- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- hetero-3-3-mer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 3 x FE: FE (III) ION(Non-covalent)
FE.2: 3 residues within 4Å:- Chain A: H.206, H.211, D.360
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:H.206, A:H.211, A:D.360, H2O.9, H2O.16
FE.19: 3 residues within 4Å:- Chain C: H.206, H.211, D.360
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:H.206, C:H.211, C:D.360, H2O.36, H2O.43
FE.36: 3 residues within 4Å:- Chain E: H.206, H.211, D.360
5 PLIP interactions:3 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: E:H.206, E:H.211, E:D.360, H2O.63, H2O.70
- 3 x NBZ: NITROBENZENE(Non-covalent)
NBZ.3: 10 residues within 4Å:- Chain A: N.199, F.200, D.203, H.206, V.207, N.258, F.293, N.295, L.305, W.356
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:V.207, A:F.293, A:N.295
- pi-Stacking: A:F.200, A:H.206
NBZ.20: 10 residues within 4Å:- Chain C: N.199, F.200, D.203, H.206, V.207, N.258, F.293, N.295, L.305, W.356
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:V.207, C:F.293, C:N.295
- pi-Stacking: C:F.200, C:H.206
NBZ.37: 10 residues within 4Å:- Chain E: N.199, F.200, D.203, H.206, V.207, N.258, F.293, N.295, L.305, W.356
5 PLIP interactions:5 interactions with chain E- Hydrophobic interactions: E:V.207, E:F.293, E:N.295
- pi-Stacking: E:F.200, E:H.206
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 6 residues within 4Å:- Chain A: K.30, T.31, R.35, D.151, S.425, N.426
Ligand excluded by PLIPEDO.5: 9 residues within 4Å:- Chain A: K.54, E.90, P.184, K.186, W.325
- Chain B: E.70, R.183
- Ligands: EOH.6, EOH.7
Ligand excluded by PLIPEDO.12: 5 residues within 4Å:- Chain B: M.2, N.4, E.7
- Chain F: H.56
- Ligands: NI.45
Ligand excluded by PLIPEDO.13: 6 residues within 4Å:- Chain B: Y.50, Y.88, Q.102, L.191, V.192, F.193
Ligand excluded by PLIPEDO.14: 7 residues within 4Å:- Chain A: P.47, S.48, D.51
- Chain B: R.78, Y.79, Q.80, L.81
Ligand excluded by PLIPEDO.15: 6 residues within 4Å:- Chain B: T.35, T.39, V.120, V.123
- Chain D: T.121, N.122
Ligand excluded by PLIPEDO.21: 6 residues within 4Å:- Chain C: K.30, T.31, R.35, D.151, S.425, N.426
Ligand excluded by PLIPEDO.22: 9 residues within 4Å:- Chain C: K.54, E.90, P.184, K.186, W.325
- Chain D: E.70, R.183
- Ligands: EOH.23, EOH.24
Ligand excluded by PLIPEDO.29: 5 residues within 4Å:- Chain B: H.56
- Chain D: M.2, N.4, E.7
- Ligands: NI.11
Ligand excluded by PLIPEDO.30: 6 residues within 4Å:- Chain D: Y.50, Y.88, Q.102, L.191, V.192, F.193
Ligand excluded by PLIPEDO.31: 7 residues within 4Å:- Chain C: P.47, S.48, D.51
- Chain D: R.78, Y.79, Q.80, L.81
Ligand excluded by PLIPEDO.32: 6 residues within 4Å:- Chain D: T.35, T.39, V.120, V.123
- Chain F: T.121, N.122
Ligand excluded by PLIPEDO.38: 6 residues within 4Å:- Chain E: K.30, T.31, R.35, D.151, S.425, N.426
Ligand excluded by PLIPEDO.39: 9 residues within 4Å:- Chain E: K.54, E.90, P.184, K.186, W.325
- Chain F: E.70, R.183
- Ligands: EOH.40, EOH.41
Ligand excluded by PLIPEDO.46: 5 residues within 4Å:- Chain D: H.56
- Chain F: M.2, N.4, E.7
- Ligands: NI.28
Ligand excluded by PLIPEDO.47: 6 residues within 4Å:- Chain F: Y.50, Y.88, Q.102, L.191, V.192, F.193
Ligand excluded by PLIPEDO.48: 7 residues within 4Å:- Chain E: P.47, S.48, D.51
- Chain F: R.78, Y.79, Q.80, L.81
Ligand excluded by PLIPEDO.49: 6 residues within 4Å:- Chain B: T.121, N.122
- Chain F: T.35, T.39, V.120, V.123
Ligand excluded by PLIP- 18 x EOH: ETHANOL(Non-functional Binders)
EOH.6: 7 residues within 4Å:- Chain A: L.45, V.53, P.183, P.184, Y.327
- Chain B: E.70
- Ligands: EDO.5
Ligand excluded by PLIPEOH.7: 9 residues within 4Å:- Chain A: K.54, A.55, K.56, E.61, E.90, K.186, W.325
- Chain F: E.149
- Ligands: EDO.5
Ligand excluded by PLIPEOH.8: 8 residues within 4Å:- Chain A: N.5, L.6, V.7, S.8, T.13, Q.14, K.15, D.380
Ligand excluded by PLIPEOH.9: 4 residues within 4Å:- Chain A: V.87, H.88, A.89
- Chain F: N.111
Ligand excluded by PLIPEOH.16: 6 residues within 4Å:- Chain B: P.112, K.113, A.146, R.147, R.148
- Chain D: L.71
Ligand excluded by PLIPEOH.17: 4 residues within 4Å:- Chain B: D.46, R.115, F.116
- Chain D: T.158
Ligand excluded by PLIPEOH.23: 7 residues within 4Å:- Chain C: L.45, V.53, P.183, P.184, Y.327
- Chain D: E.70
- Ligands: EDO.22
Ligand excluded by PLIPEOH.24: 9 residues within 4Å:- Chain B: E.149
- Chain C: K.54, A.55, K.56, E.61, E.90, K.186, W.325
- Ligands: EDO.22
Ligand excluded by PLIPEOH.25: 8 residues within 4Å:- Chain C: N.5, L.6, V.7, S.8, T.13, Q.14, K.15, D.380
Ligand excluded by PLIPEOH.26: 4 residues within 4Å:- Chain B: N.111
- Chain C: V.87, H.88, A.89
Ligand excluded by PLIPEOH.33: 6 residues within 4Å:- Chain D: P.112, K.113, A.146, R.147, R.148
- Chain F: L.71
Ligand excluded by PLIPEOH.34: 4 residues within 4Å:- Chain D: D.46, R.115, F.116
- Chain F: T.158
Ligand excluded by PLIPEOH.40: 7 residues within 4Å:- Chain E: L.45, V.53, P.183, P.184, Y.327
- Chain F: E.70
- Ligands: EDO.39
Ligand excluded by PLIPEOH.41: 9 residues within 4Å:- Chain D: E.149
- Chain E: K.54, A.55, K.56, E.61, E.90, K.186, W.325
- Ligands: EDO.39
Ligand excluded by PLIPEOH.42: 8 residues within 4Å:- Chain E: N.5, L.6, V.7, S.8, T.13, Q.14, K.15, D.380
Ligand excluded by PLIPEOH.43: 4 residues within 4Å:- Chain D: N.111
- Chain E: V.87, H.88, A.89
Ligand excluded by PLIPEOH.50: 6 residues within 4Å:- Chain B: L.71
- Chain F: P.112, K.113, A.146, R.147, R.148
Ligand excluded by PLIPEOH.51: 4 residues within 4Å:- Chain B: T.158
- Chain F: D.46, R.115, F.116
Ligand excluded by PLIP- 6 x NI: NICKEL (II) ION(Non-covalent)
NI.10: 3 residues within 4Å:- Chain B: H.14, E.18, E.160
6 PLIP interactions:3 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:H.14, B:E.18, B:E.160, H2O.18, H2O.18, H2O.26
NI.11: 4 residues within 4Å:- Chain B: E.55, H.56
- Chain D: M.2
- Ligands: EDO.29
4 PLIP interactions:1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:H.56, H2O.43, H2O.43, H2O.54
NI.27: 3 residues within 4Å:- Chain D: H.14, E.18, E.160
6 PLIP interactions:3 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:H.14, D:E.18, D:E.160, H2O.45, H2O.45, H2O.53
NI.28: 4 residues within 4Å:- Chain D: E.55, H.56
- Chain F: M.2
- Ligands: EDO.46
4 PLIP interactions:1 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:H.56, H2O.70, H2O.70, H2O.81
NI.44: 3 residues within 4Å:- Chain F: H.14, E.18, E.160
6 PLIP interactions:3 interactions with chain F, 3 Ligand-Water interactions- Metal complexes: F:H.14, F:E.18, F:E.160, H2O.72, H2O.72, H2O.80
NI.45: 4 residues within 4Å:- Chain B: M.2
- Chain F: E.55, H.56
- Ligands: EDO.12
4 PLIP interactions:1 interactions with chain F, 3 Ligand-Water interactions- Metal complexes: F:H.56, H2O.16, H2O.17, H2O.27
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Friemann, R. et al., Structural insight into the dioxygenation of nitroarene compounds: the crystal structure of nitrobenzene dioxygenase. J. Mol. Biol. (2005)
- Release Date
- 2005-05-04
- Peptides
- OXYGENASE-ALPHA NBDO: ACE
OXYGENASE-BETA NBDO: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- hetero-3-3-mer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 3 x FE: FE (III) ION(Non-covalent)
- 3 x NBZ: NITROBENZENE(Non-covalent)
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 18 x EOH: ETHANOL(Non-functional Binders)
- 6 x NI: NICKEL (II) ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Friemann, R. et al., Structural insight into the dioxygenation of nitroarene compounds: the crystal structure of nitrobenzene dioxygenase. J. Mol. Biol. (2005)
- Release Date
- 2005-05-04
- Peptides
- OXYGENASE-ALPHA NBDO: ACE
OXYGENASE-BETA NBDO: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B