- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- hetero-oligomer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 3 x FE: FE (III) ION(Non-covalent)
FE.2: 4 residues within 4Å:- Chain A: N.201, H.208, H.213, D.362
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.208, A:H.213, A:D.362, A:D.362, H2O.23
FE.17: 4 residues within 4Å:- Chain C: N.201, H.208, H.213, D.362
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:H.208, C:H.213, C:D.362, C:D.362, H2O.54
FE.32: 4 residues within 4Å:- Chain E: N.201, H.208, H.213, D.362
5 PLIP interactions:4 interactions with chain E, 1 Ligand-Water interactions- Metal complexes: E:H.208, E:H.213, E:D.362, E:D.362, H2O.85
- 3 x 16Q: ETHOXYBENZENE(Non-covalent)
16Q.3: 6 residues within 4Å:- Chain A: N.201, D.205, H.208, V.209, H.295, N.297
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:V.209
- Water bridges: A:N.201
16Q.18: 6 residues within 4Å:- Chain C: N.201, D.205, H.208, V.209, H.295, N.297
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:V.209
- Water bridges: C:N.201
16Q.33: 6 residues within 4Å:- Chain E: N.201, D.205, H.208, V.209, H.295, N.297
2 PLIP interactions:2 interactions with chain E- Hydrophobic interactions: E:V.209
- Water bridges: E:N.201
- 24 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 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
Ligand excluded by PLIPEDO.5: 7 residues within 4Å:- Chain A: H.18, S.381, D.382, L.383
- Chain E: V.80, C.81, R.82
Ligand excluded by PLIPEDO.7: 7 residues within 4Å:- Chain A: P.49, A.50, D.53
- Chain B: R.78, Y.79, K.80, L.81
Ligand excluded by PLIPEDO.8: 2 residues within 4Å:- Chain A: P.118, F.119
Ligand excluded by PLIPEDO.10: 6 residues within 4Å:- Chain B: Y.50, Y.88, Q.102, M.191, V.192, F.193
Ligand excluded by PLIPEDO.11: 2 residues within 4Å:- Chain B: N.91, Q.94
Ligand excluded by PLIPEDO.12: 6 residues within 4Å:- Chain B: R.138, A.158, E.160, F.177, V.178, D.179
Ligand excluded by PLIPEDO.15: 3 residues within 4Å:- Chain B: E.83, A.84, N.86
Ligand excluded by PLIPEDO.19: 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
Ligand excluded by PLIPEDO.20: 7 residues within 4Å:- Chain A: V.80, C.81, R.82
- Chain C: H.18, S.381, D.382, L.383
Ligand excluded by PLIPEDO.22: 7 residues within 4Å:- Chain C: P.49, A.50, D.53
- Chain D: R.78, Y.79, K.80, L.81
Ligand excluded by PLIPEDO.23: 2 residues within 4Å:- Chain C: P.118, F.119
Ligand excluded by PLIPEDO.25: 6 residues within 4Å:- Chain D: Y.50, Y.88, Q.102, M.191, V.192, F.193
Ligand excluded by PLIPEDO.26: 2 residues within 4Å:- Chain D: N.91, Q.94
Ligand excluded by PLIPEDO.27: 6 residues within 4Å:- Chain D: R.138, A.158, E.160, F.177, V.178, D.179
Ligand excluded by PLIPEDO.30: 3 residues within 4Å:- Chain D: E.83, A.84, N.86
Ligand excluded by PLIPEDO.34: 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
Ligand excluded by PLIPEDO.35: 7 residues within 4Å:- Chain C: V.80, C.81, R.82
- Chain E: H.18, S.381, D.382, L.383
Ligand excluded by PLIPEDO.37: 7 residues within 4Å:- Chain E: P.49, A.50, D.53
- Chain F: R.78, Y.79, K.80, L.81
Ligand excluded by PLIPEDO.38: 2 residues within 4Å:- Chain E: P.118, F.119
Ligand excluded by PLIPEDO.40: 6 residues within 4Å:- Chain F: Y.50, Y.88, Q.102, M.191, V.192, F.193
Ligand excluded by PLIPEDO.41: 2 residues within 4Å:- Chain F: N.91, Q.94
Ligand excluded by PLIPEDO.42: 6 residues within 4Å:- Chain F: R.138, A.158, E.160, F.177, V.178, D.179
Ligand excluded by PLIPEDO.45: 3 residues within 4Å:- Chain F: E.83, A.84, N.86
Ligand excluded by PLIP- 12 x SO4: SULFATE ION(Non-functional Binders)
SO4.6: 4 residues within 4Å:- Chain A: L.128, N.129, K.130, K.131
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:K.130, A:K.131
- Water bridges: A:E.120, A:E.126, A:L.128, A:L.128
- Salt bridges: A:K.130
SO4.9: 3 residues within 4Å:- Chain A: K.245, W.439, H.440
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:W.439
- Salt bridges: A:K.245
SO4.13: 2 residues within 4Å:- Chain B: Q.63, Q.65
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Q.63, B:Q.65
- Water bridges: B:Q.63, B:Q.65
SO4.14: 6 residues within 4Å:- Chain B: G.59, S.60, E.61, G.166, E.167, K.172
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:S.60, B:E.167, B:E.167
- Water bridges: B:K.172
- Salt bridges: B:K.172
SO4.21: 4 residues within 4Å:- Chain C: L.128, N.129, K.130, K.131
7 PLIP interactions:7 interactions with chain C- Hydrogen bonds: C:K.130, C:K.131
- Water bridges: C:E.120, C:E.126, C:L.128, C:L.128
- Salt bridges: C:K.130
SO4.24: 3 residues within 4Å:- Chain C: K.245, W.439, H.440
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:W.439
- Salt bridges: C:K.245
SO4.28: 2 residues within 4Å:- Chain D: Q.63, Q.65
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:Q.63, D:Q.65
- Water bridges: D:Q.63, D:Q.65
SO4.29: 6 residues within 4Å:- Chain D: G.59, S.60, E.61, G.166, E.167, K.172
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:S.60, D:E.167, D:E.167
- Water bridges: D:K.172
- Salt bridges: D:K.172
SO4.36: 4 residues within 4Å:- Chain E: L.128, N.129, K.130, K.131
7 PLIP interactions:7 interactions with chain E- Hydrogen bonds: E:K.130, E:K.131
- Water bridges: E:E.120, E:E.126, E:L.128, E:L.128
- Salt bridges: E:K.130
SO4.39: 3 residues within 4Å:- Chain E: K.245, W.439, H.440
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:W.439
- Salt bridges: E:K.245
SO4.43: 2 residues within 4Å:- Chain F: Q.63, Q.65
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:Q.63, F:Q.65
- Water bridges: F:Q.63, F:Q.65
SO4.44: 6 residues within 4Å:- Chain F: G.59, S.60, E.61, G.166, E.167, K.172
5 PLIP interactions:5 interactions with chain F- Hydrogen bonds: F:S.60, F:E.167, F:E.167
- Water bridges: F:K.172
- Salt bridges: F:K.172
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ferraro, D.J. et al., Naphthalene 1,2-Dioxygenase bound to phenetole. To be Published
- Release Date
- 2013-10-30
- Peptides
- Naphthalene 1,2-dioxygenase subunit alpha: ACE
Naphthalene 1,2-dioxygenase subunit beta: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- hetero-oligomer
- Ligands
- 3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 3 x FE: FE (III) ION(Non-covalent)
- 3 x 16Q: ETHOXYBENZENE(Non-covalent)
- 24 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 12 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ferraro, D.J. et al., Naphthalene 1,2-Dioxygenase bound to phenetole. To be Published
- Release Date
- 2013-10-30
- Peptides
- Naphthalene 1,2-dioxygenase subunit alpha: ACE
Naphthalene 1,2-dioxygenase subunit beta: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B