SMTL ID : 3sz9.4 (5 other biounits)

Crystal structure of human ALDH2 modified with the beta-elimination product of Aldi-3; 1-(4-ethylbenzene)prop-2-en-1-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 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.6: 4 residues within 4Å: Chain B: T.39, V.40, D.109, Q.196 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.40, B:D.109

4 x GAI: GUANIDINE(Non-covalent)

GAI.2: 6 residues within 4Å: Chain A: F.70, E.157, P.158, V.159 Chain B: Q.447, Y.468 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.158, A:P.158 Water bridges: A:R.77, A:E.157 Salt bridges: A:E.157 GAI.3: 6 residues within 4Å: Chain A: I.146, D.147, G.148, F.150 Chain B: V.458, F.459 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:F.459, B:F.459, A:D.147, A:D.147 Water bridges: A:D.147 GAI.7: 6 residues within 4Å: Chain A: Q.447, Y.468 Chain B: F.70, E.157, P.158, V.159 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:P.158, B:P.158 Water bridges: B:R.77, B:E.157 Salt bridges: B:E.157 GAI.8: 5 residues within 4Å: Chain A: V.458, F.459 Chain B: I.146, D.147, F.150 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:F.459, A:F.459, B:D.147, B:D.147 Water bridges: B:D.147

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

EDO.4: 4 residues within 4Å: Chain A: F.18, D.98, Y.101, Y.203 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.98 Water bridges: A:Y.101, A:Y.203 EDO.9: 5 residues within 4Å: Chain A: N.440, S.443, Q.444 Chain B: Y.153, R.155 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Y.153, B:R.155, A:S.443 EDO.10: 7 residues within 4Å: Chain A: K.469, M.470 Chain B: D.239, N.261, L.262, K.263, R.264 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.239, B:N.261, A:K.469 Water bridges: B:V.159, B:N.261, B:R.264 EDO.11: 3 residues within 4Å: Chain B: F.18, Y.101, Y.203 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.98, B:Y.203

2 x I3E: 1-(4-ethylphenyl)propan-1-one(Covalent)

I3E.5: 11 residues within 4Å: Chain A: M.124, N.169, F.170, L.173, W.177, F.296, C.301, C.302, C.303, D.457, F.459 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.173, A:W.177, A:F.296, A:F.459, A:F.459, A:F.459 Hydrogen bonds: A:N.169, A:C.302 pi-Stacking: A:F.170 I3E.12: 12 residues within 4Å: Chain B: M.124, N.169, F.170, L.173, M.174, W.177, F.296, C.301, C.302, C.303, D.457, F.459 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.173, B:W.177, B:F.296, B:F.459, B:F.459, B:F.459 Hydrogen bonds: B:N.169, B:C.302, B:C.303 pi-Stacking: B:F.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khanna, M. et al., Discovery of a novel class of covalent inhibitor for aldehyde dehydrogenases. J.Biol.Chem. (2011)

Release Date

2011-11-02

Peptides

Aldehyde dehydrogenase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

Aldehyde dehydrogenase, mitochondrial

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