- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.43 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x W87: 5-{4-[5-(methoxycarbonyl)naphthalen-2-yl]butyl}-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid(Non-covalent)
- 25 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 4 residues within 4Å:- Chain A: C.33, A.36, S.37, P.281
Ligand excluded by PLIPGOL.3: 7 residues within 4Å:- Chain A: I.173, R.240, R.241
- Chain B: K.216, Q.217, F.219
- Ligands: EDO.57
Ligand excluded by PLIPGOL.4: 9 residues within 4Å:- Chain A: S.131, Q.140, P.168, P.169, N.196, S.197, G.199, G.221
- Ligands: W87.1
Ligand excluded by PLIPGOL.5: 6 residues within 4Å:- Chain A: F.63, V.203, I.204, D.205, V.212
- Ligands: NCO.35
Ligand excluded by PLIPGOL.6: 3 residues within 4Å:- Chain A: Q.217
- Chain B: R.240
- Ligands: GOL.37
Ligand excluded by PLIPGOL.7: 2 residues within 4Å:- Chain A: E.279, R.286
Ligand excluded by PLIPGOL.8: 4 residues within 4Å:- Chain A: Y.60, M.71, Q.277
- Ligands: CAC.15
Ligand excluded by PLIPGOL.9: 9 residues within 4Å:- Chain A: V.12, F.13, A.14, Y.91, S.92, K.93, K.94, P.95
- Ligands: EDO.23
Ligand excluded by PLIPGOL.10: 3 residues within 4Å:- Chain A: P.243, K.245
- Ligands: GOL.13
Ligand excluded by PLIPGOL.11: 5 residues within 4Å:- Chain A: R.149, Q.153, E.185, F.186
- Ligands: EDO.20
Ligand excluded by PLIPGOL.12: 2 residues within 4Å:- Chain A: P.243, D.244
Ligand excluded by PLIPGOL.13: 4 residues within 4Å:- Chain A: Y.239, R.240, P.243
- Ligands: GOL.10
Ligand excluded by PLIPGOL.14: 6 residues within 4Å:- Chain A: D.53, G.54, N.55, P.56, E.57, R.59
Ligand excluded by PLIPGOL.37: 7 residues within 4Å:- Chain A: K.216, Q.217, F.219
- Chain B: I.173, R.240, R.241
- Ligands: GOL.6
Ligand excluded by PLIPGOL.38: 8 residues within 4Å:- Chain B: S.131, C.132, Q.140, N.196, S.197, G.199, G.221
- Ligands: W87.36
Ligand excluded by PLIPGOL.39: 4 residues within 4Å:- Chain B: F.63, V.203, I.204, D.205
Ligand excluded by PLIPGOL.40: 4 residues within 4Å:- Chain B: Y.60, M.71, Q.277
- Ligands: CAC.49
Ligand excluded by PLIPGOL.41: 5 residues within 4Å:- Chain B: L.6, N.7, E.304, R.307
- Ligands: GOL.42
Ligand excluded by PLIPGOL.42: 7 residues within 4Å:- Chain B: P.243, D.244, K.245, L.246
- Ligands: GOL.41, GOL.44, CAC.50
Ligand excluded by PLIPGOL.43: 4 residues within 4Å:- Chain B: V.12, Y.91, S.92, P.95
Ligand excluded by PLIPGOL.44: 5 residues within 4Å:- Chain B: Y.239, R.240, P.243
- Ligands: GOL.42, CAC.50
Ligand excluded by PLIPGOL.45: 1 residues within 4Å:- Chain B: A.50
Ligand excluded by PLIPGOL.46: 6 residues within 4Å:- Chain A: I.313
- Chain B: D.205, S.208, S.210, V.211, V.212
Ligand excluded by PLIPGOL.47: 3 residues within 4Å:- Chain B: D.177, T.178, A.181
Ligand excluded by PLIPGOL.48: 5 residues within 4Å:- Chain B: P.64, L.65, K.225
- Ligands: EDO.25, EDO.55
Ligand excluded by PLIP- 4 x CAC: CACODYLATE ION(Non-covalent)
CAC.15: 3 residues within 4Å:- Chain A: S.26, D.30
- Ligands: GOL.8
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.30
- Water bridges: A:L.24, A:C.25, A:D.30
CAC.16: 3 residues within 4Å:- Chain A: K.298, Y.300
- Ligands: EDO.27
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.298
CAC.49: 3 residues within 4Å:- Chain B: T.27, D.30
- Ligands: GOL.40
5 PLIP interactions:5 interactions with chain B- Water bridges: B:L.24, B:C.25, B:S.26, B:S.26, B:D.30
CAC.50: 3 residues within 4Å:- Chain B: P.243
- Ligands: GOL.42, GOL.44
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:P.243
- 2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
FMN.17: 22 residues within 4Å:- Chain A: A.20, A.21, G.22, K.45, S.46, Y.60, N.69, M.71, N.129, K.166, V.195, N.196, S.197, G.223, G.224, I.227, C.250, G.251, G.252, G.273, T.274
- Ligands: W87.1
19 PLIP interactions:19 interactions with chain A- Hydrophobic interactions: A:Y.60, A:Y.60
- Hydrogen bonds: A:A.21, A:S.46, A:S.46, A:S.46, A:K.166, A:K.166, A:N.196, A:G.224, A:G.252, A:G.273, A:T.274
- Water bridges: A:A.21, A:S.99, A:G.251, A:G.251, A:V.253, A:V.253
FMN.51: 23 residues within 4Å:- Chain B: A.20, A.21, G.22, K.45, S.46, Y.60, N.69, M.71, N.129, K.166, V.195, N.196, S.197, G.223, G.224, I.227, C.250, G.251, G.252, V.272, G.273, T.274
- Ligands: W87.36
19 PLIP interactions:19 interactions with chain B- Hydrophobic interactions: B:Y.60, B:Y.60
- Hydrogen bonds: B:A.21, B:S.46, B:S.46, B:S.46, B:K.166, B:K.166, B:N.196, B:G.224, B:G.252, B:G.273, B:T.274
- Water bridges: B:A.21, B:S.99, B:G.251, B:G.251, B:V.253, B:V.253
- 24 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.18: 4 residues within 4Å:- Chain A: R.240, G.308, R.309, V.310
Ligand excluded by PLIPEDO.19: 4 residues within 4Å:- Chain A: Q.120, E.121, K.122, G.123
Ligand excluded by PLIPEDO.20: 4 residues within 4Å:- Chain A: P.187, L.188
- Ligands: GOL.11, EDO.28
Ligand excluded by PLIPEDO.21: 2 residues within 4Å:- Chain A: R.52, D.53
Ligand excluded by PLIPEDO.22: 3 residues within 4Å:- Chain A: F.63, P.64, E.278
Ligand excluded by PLIPEDO.23: 8 residues within 4Å:- Chain A: A.14, S.37, S.38, S.39, G.40, K.93, K.94
- Ligands: GOL.9
Ligand excluded by PLIPEDO.24: 5 residues within 4Å:- Chain A: E.257, R.297, K.298
- Chain B: A.206, E.207
Ligand excluded by PLIPEDO.25: 4 residues within 4Å:- Chain A: L.65, K.225
- Chain B: L.65
- Ligands: GOL.48
Ligand excluded by PLIPEDO.26: 4 residues within 4Å:- Chain A: E.304, E.305, R.309
- Ligands: EDO.27
Ligand excluded by PLIPEDO.27: 5 residues within 4Å:- Chain A: Y.300, E.305, R.309
- Ligands: CAC.16, EDO.26
Ligand excluded by PLIPEDO.28: 5 residues within 4Å:- Chain A: S.156, L.157, G.160, L.188
- Ligands: EDO.20
Ligand excluded by PLIPEDO.29: 2 residues within 4Å:- Chain A: S.49, A.50
Ligand excluded by PLIPEDO.30: 4 residues within 4Å:- Chain A: S.86, D.87, H.89, K.122
Ligand excluded by PLIPEDO.31: 5 residues within 4Å:- Chain A: N.7, L.8, L.9, D.10, H.11
Ligand excluded by PLIPEDO.52: 4 residues within 4Å:- Chain B: S.49, G.77, F.78, D.79
Ligand excluded by PLIPEDO.53: 3 residues within 4Å:- Chain B: F.63, P.64, E.278
Ligand excluded by PLIPEDO.54: 6 residues within 4Å:- Chain B: Y.254, A.275, E.278, E.279, I.283, R.286
Ligand excluded by PLIPEDO.55: 4 residues within 4Å:- Chain A: L.65
- Chain B: L.65, K.225
- Ligands: GOL.48
Ligand excluded by PLIPEDO.56: 4 residues within 4Å:- Chain B: S.86, D.87, H.89, K.122
Ligand excluded by PLIPEDO.57: 2 residues within 4Å:- Chain A: I.173
- Ligands: GOL.3
Ligand excluded by PLIPEDO.58: 5 residues within 4Å:- Chain B: N.55, P.56, K.214, P.215
- Ligands: W87.36
Ligand excluded by PLIPEDO.59: 4 residues within 4Å:- Chain B: H.11, E.121, K.122, G.123
Ligand excluded by PLIPEDO.60: 7 residues within 4Å:- Chain B: A.14, S.37, S.38, S.39, G.40, K.93, K.94
Ligand excluded by PLIPEDO.61: 4 residues within 4Å:- Chain B: L.9, D.10, P.162, K.190
Ligand excluded by PLIP- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.32: 11 residues within 4Å:- Chain A: Y.143, P.169, Y.170, F.171, D.172, H.175
- Chain B: Y.143, Y.170, F.171, D.172, H.175
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:F.171, A:D.172, B:F.171, B:D.172
PEG.33: 5 residues within 4Å:- Chain A: C.3, L.4, K.5, A.14, E.288
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.4, A:E.288
PEG.62: 4 residues within 4Å:- Chain B: E.106, V.109, A.110, R.113
No protein-ligand interaction detected (PLIP)- 2 x NCO: COBALT HEXAMMINE(III)(Non-covalent)
NCO.34: 2 residues within 4Å:- Chain A: Q.277, E.278
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:Q.277, A:E.278
- Water bridges: A:Q.277, A:Q.277, A:E.278, A:E.278, A:E.278, A:E.279
NCO.35: 3 residues within 4Å:- Chain A: D.205, E.207
- Ligands: GOL.5
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.205, A:E.207, A:E.207
- Water bridges: A:S.208
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inaoka, D.K. et al., Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with SH-1-103. To be Published
- Release Date
- 2014-04-09
- Peptides
- Dihydroorotate dehydrogenase (fumarate): AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.43 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x W87: 5-{4-[5-(methoxycarbonyl)naphthalen-2-yl]butyl}-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid(Non-covalent)
- 25 x GOL: GLYCEROL(Non-functional Binders)
- 4 x CAC: CACODYLATE ION(Non-covalent)
- 2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
- 24 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x NCO: COBALT HEXAMMINE(III)(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inaoka, D.K. et al., Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with SH-1-103. To be Published
- Release Date
- 2014-04-09
- Peptides
- Dihydroorotate dehydrogenase (fumarate): AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B