- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.08 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x K9P: 1-[(1S)-1-methyl-5-oxidanyl-1,2-dihydrobenzo[e]indol-3-yl]hexan-1-one(Covalent)
- 4 x TXE: [[(2R,3S,4R,5R)-5-[(3R)-3-aminocarbonyl-3,4-dihydro-2H-pyridin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanidyl-ph osphoryl] [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphate(Non-covalent)
TXE.2: 30 residues within 4Å:- Chain A: I.166, I.167, P.168, W.169, N.170, K.193, A.195, E.196, Q.197, 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
15 PLIP interactions:15 interactions with chain A- Hydrophobic interactions: A:P.168
- Hydrogen bonds: A:N.170, A:K.193, A:K.193, A:Q.197, A:G.246, A:S.247, A:S.247, A:S.247, A:E.269, A:Q.350, A:K.353, A:E.400
- Water bridges: A:C.303
- pi-Stacking: A:F.402
TXE.5: 32 residues within 4Å:- Chain B: I.166, I.167, P.168, W.169, N.170, M.175, K.193, 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
18 PLIP interactions:18 interactions with chain B- Hydrophobic interactions: B:P.168
- Hydrogen bonds: B:N.170, B:K.193, B:P.194, B:Q.197, B:G.246, B:S.247, B:S.247, B:S.247, B:E.269, B:Q.350, B:K.353, B:E.400
- Water bridges: B:E.196, B:G.226, B:S.247
- Salt bridges: B:K.353
- pi-Stacking: B:F.402
TXE.8: 30 residues within 4Å:- Chain C: I.166, I.167, P.168, W.169, N.170, K.193, A.195, E.196, Q.197, 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
16 PLIP interactions:16 interactions with chain C- Hydrophobic interactions: C:P.168
- Hydrogen bonds: C:N.170, C:K.193, C:K.193, C:Q.197, C:G.246, C:S.247, C:S.247, C:S.247, C:E.269, C:Q.350, C:K.353, C:E.400, C:E.400
- Water bridges: C:C.303
- pi-Stacking: C:F.402
TXE.11: 32 residues within 4Å:- Chain D: I.166, I.167, P.168, W.169, N.170, M.175, K.193, 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
19 PLIP interactions:19 interactions with chain D- Hydrophobic interactions: D:P.168
- Hydrogen bonds: D:N.170, D:K.193, D:P.194, D:Q.197, D:G.246, D:S.247, D:S.247, D:S.247, D:E.269, D:Q.350, D:K.353, D:E.400, D:E.400
- Water bridges: D:E.196, D:G.226, D:S.247
- Salt bridges: D:K.353
- pi-Stacking: D:F.402
- 4 x MG: MAGNESIUM ION(Non-functional Binders)
MG.3: 1 residues within 4Å:- Ligands: TXE.2
2 PLIP interactions:1 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: TXE.2, H2O.7
MG.6: 1 residues within 4Å:- Ligands: TXE.5
5 PLIP interactions:1 Ligand-Ligand interactions, 4 Ligand-Water interactions- Metal complexes: TXE.5, H2O.11, H2O.11, H2O.12, H2O.13
MG.9: 1 residues within 4Å:- Ligands: TXE.8
2 PLIP interactions:1 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: TXE.8, H2O.19
MG.12: 1 residues within 4Å:- Ligands: TXE.11
5 PLIP interactions:1 Ligand-Ligand interactions, 4 Ligand-Water interactions- Metal complexes: TXE.11, H2O.23, H2O.23, H2O.24, H2O.25
- 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
CB
DC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.08 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x K9P: 1-[(1S)-1-methyl-5-oxidanyl-1,2-dihydrobenzo[e]indol-3-yl]hexan-1-one(Covalent)
- 4 x TXE: [[(2R,3S,4R,5R)-5-[(3R)-3-aminocarbonyl-3,4-dihydro-2H-pyridin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanidyl-ph osphoryl] [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphate(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-functional Binders)
- 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
CB
DC
CD
D