SMTL ID : 6alj.1

ALDH1A2 liganded with NAD and compound WIN18,446

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 28 residues within 4Å: Chain A: I.158, I.159, P.160, W.161, N.162, M.167, K.185, A.187, E.188, Y.217, G.218, G.222, A.223, F.236, T.237, G.238, S.239, V.242, I.246, E.261, L.262, C.295, K.341, Q.342, K.345, E.392, F.394 Ligands: CW2.2 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:P.160 Hydrogen bonds: A:I.159, A:N.162, A:N.162, A:E.188, A:G.238, A:S.239, A:E.261, A:Q.342, A:Q.342, A:K.345, A:K.345, A:E.392 Water bridges: A:W.161, A:E.188, A:Q.189, A:Q.189, A:Q.189, A:S.239, A:S.239, A:K.341, A:K.341, A:K.341 Salt bridges: A:K.341 pi-Stacking: A:F.394 NAD.3: 25 residues within 4Å: Chain B: I.158, I.159, P.160, W.161, N.162, K.185, A.187, E.188, G.218, G.222, A.223, F.236, T.237, G.238, S.239, V.242, I.246, E.261, L.262, C.295, Q.342, K.345, E.392, F.394 Ligands: CW2.4 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:P.160, B:F.394, B:F.394 Hydrogen bonds: B:I.159, B:N.162, B:N.162, B:K.185, B:E.188, B:G.238, B:S.239, B:S.239, B:Q.342, B:K.345 Water bridges: B:W.161, B:Q.189, B:Q.189, B:G.218 NAD.5: 28 residues within 4Å: Chain C: I.158, I.159, P.160, W.161, N.162, M.167, K.185, A.187, E.188, G.218, P.219, G.222, A.223, F.236, T.237, G.238, S.239, V.242, I.246, E.261, L.262, C.295, K.341, Q.342, K.345, E.392, F.394 Ligands: CW2.6 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:P.160, C:F.394, C:F.394 Hydrogen bonds: C:I.159, C:N.162, C:N.162, C:K.185, C:E.188, C:G.238, C:S.239, C:Q.342, C:Q.342, C:K.345, C:K.345, C:E.392 Water bridges: C:Q.189, C:Q.189, C:Q.189, C:Q.189, C:G.218, C:S.239, C:K.341 Salt bridges: C:K.341 NAD.8: 28 residues within 4Å: Chain D: I.158, I.159, P.160, W.161, N.162, M.167, K.185, A.187, E.188, Y.217, G.218, G.222, A.223, F.236, T.237, G.238, S.239, V.242, I.246, E.261, L.262, C.295, K.341, Q.342, K.345, E.392, F.394 Ligands: CW2.7 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:P.160, D:F.394, D:F.394 Hydrogen bonds: D:I.159, D:N.162, D:N.162, D:K.185, D:E.188, D:G.238, D:S.239, D:Q.342, D:Q.342, D:K.345, D:K.345 Water bridges: D:E.188, D:Q.189, D:Q.189, D:S.239, D:K.341 Salt bridges: D:K.341

4 x CW2: N,N'-(octane-1,8-diyl)bis(2,2-dichloroacetamide)(Covalent)

CW2.2: 19 residues within 4Å: Chain A: V.113, G.117, K.120, T.121, N.162, F.163, L.166, M.167, W.170, T.237, E.261, F.289, C.294, C.295, L.452, N.453, A.454, M.470 Ligands: NAD.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.113, A:F.289, A:L.452, A:L.452 Hydrogen bonds: A:N.162, A:C.295, A:L.452 CW2.4: 16 residues within 4Å: Chain B: V.113, G.117, T.121, N.162, F.163, L.166, W.170, F.289, C.294, C.295, T.296, L.452, N.453, A.454, M.470 Ligands: NAD.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.113, B:F.289, B:T.296, B:L.452 Hydrogen bonds: B:N.162, B:C.295 Water bridges: B:L.452 CW2.6: 17 residues within 4Å: Chain C: V.113, G.117, T.121, N.162, F.163, L.166, M.167, W.170, E.261, F.289, C.294, C.295, L.452, N.453, A.454, F.458 Ligands: NAD.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:V.113, C:F.163, C:L.166, C:F.289 Hydrogen bonds: C:N.162, C:C.295 Water bridges: C:G.117 CW2.7: 19 residues within 4Å: Chain D: V.113, G.117, T.121, N.162, F.163, L.166, M.167, W.170, T.237, E.261, F.289, C.294, C.295, T.296, L.452, N.453, A.454, M.470 Ligands: NAD.8 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:V.113, D:F.163, D:F.289, D:T.296, D:L.452 Hydrogen bonds: D:N.162, D:C.295, D:L.452 Water bridges: D:G.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Structural Basis of ALDH1A2 Inhibition by Irreversible and Reversible Small Molecule Inhibitors. ACS Chem. Biol. (2018)

Release Date

2018-01-10

Peptides

Aldehyde dehydrogenase 1A2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aldehyde dehydrogenase 1A2

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