SMTL ID : 6pp2.2 (1 other biounit)

Structure of human endothelial nitric oxide synthase heme domain in complex with 4-((4-(2-Amino-4-methylquinolin-7-yl)-2-(aminomethyl)phenoxy)methyl)benzonitrile

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 18 residues within 4Å: Chain A: W.138, A.141, R.143, C.144, V.145, S.186, M.299, F.313, S.314, G.315, W.316, M.318, E.321, W.407, F.433, Y.435 Ligands: H4B.2, OUM.3 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:W.138, A:W.138, A:W.138, A:A.141, A:F.313, A:F.313, A:F.313, A:F.313, A:W.316, A:E.321, A:F.433, A:F.433, A:F.433 Water bridges: A:R.325, A:R.325 Salt bridges: A:R.143 pi-Stacking: A:W.138 Metal complexes: A:C.144 HEM.10: 20 residues within 4Å: Chain B: W.138, A.141, R.143, C.144, V.145, G.146, L.153, S.186, M.299, F.313, S.314, G.315, W.316, M.318, E.321, W.407, F.433, Y.435 Ligands: H4B.11, OUM.12 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:W.138, B:W.138, B:W.138, B:A.141, B:L.153, B:F.313, B:F.313, B:F.313, B:F.313, B:W.316, B:W.316, B:E.321, B:F.433, B:F.433, B:F.433 Hydrogen bonds: B:Y.435 Water bridges: B:R.325, B:R.325 pi-Stacking: B:W.138 Metal complexes: B:C.144

2 x H4B: 5,6,7,8-TETRAHYDROBIOPTERIN(Non-covalent)

H4B.2: 11 residues within 4Å: Chain A: S.62, V.64, R.325, A.406, W.407 Chain B: W.405, F.420, Q.422, E.423 Ligands: HEM.1, OUM.3 8 PLIP interactions: 1 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:E.423 Hydrogen bonds: A:R.325, A:A.406, A:W.407 Water bridges: A:R.325 pi-Stacking: A:W.407, A:W.407 pi-Cation interactions: A:R.325 H4B.11: 12 residues within 4Å: Chain A: W.405, F.420, H.421, Q.422, E.423 Chain B: S.62, V.64, R.325, A.406, W.407 Ligands: HEM.10, OUM.12 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:E.423 Hydrogen bonds: B:R.325, B:A.406, B:W.407 Water bridges: B:R.325 pi-Stacking: B:W.407, B:W.407 pi-Cation interactions: B:W.407

2 x OUM: 4-{[2-(aminomethyl)-4-(2-amino-4-methylquinolin-7-yl)phenoxy]methyl}benzonitrile(Non-covalent)

OUM.3: 14 residues within 4Å: Chain A: V.64, P.294, V.296, F.313, W.316, Y.317, E.321, R.325, H.331, W.407, Y.435 Chain B: W.34 Ligands: HEM.1, H4B.2 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.64, A:V.296, A:W.407 Hydrogen bonds: A:E.321, A:R.325 Water bridges: A:N.326, A:N.326, A:R.332, B:H.421 OUM.12: 16 residues within 4Å: Chain A: W.34 Chain B: V.64, P.294, V.296, F.313, G.315, W.316, Y.317, M.318, E.321, R.325, H.331, W.407 Ligands: HEM.10, H4B.11, CL.17 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.64, B:P.294, B:V.296, B:F.313, B:F.313, B:W.407 Hydrogen bonds: B:W.316, B:M.318, B:E.321, B:R.325 Water bridges: B:N.326

6 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.4: 5 residues within 4Å: Chain A: V.341, D.344, L.345, T.347, R.348 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.344, A:L.345, A:R.348, A:R.348 Salt bridges: A:D.344 BTB.5: 2 residues within 4Å: Chain A: E.337, T.347 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.337 Salt bridges: A:E.337 BTB.6: 1 residues within 4Å: Chain A: E.258 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.258 Salt bridges: A:E.258 BTB.13: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: GD.16 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.281 Water bridges: B:T.279, B:T.279 Salt bridges: B:E.281 BTB.14: 2 residues within 4Å: Chain B: D.257, E.258 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.257 Salt bridges: B:E.258 BTB.15: 1 residues within 4Å: Chain B: D.338 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.337, B:D.338 Water bridges: B:D.338 Salt bridges: B:D.338

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: C.54, C.59 Chain B: C.54, C.59 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.54, B:C.59, A:C.54, A:C.59

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 1 residues within 4Å: Chain A: E.127 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 3 residues within 4Å: Chain A: Q.207, Y.317, N.326 Ligand excluded by PLIP CL.17: 5 residues within 4Å: Chain B: Q.207, R.210, Y.317, N.326 Ligands: OUM.12 Ligand excluded by PLIP

1 x GD: GADOLINIUM ATOM(Non-covalent)

GD.16: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: BTB.13 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.279, B:E.281, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cinelli, M.A. et al., First Contact: 7-Phenyl-2-Aminoquinolines, Potent and Selective Neuronal Nitric Oxide Synthase Inhibitors That Target an Isoform-Specific Aspartate. J.Med.Chem. (2020)

Release Date

2020-04-29

Peptides

Nitric oxide synthase, endothelial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Nitric oxide synthase, endothelial

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