SMTL ID : 5ac0.1

ovis aries Aldehyde Dehydrogenase 1A1 in complex with a duocarmycin analog

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 31 residues within 4Å: Chain A: I.166, I.167, P.168, W.169, N.170, K.193, P.194, A.195, E.196, Y.225, G.226, P.227, G.230, A.231, F.244, T.245, G.246, S.247, V.250, L.253, I.254, E.269, L.270, G.271, C.303, E.349, Q.350, K.353, E.400, F.402 Ligands: MG.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:P.168, A:F.402 Hydrogen bonds: A:I.167, A:I.167, A:N.170, A:K.193, A:E.196, A:Q.197, A:G.246, A:S.247, A:S.247, A:E.269, A:Q.350, A:Q.350, A:K.353, A:E.400, A:E.400 Water bridges: A:W.169, A:E.196, A:G.226, A:C.303 NAD.4: 32 residues within 4Å: Chain B: I.166, I.167, P.168, W.169, N.170, K.193, P.194, A.195, E.196, Q.197, Y.225, G.226, P.227, G.230, A.231, F.244, T.245, G.246, S.247, V.250, L.253, I.254, E.269, L.270, G.271, C.303, E.349, Q.350, K.353, E.400, F.402 Ligands: MG.6 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:P.168, B:F.402, B:F.402 Hydrogen bonds: B:I.167, B:I.167, B:N.170, B:K.193, B:E.196, B:Q.197, B:G.246, B:S.247, B:S.247, B:E.269, B:Q.350, B:Q.350, B:K.353, B:E.400 Water bridges: B:W.169, B:E.196, B:G.226, B:C.303 NAD.7: 31 residues within 4Å: Chain C: I.166, I.167, P.168, W.169, N.170, K.193, P.194, A.195, E.196, Y.225, G.226, P.227, G.230, A.231, F.244, T.245, G.246, S.247, V.250, L.253, I.254, E.269, L.270, G.271, C.303, E.349, Q.350, K.353, E.400, F.402 Ligands: MG.9 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:P.168, C:F.402 Hydrogen bonds: C:I.167, C:I.167, C:N.170, C:K.193, C:E.196, C:Q.197, C:G.246, C:S.247, C:S.247, C:E.269, C:Q.350, C:Q.350, C:K.353, C:E.400, C:E.400 Water bridges: C:W.169, C:E.196, C:G.226, C:C.303 NAD.10: 32 residues within 4Å: Chain D: I.166, I.167, P.168, W.169, N.170, K.193, P.194, A.195, E.196, Q.197, Y.225, G.226, P.227, G.230, A.231, F.244, T.245, G.246, S.247, V.250, L.253, I.254, E.269, L.270, G.271, C.303, E.349, Q.350, K.353, E.400, F.402 Ligands: MG.12 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:P.168, D:F.402, D:F.402 Hydrogen bonds: D:I.167, D:I.167, D:N.170, D:K.193, D:E.196, D:Q.197, D:G.246, D:S.247, D:S.247, D:E.269, D:Q.350, D:Q.350, D:K.353, D:E.400 Water bridges: D:W.169, D:E.196, D:G.226, D:C.303

4 x K9P: 1-[(1S)-1-methyl-5-oxidanyl-1,2-dihydrobenzo[e]indol-3-yl]hexan-1-one(Covalent)

K9P.2: 11 residues within 4Å: Chain A: M.121, F.171, L.174, M.175, W.178, Y.297, C.302, C.303, I.304, S.458, V.460 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.171, A:W.178, A:Y.297, A:I.304, A:V.460 pi-Stacking: A:F.171, A:F.171 K9P.5: 13 residues within 4Å: Chain B: M.121, F.171, L.174, M.175, W.178, Q.293, Y.297, C.302, C.303, I.304, Y.457, S.458, V.460 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.171, B:W.178, B:Q.293, B:Y.297, B:Y.297, B:Y.297, B:I.304 pi-Stacking: B:F.171, B:F.171 K9P.8: 11 residues within 4Å: Chain C: M.121, F.171, L.174, M.175, W.178, Y.297, C.302, C.303, I.304, S.458, V.460 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.171, C:W.178, C:Y.297, C:I.304, C:V.460 pi-Stacking: C:F.171, C:F.171 K9P.11: 13 residues within 4Å: Chain D: M.121, F.171, L.174, M.175, W.178, Q.293, Y.297, C.302, C.303, I.304, Y.457, S.458, V.460 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:F.171, D:W.178, D:Q.293, D:Y.297, D:Y.297, D:Y.297, D:I.304 pi-Stacking: D:F.171, D:F.171

4 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 1 residues within 4Å: Ligands: NAD.1 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: NAD.4 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Ligands: NAD.7 No protein-ligand interaction detected (PLIP) MG.12: 1 residues within 4Å: Ligands: NAD.10 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koch, M.F. et al., Structural, Biochemical, and Computational Studies Reveal the Mechanism of Selective Aldehyde Dehydrogenase 1A1 Inhibition by Cytotoxic Duocarmycin Analogues. Angew.Chem.Int.Ed.Engl. (2015)

Release Date

2015-08-26

Peptides

RETINAL DEHYDROGENASE 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

RETINAL DEHYDROGENASE 1

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