SMTL ID : 8t0t.1

Structure of Compound 4 bound to human ALDH1A1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

4 x YB: YTTERBIUM (III) ION(Non-functional Binders)

YB.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

4 x Y6E: 1-(4-{6-fluoro-3-[4-(methanesulfonyl)piperazine-1-carbonyl]quinolin-4-yl}phenyl)cyclopropane-1-carbonitrile

Y6E.2: 18 residues within 4Å: Chain A: N.121, G.125, T.129, F.171, V.174, M.175, W.178, H.293, G.294, Y.297, C.302, C.303, I.304, G.458, V.460, S.461, A.462, F.466 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.171, A:W.178, A:I.304, A:V.460, A:F.466 Hydrogen bonds: A:N.121, A:C.303, A:I.304 pi-Stacking: A:Y.297, A:Y.297 Halogen bonds: A:G.294 Y6E.5: 18 residues within 4Å: Chain B: N.121, G.125, T.129, F.171, V.174, M.175, W.178, H.293, G.294, Y.297, C.302, C.303, I.304, G.458, V.460, S.461, A.462, F.466 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.171, B:W.178, B:I.304, B:V.460, B:F.466 Hydrogen bonds: B:N.121, B:C.303, B:I.304 pi-Stacking: B:Y.297, B:Y.297 Halogen bonds: B:G.294 Y6E.8: 18 residues within 4Å: Chain C: N.121, G.125, T.129, F.171, V.174, M.175, W.178, H.293, G.294, Y.297, C.302, C.303, I.304, G.458, V.460, S.461, A.462, F.466 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:F.171, C:W.178, C:I.304, C:V.460, C:F.466 Hydrogen bonds: C:N.121, C:T.129, C:Y.297, C:C.303, C:I.304 pi-Stacking: C:Y.297, C:Y.297 Halogen bonds: C:G.294 Y6E.11: 18 residues within 4Å: Chain D: N.121, G.125, T.129, F.171, V.174, M.175, W.178, H.293, G.294, Y.297, C.302, C.303, I.304, G.458, V.460, S.461, A.462, F.466 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:F.171, D:W.178, D:I.304, D:V.460, D:F.466 Hydrogen bonds: D:N.121, D:T.129, D:Y.297, D:C.303, D:I.304 pi-Stacking: D:Y.297, D:Y.297 Halogen bonds: D:G.294

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: R.143, T.155, H.157 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: R.143, T.155, H.157 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain C: R.143, T.155, H.157 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain D: R.143, T.155, H.157 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Takahashi, C. et al., Development of substituted benzimidazoles as inhibitors of human aldehyde dehydrogenase 1A isoenzymes. Chem.Biol.Interact. (2024)

Release Date

2024-05-01

Peptides

Aldehyde dehydrogenase 1A1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Aldehyde dehydrogenase 1A1

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