SMTL ID : 4fr8.2 (1 other biounit)

Crystal structure of human aldehyde dehydrogenase-2 in complex with nitroglycerin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

3 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 21 residues within 4Å: Chain A: I.165, I.166, W.168, K.192, V.193, A.194, E.195, Q.196, F.224, G.225, P.226, G.229, A.230, F.243, G.245, S.246, I.249, V.252, I.253, Q.349 Ligands: MG.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:I.166, A:K.192, A:E.195, A:Q.196, A:S.246, A:S.246, A:Q.349 ADP.8: 18 residues within 4Å: Chain C: I.165, I.166, W.168, K.192, A.194, E.195, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, V.252, I.253 Ligands: MG.9 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:I.166, C:W.168, C:E.195, C:S.246, C:S.246 Water bridges: C:G.225 ADP.12: 21 residues within 4Å: Chain D: I.165, I.166, W.168, K.192, A.194, E.195, Q.196, F.224, G.225, P.226, G.229, A.230, F.243, T.244, G.245, S.246, I.249, V.252, I.253, Q.349 Ligands: MG.13 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:I.166, D:K.192, D:E.195, D:Q.196, D:S.246, D:S.246, D:S.246, D:Q.349 Water bridges: D:G.225, D:D.346, D:Q.349

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

MG.2: 1 residues within 4Å: Ligands: ADP.1 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: NAD.5 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Ligands: ADP.8 No protein-ligand interaction detected (PLIP) MG.13: 1 residues within 4Å: Ligands: ADP.12 No protein-ligand interaction detected (PLIP)

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

NA.3: 4 residues within 4Å: Chain A: T.39, V.40, D.109, Q.196 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.39, A:V.40 NA.7: 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:D.109 Water bridges: B:T.39 NA.10: 4 residues within 4Å: Chain C: T.39, V.40, D.109, Q.196 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:V.40, C:D.109 NA.14: 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:T.39, D:V.40

1 x URE: UREA(Non-functional Binders)

URE.4: 5 residues within 4Å: Chain A: L.436, N.440 Chain C: V.493 Chain D: L.436, N.440 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D, 1 interactions with chain A Water bridges: C:Y.153 Hydrogen bonds: D:N.440, D:N.440, A:N.440

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

NAD.5: 23 residues within 4Å: Chain B: I.165, I.166, 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, V.252, I.253, Q.349, K.352, E.399, F.401 Ligands: MG.6 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:I.166, B:E.195, B:Q.196, B:S.246, B:S.246, B:Q.349, B:Q.349, B:K.352 Water bridges: B:E.195, B:Q.196, B:G.225

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.11: 6 residues within 4Å: Chain C: A.281, D.282, M.283, D.284, E.317, R.321 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:A.281, C:D.282, C:M.283, C:D.284, C:E.317, C:E.317, C:R.321 Salt bridges: C:D.282, C:D.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lang, B.S. et al., Vascular Bioactivation of Nitroglycerin by Aldehyde Dehydrogenase-2: REACTION INTERMEDIATES REVEALED BY CRYSTALLOGRAPHY AND MASS SPECTROMETRY. J.Biol.Chem. (2012)

Release Date

2012-09-26

Peptides

Aldehyde dehydrogenase, mitochondrial: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

Aldehyde dehydrogenase, mitochondrial

Related Entries With Identical Sequence