SMTL ID : 1o00.1 (1 other biounit)

Human mitochondrial aldehyde dehydrogenase complexed with NAD+ and Mg2+ showing dual NAD(H) conformations

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 2 residues within 4Å: Chain A: I.249 Ligands: NAD.3 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Ligands: NAD.6 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Ligands: NAD.9 No protein-ligand interaction detected (PLIP) MG.10: 1 residues within 4Å: Ligands: NAD.12 No protein-ligand interaction detected (PLIP)

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: T.39, V.40, D.109, Q.196 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.109 NA.5: 4 residues within 4Å: Chain B: T.39, V.40, D.109, Q.196 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.40, B:V.40 Water bridges: B:T.39 NA.8: 4 residues within 4Å: Chain C: V.40, P.42, D.109, Q.196 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.39, C:V.40 Water bridges: C:V.40 NA.11: 4 residues within 4Å: Chain D: T.39, V.40, D.109, Q.196 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:V.40, D:Q.196

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

NAD.3: 28 residues within 4Å: Chain A: I.165, I.166, P.167, W.168, N.169, K.192, A.194, E.195, Q.196, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, I.253, E.268, L.269, G.270, C.302, Q.349, K.352, E.399, F.401 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:P.167 Hydrogen bonds: A:I.166, A:N.169, A:K.192, A:E.195, A:G.245, A:S.246, A:Q.349, A:Q.349, A:K.352, A:E.399 Water bridges: A:Q.196, A:Q.196 pi-Stacking: A:F.401 NAD.6: 28 residues within 4Å: Chain B: I.165, I.166, P.167, W.168, N.169, K.192, A.194, E.195, Q.196, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, I.253, E.268, L.269, G.270, C.302, Q.349, K.352, E.399, F.401 Ligands: MG.4 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:P.167 Hydrogen bonds: B:I.166, B:N.169, B:K.192, B:E.195, B:Q.196, B:G.245, B:S.246, B:Q.349, B:Q.349, B:K.352 Water bridges: B:K.352, B:E.399 pi-Stacking: B:F.401 NAD.9: 27 residues within 4Å: Chain C: I.165, I.166, P.167, W.168, N.169, K.192, A.194, E.195, Q.196, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, I.253, E.268, L.269, G.270, C.302, Q.349, E.399, F.401 Ligands: MG.7 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:P.167 Hydrogen bonds: C:I.166, C:K.192, C:E.195, C:Q.196, C:G.245, C:G.245, C:S.246, C:Q.349, C:Q.349, C:K.352, C:E.399 Water bridges: C:G.225 pi-Stacking: C:F.401 NAD.12: 27 residues within 4Å: Chain D: I.165, I.166, P.167, W.168, K.192, A.194, E.195, Q.196, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, I.253, E.268, L.269, G.270, C.302, Q.349, K.352, E.399, F.401 Ligands: MG.10 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:P.167 Hydrogen bonds: D:I.166, D:N.169, D:K.192, D:E.195, D:Q.196, D:G.245, D:G.245, D:S.246, D:Q.349, D:K.352, D:K.352, D:E.399 pi-Stacking: D:F.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Perez-Miller, S.J. et al., Coenzyme isomerization is integral to catalysis in aldehyde dehydrogenase. Biochemistry (2003)

Release Date

2003-06-24

Peptides

Aldehyde dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aldehyde dehydrogenase

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