SMTL ID : 4kwf.1 (1 other biounit)

Crystal Structure Analysis of ALDH2+ALDiB33

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-tetramer

Ligands

2 x 3AK: 1-benzyl-1H-indole-2,3-dione(Non-covalent)

3AK.1: 14 residues within 4Å: Chain A: F.164, L.167, M.168, W.171, T.238, E.262, F.290, C.295, C.296, C.297, A.298, D.451, F.453, F.459 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.167, A:W.171, A:T.238, A:E.262, A:F.290, A:F.290, A:F.453, A:F.453, A:F.459, A:F.459 Hydrogen bonds: A:C.296, A:C.297 pi-Stacking: A:F.164, A:F.164 3AK.6: 13 residues within 4Å: Chain B: M.118, F.164, L.167, M.168, E.262, F.290, C.295, C.296, C.297, L.421, D.451, F.453, F.459 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.167, B:E.262, B:F.290, B:L.421, B:F.453, B:F.453, B:F.459 Hydrogen bonds: B:C.297 pi-Stacking: B:F.164

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

NA.2: 4 residues within 4Å: Chain A: V.34, D.103, Q.190, V.339 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.34 NA.7: 3 residues within 4Å: Chain B: N.35, S.37, F.329 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.35, B:N.35 NA.9: 4 residues within 4Å: Chain C: V.34, D.103, Q.190, V.339 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.103, C:V.339 NA.13: 4 residues within 4Å: Chain D: T.33, V.34, D.103, Q.190 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.103

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

EDO.3: 6 residues within 4Å: Chain A: Y.147, R.149 Chain B: N.434, S.437, Q.438 Chain D: F.145 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.147, B:Q.438 EDO.4: 6 residues within 4Å: Chain A: N.434, S.437, Q.438 Chain B: Y.147, R.149 Chain C: F.145 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.437, B:R.149 EDO.10: 5 residues within 4Å: Chain B: F.145 Chain C: Y.147, R.149 Chain D: N.434, S.437 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:R.149, D:S.437 EDO.11: 6 residues within 4Å: Chain A: F.145 Chain C: N.434, S.437, Q.438 Chain D: Y.147, R.149 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.434, D:Y.147

4 x GAI: GUANIDINE(Non-covalent)

GAI.5: 5 residues within 4Å: Chain A: F.64, E.151, P.152, V.153 Chain B: Y.462 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.152, A:P.152 Salt bridges: A:E.151 GAI.8: 4 residues within 4Å: Chain A: Y.462 Chain B: P.152, V.153, E.481 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.153 Water bridges: B:V.153, B:D.233 Salt bridges: B:E.481 GAI.12: 5 residues within 4Å: Chain C: E.151, P.152, V.153 Chain D: Q.441, Y.462 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:P.152, C:P.152 Salt bridges: C:E.151 GAI.14: 5 residues within 4Å: Chain C: Y.462 Chain D: F.64, E.151, P.152, V.153 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:P.152, D:P.152 Salt bridges: D:E.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kimble-Hill, A.C. et al., Development of selective inhibitors for aldehyde dehydrogenases based on substituted indole-2,3-diones. J.Med.Chem. (2014)

Release Date

2014-04-09

Peptides

Aldehyde dehydrogenase, mitochondrial: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aldehyde dehydrogenase, mitochondrial

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