- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.29 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ARG: ARGININE(Non-covalent)
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.2: 27 residues within 4Å:- Chain A: G.46, G.48, P.49, A.50, L.82, E.83, R.84, Q.85, W.90, H.91, M.94, M.101, Q.102, I.103, R.144, E.166, E.167, V.168, A.209, I.210, G.211, Y.407, S.466, L.467, L.468
- Ligands: NAP.3, GOL.10
25 PLIP interactions:25 interactions with chain A- Hydrophobic interactions: A:H.91, A:M.94, A:Y.407
- Hydrogen bonds: A:F.47, A:G.48, A:A.50, A:R.84, A:Q.85, A:W.90, A:Q.102, A:V.168, A:V.168, A:L.468
- Water bridges: A:F.47, A:G.48, A:S.51, A:E.83, A:R.84, A:R.84, A:G.211, A:G.211, A:G.212, A:G.212
- Salt bridges: A:H.91
- pi-Cation interactions: A:R.84
FAD.12: 27 residues within 4Å:- Chain B: G.46, G.48, P.49, A.50, L.82, E.83, R.84, Q.85, W.90, H.91, M.94, M.101, Q.102, I.103, R.144, E.166, E.167, V.168, A.209, I.210, G.211, Y.407, S.466, L.467, L.468
- Ligands: NAP.13, GOL.20
25 PLIP interactions:25 interactions with chain B- Hydrophobic interactions: B:H.91, B:M.94, B:Y.407
- Hydrogen bonds: B:F.47, B:G.48, B:A.50, B:R.84, B:Q.85, B:W.90, B:Q.102, B:V.168, B:V.168, B:L.468
- Water bridges: B:F.47, B:G.48, B:S.51, B:E.83, B:R.84, B:R.84, B:G.211, B:G.211, B:G.212, B:G.212
- Salt bridges: B:H.91
- pi-Cation interactions: B:R.84
FAD.22: 27 residues within 4Å:- Chain C: G.46, G.48, P.49, A.50, L.82, E.83, R.84, Q.85, W.90, H.91, M.94, M.101, Q.102, I.103, R.144, E.166, E.167, V.168, A.209, I.210, G.211, Y.407, S.466, L.467, L.468
- Ligands: NAP.23, GOL.30
25 PLIP interactions:25 interactions with chain C- Hydrophobic interactions: C:H.91, C:M.94, C:Y.407
- Hydrogen bonds: C:F.47, C:G.48, C:A.50, C:R.84, C:Q.85, C:W.90, C:Q.102, C:V.168, C:V.168, C:L.468
- Water bridges: C:F.47, C:G.48, C:S.51, C:E.83, C:R.84, C:R.84, C:G.211, C:G.211, C:G.212, C:G.212
- Salt bridges: C:H.91
- pi-Cation interactions: C:R.84
FAD.32: 27 residues within 4Å:- Chain D: G.46, G.48, P.49, A.50, L.82, E.83, R.84, Q.85, W.90, H.91, M.94, M.101, Q.102, I.103, R.144, E.166, E.167, V.168, A.209, I.210, G.211, Y.407, S.466, L.467, L.468
- Ligands: NAP.33, GOL.40
25 PLIP interactions:25 interactions with chain D- Hydrophobic interactions: D:H.91, D:M.94, D:Y.407
- Hydrogen bonds: D:F.47, D:G.48, D:A.50, D:R.84, D:Q.85, D:W.90, D:Q.102, D:V.168, D:V.168, D:L.468
- Water bridges: D:F.47, D:G.48, D:S.51, D:E.83, D:R.84, D:R.84, D:G.211, D:G.211, D:G.212, D:G.212
- Salt bridges: D:H.91
- pi-Cation interactions: D:R.84
- 4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
NAP.3: 21 residues within 4Å:- Chain A: K.100, Q.102, R.144, P.217, G.253, S.254, G.255, Q.256, S.257, E.260, R.279, N.323, Y.324, S.325, A.404, T.405, G.406, Y.407
- Ligands: ARG.1, FAD.2, GOL.10
28 PLIP interactions:27 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:Q.256
- Hydrogen bonds: A:S.254, A:S.254, A:Q.256, A:S.257, A:S.257, A:E.260, A:R.279, A:R.279, A:N.323, A:N.323, A:S.325, A:S.325, R.1
- Water bridges: A:K.100, A:S.218, A:S.218, A:G.255, A:G.255, A:Q.256, A:Q.256, A:S.257, A:G.406, A:Y.407, A:Y.407
- Salt bridges: A:R.279
- pi-Cation interactions: A:R.279, A:R.279
NAP.13: 21 residues within 4Å:- Chain B: K.100, Q.102, R.144, P.217, G.253, S.254, G.255, Q.256, S.257, E.260, R.279, N.323, Y.324, S.325, A.404, T.405, G.406, Y.407
- Ligands: ARG.11, FAD.12, GOL.20
27 PLIP interactions:26 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:Q.256
- Hydrogen bonds: B:S.254, B:S.254, B:Q.256, B:S.257, B:S.257, B:E.260, B:R.279, B:N.323, B:N.323, B:S.325, B:S.325, R.11
- Water bridges: B:K.100, B:S.218, B:S.218, B:G.255, B:G.255, B:Q.256, B:Q.256, B:S.257, B:R.279, B:G.406, B:Y.407
- Salt bridges: B:R.279
- pi-Cation interactions: B:R.279, B:R.279
NAP.23: 21 residues within 4Å:- Chain C: K.100, Q.102, R.144, P.217, G.253, S.254, G.255, Q.256, S.257, E.260, R.279, N.323, Y.324, S.325, A.404, T.405, G.406, Y.407
- Ligands: ARG.21, FAD.22, GOL.30
28 PLIP interactions:27 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:Q.256
- Hydrogen bonds: C:S.254, C:S.254, C:Q.256, C:S.257, C:S.257, C:E.260, C:R.279, C:R.279, C:N.323, C:N.323, C:S.325, C:S.325, R.21
- Water bridges: C:K.100, C:S.218, C:S.218, C:G.255, C:G.255, C:Q.256, C:Q.256, C:S.257, C:G.406, C:Y.407, C:Y.407
- Salt bridges: C:R.279
- pi-Cation interactions: C:R.279, C:R.279
NAP.33: 21 residues within 4Å:- Chain D: K.100, Q.102, R.144, P.217, G.253, S.254, G.255, Q.256, S.257, E.260, R.279, N.323, Y.324, S.325, A.404, T.405, G.406, Y.407
- Ligands: ARG.31, FAD.32, GOL.40
27 PLIP interactions:26 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:Q.256
- Hydrogen bonds: D:S.254, D:S.254, D:Q.256, D:S.257, D:S.257, D:E.260, D:R.279, D:N.323, D:N.323, D:S.325, D:S.325, R.31
- Water bridges: D:K.100, D:S.218, D:S.218, D:G.255, D:G.255, D:Q.256, D:Q.256, D:S.257, D:R.279, D:G.406, D:Y.407
- Salt bridges: D:R.279
- pi-Cation interactions: D:R.279, D:R.279
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 7 residues within 4Å:- Chain A: L.125, H.126, G.129, R.130, L.131, I.132
- Chain C: L.112
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:R.130, A:L.131, A:I.132, C:L.112
- Salt bridges: A:H.126
SO4.14: 7 residues within 4Å:- Chain B: L.125, H.126, G.129, R.130, L.131, I.132
- Chain D: L.112
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:R.130, B:L.131, B:I.132, D:L.112
- Salt bridges: B:H.126
SO4.24: 7 residues within 4Å:- Chain A: L.112
- Chain C: L.125, H.126, G.129, R.130, L.131, I.132
5 PLIP interactions:1 interactions with chain A, 4 interactions with chain C- Hydrogen bonds: A:L.112, C:R.130, C:L.131, C:I.132
- Salt bridges: C:H.126
SO4.34: 7 residues within 4Å:- Chain B: L.112
- Chain D: L.125, H.126, G.129, R.130, L.131, I.132
5 PLIP interactions:1 interactions with chain B, 4 interactions with chain D- Hydrogen bonds: B:L.112, D:R.130, D:L.131, D:I.132
- Salt bridges: D:H.126
- 24 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 4 residues within 4Å:- Chain A: C.80, S.159, D.160, V.162
Ligand excluded by PLIPGOL.6: 8 residues within 4Å:- Chain A: Y.336, M.339, Y.340, R.343, W.352
- Chain B: F.291, E.294
- Chain D: H.133
Ligand excluded by PLIPGOL.7: 7 residues within 4Å:- Chain A: Q.420, H.421, R.423, P.424, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.8: 7 residues within 4Å:- Chain A: L.137, P.142, A.143, E.146
- Chain D: N.337, Y.340, L.341
Ligand excluded by PLIPGOL.9: 5 residues within 4Å:- Chain A: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.10: 6 residues within 4Å:- Chain A: G.212, Y.407, R.409, S.466
- Ligands: FAD.2, NAP.3
Ligand excluded by PLIPGOL.15: 4 residues within 4Å:- Chain B: C.80, S.159, D.160, V.162
Ligand excluded by PLIPGOL.16: 8 residues within 4Å:- Chain A: F.291, E.294
- Chain B: Y.336, M.339, Y.340, R.343, W.352
- Chain C: H.133
Ligand excluded by PLIPGOL.17: 7 residues within 4Å:- Chain B: Q.420, H.421, R.423, P.424, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.18: 7 residues within 4Å:- Chain B: L.137, P.142, A.143, E.146
- Chain C: N.337, Y.340, L.341
Ligand excluded by PLIPGOL.19: 5 residues within 4Å:- Chain B: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.20: 6 residues within 4Å:- Chain B: G.212, Y.407, R.409, S.466
- Ligands: FAD.12, NAP.13
Ligand excluded by PLIPGOL.25: 4 residues within 4Å:- Chain C: C.80, S.159, D.160, V.162
Ligand excluded by PLIPGOL.26: 8 residues within 4Å:- Chain B: H.133
- Chain C: Y.336, M.339, Y.340, R.343, W.352
- Chain D: F.291, E.294
Ligand excluded by PLIPGOL.27: 7 residues within 4Å:- Chain C: Q.420, H.421, R.423, P.424, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.28: 7 residues within 4Å:- Chain B: N.337, Y.340, L.341
- Chain C: L.137, P.142, A.143, E.146
Ligand excluded by PLIPGOL.29: 5 residues within 4Å:- Chain C: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.30: 6 residues within 4Å:- Chain C: G.212, Y.407, R.409, S.466
- Ligands: FAD.22, NAP.23
Ligand excluded by PLIPGOL.35: 4 residues within 4Å:- Chain D: C.80, S.159, D.160, V.162
Ligand excluded by PLIPGOL.36: 8 residues within 4Å:- Chain A: H.133
- Chain C: F.291, E.294
- Chain D: Y.336, M.339, Y.340, R.343, W.352
Ligand excluded by PLIPGOL.37: 7 residues within 4Å:- Chain D: Q.420, H.421, R.423, P.424, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.38: 7 residues within 4Å:- Chain A: N.337, Y.340, L.341
- Chain D: L.137, P.142, A.143, E.146
Ligand excluded by PLIPGOL.39: 5 residues within 4Å:- Chain D: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.40: 6 residues within 4Å:- Chain D: G.212, Y.407, R.409, S.466
- Ligands: FAD.32, NAP.33
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Franceschini, S. et al., Structural Insight Into the Mechanism of Oxygen Activation and Substrate Selectivity of Flavin-Dependent N-Hydroxylating Monooxygenases. Biochemistry (2012)
- Release Date
- 2012-10-03
- Peptides
- L-ORNITHINE N5 MONOOXYGENASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.29 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ARG: ARGININE(Non-covalent)
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 24 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Franceschini, S. et al., Structural Insight Into the Mechanism of Oxygen Activation and Substrate Selectivity of Flavin-Dependent N-Hydroxylating Monooxygenases. Biochemistry (2012)
- Release Date
- 2012-10-03
- Peptides
- L-ORNITHINE N5 MONOOXYGENASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A