SMTL ID : 6s6w.1

Crystal Structure of human ALDH1A3 in complex with 2,6-diphenylimidazo[1,2-a]pyridine (compound GA11) and NAD+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 17 residues within 4Å: Chain A: I.158, T.159, P.160, W.161, K.185, P.186, A.187, E.188, G.218, G.222, A.223, F.236, G.238, S.239, V.242, K.341, Q.342 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.159, A:S.239, A:K.341, A:K.341 NAD.5: 19 residues within 4Å: Chain B: I.158, T.159, W.161, K.185, A.187, E.188, G.218, G.222, A.223, F.236, T.237, G.238, S.239, V.242, L.245, D.339, K.341, Q.342, K.345 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.159, B:E.188, B:S.239, B:Q.342 pi-Cation interactions: B:K.341 NAD.6: 17 residues within 4Å: Chain C: I.158, T.159, P.160, W.161, K.185, P.186, A.187, E.188, G.218, G.222, A.223, F.236, G.238, S.239, V.242, K.341, Q.342 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.159, C:S.239, C:K.341, C:K.341 NAD.10: 19 residues within 4Å: Chain D: I.158, T.159, W.161, K.185, A.187, E.188, G.218, G.222, A.223, F.236, T.237, G.238, S.239, V.242, L.245, D.339, K.341, Q.342, K.345 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:T.159, D:E.188, D:S.239, D:Q.342 pi-Cation interactions: D:K.341

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: I.132, G.134, R.148, H.149 Chain C: T.136, I.137, P.138 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.132, A:R.148, A:H.149 GOL.4: 6 residues within 4Å: Chain A: K.247, V.258, N.466 Chain B: K.247, R.257, V.258 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.247, B:V.258, A:K.247, A:V.258, A:N.466 GOL.7: 7 residues within 4Å: Chain A: T.136, I.137, P.138 Chain C: I.132, G.134, R.148, H.149 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:I.132, C:R.148, C:H.149 GOL.9: 6 residues within 4Å: Chain C: K.247, V.258, N.466 Chain D: K.247, R.257, V.258 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:K.247, D:V.258, C:K.247, C:V.258, C:N.466

2 x KXT: 2,6-diphenylimidazo[1,2-a]pyridine(Non-covalent)

KXT.3: 11 residues within 4Å: Chain A: F.112, I.113, E.116, G.117, T.121, L.166, W.170, L.452, Y.453, A.454, L.470 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:E.116, A:L.166, A:W.170, A:L.452, A:L.470 KXT.8: 11 residues within 4Å: Chain C: F.112, I.113, E.116, G.117, T.121, L.166, W.170, L.452, Y.453, A.454, L.470 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:E.116, C:L.166, C:W.170, C:L.452, C:L.470

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quattrini, L. et al., Imidazo[1,2-a]pyridine Derivatives as Aldehyde Dehydrogenase Inhibitors: Novel Chemotypes to Target Glioblastoma Stem Cells. J.Med.Chem. (2020)

Release Date

2020-04-22

Peptides

Aldehyde dehydrogenase family 1 member A3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Aldehyde dehydrogenase family 1 member A3

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