SMTL ID : 6tgw.1

Crystal structure of human Aldehyde dehydrogenase 1A3 in complex with a selective inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 19 residues within 4Å: Chain A: I.177, T.178, P.179, W.180, K.204, P.205, A.206, E.207, G.237, P.238, G.241, A.242, F.255, T.256, G.257, S.258, V.261, L.264, K.364 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:T.178, A:W.180, A:K.204, A:E.207, A:Q.208, A:S.258, A:S.258, A:K.364 Water bridges: A:N.181 NAD.4: 19 residues within 4Å: Chain B: I.177, T.178, P.179, W.180, K.204, A.206, E.207, Q.208, G.237, P.238, G.241, A.242, F.255, T.256, S.258, V.261, L.264, V.265, K.364 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:T.178, B:W.180, B:W.180, B:K.204, B:E.207, B:Q.208, B:S.258, B:S.258 NAD.5: 19 residues within 4Å: Chain C: I.177, T.178, P.179, W.180, K.204, A.206, E.207, Q.208, G.237, P.238, G.241, A.242, F.255, T.256, G.257, S.258, V.261, K.360, K.364 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:T.178, C:T.178, C:W.180, C:K.204, C:E.207, C:S.258, C:K.360, C:K.364 NAD.7: 20 residues within 4Å: Chain D: I.177, T.178, P.179, W.180, K.204, P.205, A.206, E.207, F.236, G.237, P.238, G.241, A.242, F.255, G.257, S.258, E.260, V.261, K.360, K.364 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:T.178, D:W.180, D:W.180, D:S.258, D:K.360, D:K.364

4 x N98: methyl 5-(1,3-benzodioxol-5-yl)-2-phenyl-pyrazolo[1,5-a]pyrimidine-7-carboxylate(Non-covalent)

N98.2: 11 residues within 4Å: Chain A: I.132, G.136, R.139, T.140, F.182, W.189, Q.304, F.308, N.469, L.471, A.473 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.132, A:Q.304, A:L.471, A:L.471 Hydrogen bonds: A:T.140, A:A.473 pi-Stacking: A:F.308 N98.3: 13 residues within 4Å: Chain B: I.132, G.136, T.140, F.182, W.189, Q.304, F.308, T.315, N.469, L.471, Y.472, A.473, L.489 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.304, B:F.308, B:L.471, B:L.471 Hydrogen bonds: B:T.140 Water bridges: B:A.473 N98.6: 13 residues within 4Å: Chain C: I.132, G.136, R.139, T.140, F.182, W.189, Q.304, F.308, C.313, T.315, N.469, L.471, A.473 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:I.132, C:I.132, C:Q.304, C:N.469, C:L.471, C:L.471 Hydrogen bonds: C:T.315, C:A.473 pi-Stacking: C:F.308 N98.8: 13 residues within 4Å: Chain D: I.132, G.136, T.140, F.182, W.189, Q.304, F.308, C.313, T.315, N.469, L.471, Y.472, A.473 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:I.132, D:Q.304, D:N.469, D:L.471, D:L.471 Hydrogen bonds: D:T.315, D:A.473 Water bridges: D:R.139 pi-Stacking: D:F.308

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., A specific inhibitor of ALDH1A3 regulates retinoic acid biosynthesis in glioma stem cells. Commun Biol (2021)

Release Date

2021-06-02

Peptides

Aldehyde dehydrogenase family 1 member A3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aldehyde dehydrogenase family 1 member A3

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