- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.90 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ARG: ARGININE(Non-covalent)
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.2: 30 residues within 4Å:- Chain A: V.45, G.46, F.47, 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, G.212, Y.407, R.409, S.466, L.467, L.468
- Ligands: NAP.3
22 PLIP interactions:21 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:M.94, A:Y.407
- Hydrogen bonds: A:G.46, A:F.47, A:F.47, A:A.50, A:R.84, A:R.84, A:W.90, A:Q.102, A:V.168, A:V.168, A:G.212, A:R.409, A:R.409, A:L.468
- Water bridges: A:G.48, A:S.51, A:Q.85
- Salt bridges: A:H.91
- pi-Cation interactions: A:R.84, R.1
FAD.12: 30 residues within 4Å:- Chain B: V.45, G.46, F.47, 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, G.212, Y.407, R.409, S.466, L.467, L.468
- Ligands: NAP.13
22 PLIP interactions:21 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:M.94, B:Y.407
- Hydrogen bonds: B:G.46, B:F.47, B:F.47, B:A.50, B:R.84, B:R.84, B:W.90, B:Q.102, B:V.168, B:V.168, B:G.212, B:R.409, B:R.409, B:L.468
- Water bridges: B:G.48, B:S.51, B:Q.85
- Salt bridges: B:H.91
- pi-Cation interactions: B:R.84, R.11
FAD.22: 30 residues within 4Å:- Chain C: V.45, G.46, F.47, 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, G.212, Y.407, R.409, S.466, L.467, L.468
- Ligands: NAP.23
22 PLIP interactions:21 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:M.94, C:Y.407
- Hydrogen bonds: C:G.46, C:F.47, C:F.47, C:A.50, C:R.84, C:R.84, C:W.90, C:Q.102, C:V.168, C:V.168, C:G.212, C:R.409, C:R.409, C:L.468
- Water bridges: C:G.48, C:S.51, C:Q.85
- Salt bridges: C:H.91
- pi-Cation interactions: C:R.84, R.21
FAD.32: 30 residues within 4Å:- Chain D: V.45, G.46, F.47, 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, G.212, Y.407, R.409, S.466, L.467, L.468
- Ligands: NAP.33
22 PLIP interactions:21 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:M.94, D:Y.407
- Hydrogen bonds: D:G.46, D:F.47, D:F.47, D:A.50, D:R.84, D:R.84, D:W.90, D:Q.102, D:V.168, D:V.168, D:G.212, D:R.409, D:R.409, D:L.468
- Water bridges: D:G.48, D:S.51, D:Q.85
- Salt bridges: D:H.91
- pi-Cation interactions: D:R.84, R.31
- 4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
NAP.3: 21 residues within 4Å:- Chain A: K.100, Q.102, R.144, K.215, P.217, 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.9
30 PLIP interactions:28 interactions with chain A, 2 Ligand-Ligand interactions- Hydrophobic interactions: A:Q.256
- Hydrogen bonds: A:K.100, A:K.215, A:K.215, A:S.254, A:Q.256, A:Q.256, A:S.257, A:S.257, A:R.279, A:R.279, A:N.323, A:N.323, A:S.325, A:S.325, R.1, R.1
- Water bridges: A:Q.102, A:Q.102, A:S.229, A:S.229, A:G.255, A:G.255, A:S.257, A:R.279, A:V.326, A:G.406
- 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, K.215, P.217, 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.19
30 PLIP interactions:28 interactions with chain B, 2 Ligand-Ligand interactions- Hydrophobic interactions: B:Q.256
- Hydrogen bonds: B:K.100, B:K.215, B:K.215, B:S.254, B:Q.256, B:Q.256, B:S.257, B:S.257, B:R.279, B:R.279, B:N.323, B:N.323, B:S.325, B:S.325, R.11, R.11
- Water bridges: B:Q.102, B:Q.102, B:S.229, B:S.229, B:G.255, B:G.255, B:S.257, B:R.279, B:V.326, B:G.406
- 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, K.215, P.217, 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.29
30 PLIP interactions:28 interactions with chain C, 2 Ligand-Ligand interactions- Hydrophobic interactions: C:Q.256
- Hydrogen bonds: C:K.100, C:K.215, C:K.215, C:S.254, C:Q.256, C:Q.256, C:S.257, C:S.257, C:R.279, C:R.279, C:N.323, C:N.323, C:S.325, C:S.325, R.21, R.21
- Water bridges: C:Q.102, C:Q.102, C:S.229, C:S.229, C:G.255, C:G.255, C:S.257, C:R.279, C:V.326, C:G.406
- 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, K.215, P.217, 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.39
30 PLIP interactions:28 interactions with chain D, 2 Ligand-Ligand interactions- Hydrophobic interactions: D:Q.256
- Hydrogen bonds: D:K.100, D:K.215, D:K.215, D:S.254, D:Q.256, D:Q.256, D:S.257, D:S.257, D:R.279, D:R.279, D:N.323, D:N.323, D:S.325, D:S.325, R.31, R.31
- Water bridges: D:Q.102, D:Q.102, D:S.229, D:S.229, D:G.255, D:G.255, D:S.257, D:R.279, D:V.326, D:G.406
- Salt bridges: D:R.279
- pi-Cation interactions: D:R.279, D:R.279
- 8 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 4 residues within 4Å:- Chain A: K.100, T.139, R.328, E.330
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.139
- Salt bridges: A:R.328
SO4.5: 5 residues within 4Å:- Chain A: H.126, G.129, R.130, L.131, I.132
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:H.126, A:L.131, A:I.132
- Salt bridges: A:H.126
SO4.14: 4 residues within 4Å:- Chain B: K.100, T.139, R.328, E.330
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:R.328
SO4.15: 5 residues within 4Å:- Chain B: H.126, G.129, R.130, L.131, I.132
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:H.126, B:L.131, B:I.132
- Salt bridges: B:H.126
SO4.24: 4 residues within 4Å:- Chain C: K.100, T.139, R.328, E.330
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:T.139
- Salt bridges: C:R.328
SO4.25: 5 residues within 4Å:- Chain C: H.126, G.129, R.130, L.131, I.132
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:H.126, C:L.131, C:I.132
- Salt bridges: C:H.126
SO4.34: 4 residues within 4Å:- Chain D: K.100, T.139, R.328, E.330
1 PLIP interactions:1 interactions with chain D- Salt bridges: D:R.328
SO4.35: 5 residues within 4Å:- Chain D: H.126, G.129, R.130, L.131, I.132
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:H.126, D:L.131, D:I.132
- Salt bridges: D:H.126
- 20 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 7 residues within 4Å:- Chain A: Y.336, M.339, Y.340, R.343
- Chain B: F.291, E.294
- Chain D: H.133
Ligand excluded by PLIPGOL.7: 4 residues within 4Å:- Chain A: H.91, S.92, G.212, Y.407
Ligand excluded by PLIPGOL.8: 5 residues within 4Å:- Chain A: V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.9: 3 residues within 4Å:- Chain A: K.215, R.279
- Ligands: NAP.3
Ligand excluded by PLIPGOL.10: 6 residues within 4Å:- Chain A: E.294, N.297, E.299, R.300
- Chain B: R.343
- Chain C: H.133
Ligand excluded by PLIPGOL.16: 7 residues within 4Å:- Chain A: F.291, E.294
- Chain B: Y.336, M.339, Y.340, R.343
- Chain C: H.133
Ligand excluded by PLIPGOL.17: 4 residues within 4Å:- Chain B: H.91, S.92, G.212, Y.407
Ligand excluded by PLIPGOL.18: 5 residues within 4Å:- Chain B: V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.19: 3 residues within 4Å:- Chain B: K.215, R.279
- Ligands: NAP.13
Ligand excluded by PLIPGOL.20: 6 residues within 4Å:- Chain A: R.343
- Chain B: E.294, N.297, E.299, R.300
- Chain D: H.133
Ligand excluded by PLIPGOL.26: 7 residues within 4Å:- Chain B: H.133
- Chain C: Y.336, M.339, Y.340, R.343
- Chain D: F.291, E.294
Ligand excluded by PLIPGOL.27: 4 residues within 4Å:- Chain C: H.91, S.92, G.212, Y.407
Ligand excluded by PLIPGOL.28: 5 residues within 4Å:- Chain C: V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.29: 3 residues within 4Å:- Chain C: K.215, R.279
- Ligands: NAP.23
Ligand excluded by PLIPGOL.30: 6 residues within 4Å:- Chain A: H.133
- Chain C: E.294, N.297, E.299, R.300
- Chain D: R.343
Ligand excluded by PLIPGOL.36: 7 residues within 4Å:- Chain A: H.133
- Chain C: F.291, E.294
- Chain D: Y.336, M.339, Y.340, R.343
Ligand excluded by PLIPGOL.37: 4 residues within 4Å:- Chain D: H.91, S.92, G.212, Y.407
Ligand excluded by PLIPGOL.38: 5 residues within 4Å:- Chain D: V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.39: 3 residues within 4Å:- Chain D: K.215, R.279
- Ligands: NAP.33
Ligand excluded by PLIPGOL.40: 6 residues within 4Å:- Chain B: H.133
- Chain C: R.343
- Chain D: E.294, N.297, E.299, R.300
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 2.90 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)
- 8 x SO4: SULFATE ION(Non-functional Binders)
- 20 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