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

Crystal Structure Analysis of ALDH2+ALDiB13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

1 x 2AK: 7-bromo-5-methyl-1H-indole-2,3-dione(Non-covalent)

2AK.1: 12 residues within 4Å: Chain A: M.118, F.164, L.167, M.168, W.171, F.290, C.295, C.296, C.297, A.298, D.451, F.453 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.171, A:W.171, A:F.453 Hydrogen bonds: A:C.297

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

NA.2: 4 residues within 4Å: Chain A: T.33, V.34, D.103, Q.190 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.33, A:V.34, A:D.103 NA.6: 3 residues within 4Å: Chain B: Q.7, Q.8, F.329 No protein-ligand interaction detected (PLIP) NA.10: 5 residues within 4Å: Chain C: V.34, P.36, D.103, Q.190, V.339 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.339 NA.12: 5 residues within 4Å: Chain D: T.33, V.34, P.36, D.103, Q.190 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.33, D:V.34, D:V.34

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

EDO.3: 7 residues within 4Å: Chain A: Y.147, R.149, V.485 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:R.149, B:S.437 EDO.4: 5 residues within 4Å: Chain A: F.145 Chain C: N.434, S.437 Chain D: Y.147, R.149 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:Y.147, D:R.149, C:S.437 EDO.7: 6 residues within 4Å: Chain A: N.434, S.437 Chain B: Y.147, R.149, V.485 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.8: 6 residues within 4Å: Chain B: F.145 Chain C: Y.147, R.149 Chain D: N.434, S.437, Q.438 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:R.149, D:S.437

4 x GAI: GUANIDINE(Non-covalent)

GAI.5: 6 residues within 4Å: Chain A: F.64, E.151, P.152, V.153 Chain B: Q.441, Y.462 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:P.152, A:P.152 Water bridges: A:V.153, B:Q.441 Salt bridges: A:E.151 GAI.9: 6 residues within 4Å: Chain A: Q.441, Y.462 Chain B: F.64, E.151, P.152, V.153 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:P.152, A:Y.462 Water bridges: B:V.153 Salt bridges: B:E.151 GAI.11: 7 residues within 4Å: Chain C: F.64, E.151, P.152, V.153, G.154 Chain D: Q.441, Y.462 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:P.152, C:P.152 Water bridges: C:V.153, C:E.481 Salt bridges: C:E.151 GAI.13: 6 residues within 4Å: Chain C: Q.441, Y.462 Chain D: F.64, E.151, P.152, V.153 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:P.152, D:P.152 Water bridges: D:R.71, D:R.71 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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