- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- hetero-oligomer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 10 residues within 4Å:- Chain A: L.31, F.35, A.36, M.59, G.60, I.61, D.62, F.152
- Chain C: Y.376, Q.377
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:I.61, A:D.62, A:D.62, C:Q.377
EDO.3: 7 residues within 4Å:- Chain A: H.18, S.381, D.382, L.383
- Chain E: V.80, C.81, R.82
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain E- Hydrogen bonds: A:H.18, A:S.381, E:R.82
- Water bridges: A:D.382, E:R.82
EDO.4: 7 residues within 4Å:- Chain A: T.56, E.92, P.186, K.188, W.327
- Chain B: E.70, R.183
6 PLIP interactions:3 interactions with chain B, 3 interactions with chain A- Hydrogen bonds: B:E.70, B:E.70, B:R.183, A:T.56, A:T.56, A:K.188
EDO.8: 6 residues within 4Å:- Chain B: Y.50, Y.88, Q.102, M.191, V.192, F.193
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Y.50, B:Y.88, B:Y.88
- Water bridges: B:F.193
EDO.9: 3 residues within 4Å:- Chain A: R.343
- Chain B: N.91, Q.94
7 PLIP interactions:3 interactions with chain B, 4 interactions with chain A- Hydrogen bonds: B:N.91, B:Q.94
- Water bridges: B:N.91, A:D.264, A:R.350, A:R.350, A:R.350
EDO.14: 10 residues within 4Å:- Chain C: L.31, F.35, A.36, M.59, G.60, I.61, D.62, F.152
- Chain E: Y.376, Q.377
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain E- Hydrogen bonds: C:I.61, C:D.62, C:D.62, E:Q.377
EDO.15: 7 residues within 4Å:- Chain A: V.80, C.81, R.82
- Chain C: H.18, S.381, D.382, L.383
5 PLIP interactions:2 interactions with chain A, 3 interactions with chain C- Hydrogen bonds: A:R.82, C:H.18, C:S.381
- Water bridges: A:R.82, C:D.382
EDO.16: 7 residues within 4Å:- Chain C: T.56, E.92, P.186, K.188, W.327
- Chain D: E.70, R.183
6 PLIP interactions:3 interactions with chain C, 3 interactions with chain D- Hydrogen bonds: C:T.56, C:T.56, C:K.188, D:E.70, D:E.70, D:R.183
EDO.20: 6 residues within 4Å:- Chain D: Y.50, Y.88, Q.102, M.191, V.192, F.193
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:Y.50, D:Y.88, D:Y.88
- Water bridges: D:F.193
EDO.21: 3 residues within 4Å:- Chain C: R.343
- Chain D: N.91, Q.94
7 PLIP interactions:3 interactions with chain D, 4 interactions with chain C- Hydrogen bonds: D:N.91, D:Q.94
- Water bridges: D:N.91, C:D.264, C:R.350, C:R.350, C:R.350
EDO.26: 10 residues within 4Å:- Chain A: Y.376, Q.377
- Chain E: L.31, F.35, A.36, M.59, G.60, I.61, D.62, F.152
4 PLIP interactions:3 interactions with chain E, 1 interactions with chain A- Hydrogen bonds: E:I.61, E:D.62, E:D.62, A:Q.377
EDO.27: 7 residues within 4Å:- Chain C: V.80, C.81, R.82
- Chain E: H.18, S.381, D.382, L.383
5 PLIP interactions:2 interactions with chain C, 3 interactions with chain E- Hydrogen bonds: C:R.82, E:H.18, E:S.381
- Water bridges: C:R.82, E:D.382
EDO.28: 7 residues within 4Å:- Chain E: T.56, E.92, P.186, K.188, W.327
- Chain F: E.70, R.183
6 PLIP interactions:3 interactions with chain F, 3 interactions with chain E- Hydrogen bonds: F:E.70, F:E.70, F:R.183, E:T.56, E:T.56, E:K.188
EDO.32: 6 residues within 4Å:- Chain F: Y.50, Y.88, Q.102, M.191, V.192, F.193
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:Y.50, F:Y.88, F:Y.88
- Water bridges: F:F.193
EDO.33: 3 residues within 4Å:- Chain E: R.343
- Chain F: N.91, Q.94
7 PLIP interactions:4 interactions with chain E, 3 interactions with chain F- Water bridges: E:D.264, E:R.350, E:R.350, E:R.350, F:N.91
- Hydrogen bonds: F:N.91, F:Q.94
- 3 x IND: INDOLE(Non-covalent)
IND.5: 8 residues within 4Å:- Chain A: N.201, F.202, D.205, H.208, H.295, N.297, L.307
- Ligands: NO.6
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:N.297, A:L.307, A:L.307
- pi-Stacking: A:H.208
IND.17: 8 residues within 4Å:- Chain C: N.201, F.202, D.205, H.208, H.295, N.297, L.307
- Ligands: NO.18
4 PLIP interactions:4 interactions with chain C- Hydrophobic interactions: C:N.297, C:L.307, C:L.307
- pi-Stacking: C:H.208
IND.29: 8 residues within 4Å:- Chain E: N.201, F.202, D.205, H.208, H.295, N.297, L.307
- Ligands: NO.30
4 PLIP interactions:4 interactions with chain E- Hydrophobic interactions: E:N.297, E:L.307, E:L.307
- pi-Stacking: E:H.208
- 3 x NO: NITRIC OXIDE(Non-covalent)
NO.6: 6 residues within 4Å:- Chain A: H.208, H.213, F.352, D.362
- Ligands: IND.5, FE.7
No protein-ligand interaction detected (PLIP)NO.18: 6 residues within 4Å:- Chain C: H.208, H.213, F.352, D.362
- Ligands: IND.17, FE.19
No protein-ligand interaction detected (PLIP)NO.30: 6 residues within 4Å:- Chain E: H.208, H.213, F.352, D.362
- Ligands: IND.29, FE.31
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:H.208
- 3 x FE: FE (III) ION(Non-covalent)
FE.7: 5 residues within 4Å:- Chain A: N.201, H.208, H.213, D.362
- Ligands: NO.6
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Ligand interactions- Metal complexes: A:H.208, A:H.213, A:D.362, A:D.362, NO.6
FE.19: 5 residues within 4Å:- Chain C: N.201, H.208, H.213, D.362
- Ligands: NO.18
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Ligand interactions- Metal complexes: C:H.208, C:H.213, C:D.362, C:D.362, NO.18
FE.31: 5 residues within 4Å:- Chain E: N.201, H.208, H.213, D.362
- Ligands: NO.30
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:H.208, E:H.213, E:D.362, E:D.362
- 9 x SO4: SULFATE ION(Non-functional Binders)
SO4.10: 2 residues within 4Å:- Chain B: Q.63, Q.65
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.63, B:Q.65
SO4.11: 5 residues within 4Å:- Chain B: G.59, S.60, E.61, K.164, K.172
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.60
- Salt bridges: B:K.164
SO4.12: 2 residues within 4Å:- Chain B: R.165, R.171
5 PLIP interactions:5 interactions with chain B- Water bridges: B:R.165, B:R.165, B:R.171
- Salt bridges: B:R.165, B:R.171
SO4.22: 2 residues within 4Å:- Chain D: Q.63, Q.65
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Q.63, D:Q.65
SO4.23: 5 residues within 4Å:- Chain D: G.59, S.60, E.61, K.164, K.172
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:S.60
- Salt bridges: D:K.164
SO4.24: 2 residues within 4Å:- Chain D: R.165, R.171
5 PLIP interactions:5 interactions with chain D- Water bridges: D:R.165, D:R.165, D:R.171
- Salt bridges: D:R.165, D:R.171
SO4.34: 2 residues within 4Å:- Chain F: Q.63, Q.65
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:Q.63, F:Q.65
SO4.35: 5 residues within 4Å:- Chain F: G.59, S.60, E.61, K.164, K.172
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:S.60
- Salt bridges: F:K.164
SO4.36: 2 residues within 4Å:- Chain F: R.165, R.171
5 PLIP interactions:5 interactions with chain F- Water bridges: F:R.165, F:R.165, F:R.171
- Salt bridges: F:R.165, F:R.171
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karlsson, A. et al., No Binding to Naphthalene Dioxygenase. J.Biol.Inorg.Chem. (2005)
- Release Date
- 2005-02-09
- Peptides
- NAPHTHALENE 1,2-DIOXYGENASE ALPHA SUBUNIT: ACE
NAPHTHALENE 1,2-DIOXYGENASE BETA SUBUNIT: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- hetero-oligomer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 3 x IND: INDOLE(Non-covalent)
- 3 x NO: NITRIC OXIDE(Non-covalent)
- 3 x FE: FE (III) ION(Non-covalent)
- 9 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karlsson, A. et al., No Binding to Naphthalene Dioxygenase. J.Biol.Inorg.Chem. (2005)
- Release Date
- 2005-02-09
- Peptides
- NAPHTHALENE 1,2-DIOXYGENASE ALPHA SUBUNIT: ACE
NAPHTHALENE 1,2-DIOXYGENASE BETA SUBUNIT: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B