- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.82 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NI: NICKEL (II) ION(Non-covalent)
- 2 x ZN: ZINC ION(Non-covalent)
ZN.2: 4 residues within 4Å:- Chain A: C.39, C.41, C.44, H.83
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:C.39, A:C.41, A:C.44, A:H.83
ZN.15: 4 residues within 4Å:- Chain B: C.39, C.41, C.44, H.83
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.39, B:C.41, B:C.44, B:H.83
- 2 x OGA: N-OXALYLGLYCINE(Non-covalent)
OGA.3: 13 residues within 4Å:- Chain A: V.184, A.194, L.200, H.203, D.205, H.348, R.350, R.361, L.363
- Ligands: NI.1, REE.4, EDO.6, EDO.8
3 PLIP interactions:3 interactions with chain A- Salt bridges: A:H.203, A:R.350, A:R.361
OGA.16: 13 residues within 4Å:- Chain B: V.184, A.194, L.200, H.203, D.205, H.348, R.350, R.361, L.363
- Ligands: NI.14, REE.17, EDO.19, EDO.21
3 PLIP interactions:3 interactions with chain B- Salt bridges: B:H.203, B:R.350, B:R.361
- 2 x REE: 2-(2-carboxyethyl)-1,1,1-trimethyldiazanium(Non-covalent)
REE.4: 12 residues within 4Å:- Chain A: Y.178, W.182, N.192, Y.195, D.205, Y.206, P.207, N.293, T.296, Y.367
- Ligands: OGA.3, EDO.6
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:D.205
- Hydrogen bonds: A:N.192, A:Y.206, A:N.293, A:Y.367
- Salt bridges: A:D.205
- pi-Cation interactions: A:Y.178, A:W.182, A:W.182
REE.17: 12 residues within 4Å:- Chain B: Y.178, W.182, N.192, Y.195, D.205, Y.206, P.207, N.293, T.296, Y.367
- Ligands: OGA.16, EDO.19
12 PLIP interactions:12 interactions with chain B- Hydrophobic interactions: B:D.205
- Hydrogen bonds: B:N.192, B:Y.206, B:N.293, B:Y.367, B:Y.367
- Water bridges: B:T.296, B:T.296
- Salt bridges: B:D.205
- pi-Cation interactions: B:Y.178, B:W.182, B:W.182
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.5: 5 residues within 4Å:- Chain A: E.280, V.288, R.289, W.344
- Chain B: H.210
Ligand excluded by PLIPEDO.6: 8 residues within 4Å:- Chain A: N.192, A.194, L.200, H.203, N.293, A.295
- Ligands: OGA.3, REE.4
Ligand excluded by PLIPEDO.7: 7 residues within 4Å:- Chain A: K.199, L.200, S.201, H.203, N.293, A.295
- Chain B: L.55
Ligand excluded by PLIPEDO.8: 7 residues within 4Å:- Chain A: L.218, S.230, E.231, I.339, H.348, G.349
- Ligands: OGA.3
Ligand excluded by PLIPEDO.9: 5 residues within 4Å:- Chain A: Y.174, L.175
- Chain B: Y.174, L.175
- Ligands: EDO.22
Ligand excluded by PLIPEDO.10: 9 residues within 4Å:- Chain A: T.261, A.295, R.297, D.298, T.299
- Chain B: Y.45, K.50, A.51, R.52
Ligand excluded by PLIPEDO.11: 3 residues within 4Å:- Chain A: K.146, D.342, W.370
Ligand excluded by PLIPEDO.12: 5 residues within 4Å:- Chain A: Q.240, F.250, G.285, Q.286, V.287
Ligand excluded by PLIPEDO.13: 9 residues within 4Å:- Chain A: W.34, R.95, C.96, F.97, R.102
- Chain B: T.299, I.300, F.301, D.302
Ligand excluded by PLIPEDO.18: 5 residues within 4Å:- Chain A: H.210
- Chain B: E.280, V.288, R.289, W.344
Ligand excluded by PLIPEDO.19: 8 residues within 4Å:- Chain B: N.192, A.194, L.200, H.203, N.293, A.295
- Ligands: OGA.16, REE.17
Ligand excluded by PLIPEDO.20: 7 residues within 4Å:- Chain A: L.55
- Chain B: K.199, L.200, S.201, H.203, N.293, A.295
Ligand excluded by PLIPEDO.21: 7 residues within 4Å:- Chain B: L.218, S.230, E.231, I.339, H.348, G.349
- Ligands: OGA.16
Ligand excluded by PLIPEDO.22: 5 residues within 4Å:- Chain A: Y.174, L.175
- Chain B: Y.174, L.175
- Ligands: EDO.9
Ligand excluded by PLIPEDO.23: 9 residues within 4Å:- Chain A: Y.45, K.50, A.51, R.52
- Chain B: T.261, A.295, R.297, D.298, T.299
Ligand excluded by PLIPEDO.24: 3 residues within 4Å:- Chain B: K.146, D.342, W.370
Ligand excluded by PLIPEDO.25: 5 residues within 4Å:- Chain B: Q.240, F.250, G.285, Q.286, V.287
Ligand excluded by PLIPEDO.26: 9 residues within 4Å:- Chain A: T.299, I.300, F.301, D.302
- Chain B: W.34, R.95, C.96, F.97, R.102
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Leung, I.K. et al., Structural and mechanistic studies on gamma-butyrobetaine hydroxylase. Chem. Biol. (2010)
- Release Date
- 2010-05-12
- Peptides
- Gamma-butyrobetaine dioxygenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.82 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NI: NICKEL (II) ION(Non-covalent)
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x OGA: N-OXALYLGLYCINE(Non-covalent)
- 2 x REE: 2-(2-carboxyethyl)-1,1,1-trimethyldiazanium(Non-covalent)
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Leung, I.K. et al., Structural and mechanistic studies on gamma-butyrobetaine hydroxylase. Chem. Biol. (2010)
- Release Date
- 2010-05-12
- Peptides
- Gamma-butyrobetaine dioxygenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A