within 4Å: Chain C: I.149, G.150, A.151, W.152, N.153, K.176, P.177, S.178, E.179, D.208, G.209, G.212, A.213, F.226, T.227, G.228, G.229, T.232, K.235, V.236, E.251, L.252, G.253, C.285, E.386, F.388 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:A.151, C:T.227, C:F.388 Hydrogen bonds: C:G.150, C:K.176, C:E.179, C:G.229, C:T.232, C:G.253, C:E.386 Water bridges: C:N.153, C:E.179, C:S.216, C:T.232, C:K.235, C:K.235, C:K.235, C:K.235, C:K.235, C:E.251, C:E.251 NAD.7: 25 residues within 4Å: Chain D: I.149, G.150, A.151, W.152, N.153, K.176, P.177, S.178, E.179, D.208, G.209, G.212, A.213, F.226, T.227, G.228, G.229, T.232, V.236, E.251, L.252, G.253, C.285, E.386, F.388 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:A.151, D:T.227, D:F.388 Hydrogen bonds: D:G.150, D:K.176, D:E.179, D:G.229, D:T.232, D:T.232, D:G.253, D:K.335, D:E.386 Water bridges: D:T.232, D:K.235, D:K.235, D:K.235, D:E.251, D:E.386

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: L.6, Q.7, R.8, H.15 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.8, A:H.15 GOL.4: 4 residues within 4Å: Chain B: L.6, R.8, D.17, Q.39 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.8, B:Q.39 GOL.6: 4 residues within 4Å: Chain C: L.6, Q.7, R.8, H.15 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.8, C:H.15 GOL.8: 4 residues within 4Å: Chain D: L.6, R.8, D.17, Q.39 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.8, D:Q.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Beard, D.K. et al., Crystal structure of betaine aldehyde dehydrogenase from Burkholderia pseudomallei. Acta Crystallogr.,Sect.F (2022)

Release Date

2020-05-20

Peptides

NAD/NADP-dependent betaine aldehyde dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

NAD/NADP-dependent betaine aldehyde dehydrogenase

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