SMTL ID : 7jws.1

Crystal structure of human ALDH1A1 bound to compound (R)-28

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

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

YB.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.3: 2 residues within 4Å: Chain A: D.283, D.285 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.283, A:D.283, A:D.285, H2O.15 YB.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.7: 2 residues within 4Å: Chain B: D.283, D.285 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.283, B:D.283, B:D.285, H2O.33 YB.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.11: 2 residues within 4Å: Chain C: D.283, D.285 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.283, C:D.283, C:D.285, H2O.51 YB.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) YB.15: 2 residues within 4Å: Chain D: D.283, D.285 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.283, D:D.283, D:D.285, H2O.69

4 x VLY: 1-methyl-5-phenyl-6-{[(1R)-1-phenylethyl]sulfanyl}-1,5-dihydro-4H-pyrazolo[3,4-d]pyrimidin-4-one(Non-covalent)

VLY.2: 14 residues within 4Å: Chain A: S.121, G.125, T.129, F.171, V.174, M.175, W.178, Y.297, C.302, I.304, G.458, V.460, S.461, F.466 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.174, A:W.178, A:I.304, A:F.466 Water bridges: A:C.303, A:V.460 pi-Stacking: A:F.171 VLY.6: 14 residues within 4Å: Chain B: S.121, G.125, T.129, F.171, V.174, M.175, W.178, Y.297, C.302, I.304, G.458, V.460, S.461, F.466 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.174, B:W.178, B:I.304, B:F.466 Water bridges: B:C.303, B:V.460 pi-Stacking: B:F.171 VLY.10: 14 residues within 4Å: Chain C: S.121, G.125, T.129, F.171, V.174, M.175, W.178, Y.297, C.302, I.304, G.458, V.460, S.461, F.466 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:V.174, C:W.178, C:I.304, C:F.466 Water bridges: C:C.303, C:V.460 pi-Stacking: C:F.171 VLY.14: 14 residues within 4Å: Chain D: S.121, G.125, T.129, F.171, V.174, M.175, W.178, Y.297, C.302, I.304, G.458, V.460, S.461, F.466 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:V.174, D:W.178, D:I.304, D:F.466 Water bridges: D:C.303, D:V.460 pi-Stacking: D:F.171

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

CL.4: 3 residues within 4Å: Chain A: R.143, T.155, H.157 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: R.143, T.155, H.157 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain C: R.143, T.155, H.157 Ligand excluded by PLIP CL.16: 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

Huddle, B.C. et al., Development of 2,5-dihydro-4H-pyrazolo[3,4-d]pyrimidin-4-one inhibitors of aldehyde dehydrogenase 1A (ALDH1A) as potential adjuncts to ovarian cancer chemotherapy. Eur.J.Med.Chem. (2020)

Release Date

2020-12-30

Peptides

Retinal dehydrogenase 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Retinal dehydrogenase 1

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