- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.28 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x LYS: LYSINE(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, 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:A.50, A:R.84, A:Q.85, A:W.90, A:Q.102, A:I.103, A:V.168, A:V.168, A:R.409, A:L.468
- Water bridges: A:G.48, A:S.51, A:R.84, A:A.89, A:H.91, A:G.211, A:G.211, A:G.212
- Salt bridges: A:H.91
- pi-Cation interactions: K.1
FAD.14: 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, R.409, S.466, L.467, L.468
- Ligands: NAP.15
22 PLIP interactions:21 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:M.94, B:Y.407
- Hydrogen bonds: B:A.50, B:R.84, B:Q.85, B:W.90, B:Q.102, B:I.103, B:V.168, B:V.168, B:R.409, B:L.468
- Water bridges: B:G.48, B:S.51, B:R.84, B:A.89, B:H.91, B:G.211, B:G.211, B:G.212
- Salt bridges: B:H.91
- pi-Cation interactions: K.13
FAD.26: 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, R.409, S.466, L.467, L.468
- Ligands: NAP.27
22 PLIP interactions:21 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:M.94, C:Y.407
- Hydrogen bonds: C:A.50, C:R.84, C:Q.85, C:W.90, C:Q.102, C:I.103, C:V.168, C:V.168, C:R.409, C:L.468
- Water bridges: C:G.48, C:S.51, C:R.84, C:A.89, C:H.91, C:G.211, C:G.211, C:G.212
- Salt bridges: C:H.91
- pi-Cation interactions: K.25
FAD.38: 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, R.409, S.466, L.467, L.468
- Ligands: NAP.39
22 PLIP interactions:21 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:M.94, D:Y.407
- Hydrogen bonds: D:A.50, D:R.84, D:Q.85, D:W.90, D:Q.102, D:I.103, D:V.168, D:V.168, D:R.409, D:L.468
- Water bridges: D:G.48, D:S.51, D:R.84, D:A.89, D:H.91, D:G.211, D:G.211, D:G.212
- Salt bridges: D:H.91
- pi-Cation interactions: K.37
- 4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
NAP.3: 20 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, L.467
- Ligands: LYS.1, FAD.2
28 PLIP interactions:27 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:Q.256
- Hydrogen bonds: A:K.100, A:Q.102, A:R.144, A:S.254, A:G.255, 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, K.1
- Water bridges: A:A.258, A:R.279, A:R.279, A:V.326, A:A.404, A:G.406, A:Y.407, A:Y.407
- Salt bridges: A:R.279
- pi-Cation interactions: A:R.279, A:R.279
NAP.15: 20 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, L.467
- Ligands: LYS.13, FAD.14
27 PLIP interactions:26 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:Q.256
- Hydrogen bonds: B:K.100, B:Q.102, B:R.144, B:S.254, B:G.255, 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, K.13
- Water bridges: B:A.258, B:R.279, B:R.279, B:V.326, B:A.404, B:G.406, B:Y.407
- Salt bridges: B:R.279
- pi-Cation interactions: B:R.279, B:R.279
NAP.27: 20 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, L.467
- Ligands: LYS.25, FAD.26
28 PLIP interactions:27 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:Q.256
- Hydrogen bonds: C:K.100, C:Q.102, C:R.144, C:S.254, C:G.255, 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, K.25
- Water bridges: C:A.258, C:R.279, C:R.279, C:V.326, C:A.404, C:G.406, C:Y.407, C:Y.407
- Salt bridges: C:R.279
- pi-Cation interactions: C:R.279, C:R.279
NAP.39: 20 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, L.467
- Ligands: LYS.37, FAD.38
27 PLIP interactions:26 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:Q.256
- Hydrogen bonds: D:K.100, D:Q.102, D:R.144, D:S.254, D:G.255, 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, K.37
- Water bridges: D:A.258, D:R.279, D:R.279, D:V.326, D:A.404, 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: 5 residues within 4Å:- Chain A: K.100, T.139, L.141, R.328, E.330
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:T.139, A:T.139, A:E.330
- Water bridges: A:F.140, A:L.141
- Salt bridges: A:R.328
SO4.16: 5 residues within 4Å:- Chain B: K.100, T.139, L.141, R.328, E.330
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:T.139, B:T.139, B:E.330
- Water bridges: B:F.140, B:L.141
- Salt bridges: B:R.328
SO4.28: 5 residues within 4Å:- Chain C: K.100, T.139, L.141, R.328, E.330
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:T.139, C:T.139, C:E.330
- Water bridges: C:F.140, C:L.141
- Salt bridges: C:R.328
SO4.40: 5 residues within 4Å:- Chain D: K.100, T.139, L.141, R.328, E.330
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:T.139, D:T.139, D:E.330
- Water bridges: D:F.140, D:L.141
- Salt bridges: D:R.328
- 32 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 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.6: 6 residues within 4Å:- Chain A: L.125, H.126, G.129, R.130, L.131, I.132
Ligand excluded by PLIPGOL.7: 5 residues within 4Å:- Chain A: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.8: 6 residues within 4Å:- Chain A: R.364, V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.9: 5 residues within 4Å:- Chain A: L.239, L.240, K.241, D.242, Y.247
Ligand excluded by PLIPGOL.10: 5 residues within 4Å:- Chain A: C.80, S.159, D.160, V.162, R.201
Ligand excluded by PLIPGOL.11: 8 residues within 4Å:- Chain A: Q.420, H.421, R.423, P.424, T.425, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.12: 9 residues within 4Å:- Chain A: L.137, T.139, L.141, P.142, A.143, E.146
- Chain D: N.337, Y.340, L.341
Ligand excluded by PLIPGOL.17: 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.18: 6 residues within 4Å:- Chain B: L.125, H.126, G.129, R.130, L.131, I.132
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: R.364, V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.21: 5 residues within 4Å:- Chain B: L.239, L.240, K.241, D.242, Y.247
Ligand excluded by PLIPGOL.22: 5 residues within 4Å:- Chain B: C.80, S.159, D.160, V.162, R.201
Ligand excluded by PLIPGOL.23: 8 residues within 4Å:- Chain B: Q.420, H.421, R.423, P.424, T.425, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.24: 9 residues within 4Å:- Chain B: L.137, T.139, L.141, P.142, A.143, E.146
- Chain C: N.337, Y.340, L.341
Ligand excluded by PLIPGOL.29: 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.30: 6 residues within 4Å:- Chain C: L.125, H.126, G.129, R.130, L.131, I.132
Ligand excluded by PLIPGOL.31: 5 residues within 4Å:- Chain C: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.32: 6 residues within 4Å:- Chain C: R.364, V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.33: 5 residues within 4Å:- Chain C: L.239, L.240, K.241, D.242, Y.247
Ligand excluded by PLIPGOL.34: 5 residues within 4Å:- Chain C: C.80, S.159, D.160, V.162, R.201
Ligand excluded by PLIPGOL.35: 8 residues within 4Å:- Chain C: Q.420, H.421, R.423, P.424, T.425, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.36: 9 residues within 4Å:- Chain B: N.337, Y.340, L.341
- Chain C: L.137, T.139, L.141, P.142, A.143, E.146
Ligand excluded by PLIPGOL.41: 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.42: 6 residues within 4Å:- Chain D: L.125, H.126, G.129, R.130, L.131, I.132
Ligand excluded by PLIPGOL.43: 5 residues within 4Å:- Chain D: K.128, D.149, R.152, W.153, Q.156
Ligand excluded by PLIPGOL.44: 6 residues within 4Å:- Chain D: R.364, V.365, E.366, H.367, H.368, G.369
Ligand excluded by PLIPGOL.45: 5 residues within 4Å:- Chain D: L.239, L.240, K.241, D.242, Y.247
Ligand excluded by PLIPGOL.46: 5 residues within 4Å:- Chain D: C.80, S.159, D.160, V.162, R.201
Ligand excluded by PLIPGOL.47: 8 residues within 4Å:- Chain D: Q.420, H.421, R.423, P.424, T.425, G.426, Q.427, D.428
Ligand excluded by PLIPGOL.48: 9 residues within 4Å:- Chain A: N.337, Y.340, L.341
- Chain D: L.137, T.139, L.141, P.142, A.143, E.146
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 2.28 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x LYS: LYSINE(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)
- 32 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