SMTL ID : 5fvz.1

Structure of bovine endothelial nitric oxide synthase heme domain in complex with 6-(2-(5-(3-(dimethylamino)propyl)pyridin-3-yl)ethyl)-4-methylpyridin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: W.141, A.144, R.146, C.147, V.148, G.149, L.156, S.189, M.302, F.316, S.317, W.319, M.321, E.324, W.410, F.436, Y.438 Ligands: H4B.2, W67.3 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:W.141, A:W.141, A:A.144, A:V.148, A:L.156, A:F.316, A:F.316, A:F.316, A:F.316, A:W.319, A:E.324, A:F.436, A:F.436, A:F.436 Hydrogen bonds: A:Y.438 Water bridges: A:Y.438 pi-Stacking: A:W.141 Metal complexes: A:C.147 HEM.7: 20 residues within 4Å: Chain B: W.141, R.146, C.147, V.148, G.149, L.156, S.189, M.302, F.316, S.317, G.318, W.319, M.321, E.324, V.381, W.410, F.436, Y.438 Ligands: H4B.8, W67.9 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:W.141, B:W.141, B:W.141, B:F.316, B:F.316, B:F.316, B:F.316, B:W.319, B:E.324, B:V.381, B:F.436, B:F.436, B:F.436 Water bridges: B:Y.438 pi-Stacking: B:W.141 Metal complexes: B:C.147

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

H4B.2: 12 residues within 4Å: Chain A: S.65, V.67, R.328, A.409, W.410 Chain B: W.408, F.423, H.424, Q.425, E.426 Ligands: HEM.1, GOL.4 8 PLIP interactions: 1 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:E.426 Hydrogen bonds: A:R.328, A:A.409, A:W.410 Water bridges: A:R.328 pi-Stacking: A:W.410, A:W.410 pi-Cation interactions: A:W.410 H4B.8: 12 residues within 4Å: Chain A: W.408, F.423, H.424, Q.425, E.426 Chain B: S.65, V.67, R.328, A.409, W.410 Ligands: HEM.7, GOL.10 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.328, B:A.409, B:W.410 Water bridges: B:S.65, B:W.410 pi-Stacking: B:W.410, B:W.410 pi-Cation interactions: B:W.410 Hydrophobic interactions: A:E.426

2 x W67: 6-(2-(5-(3-(DIMETHYLAMINO)PROPYL)PYRIDIN-3-YL)ETHYL)-4-METHYLPYRIDIN-2-AMINE(Non-covalent)

W67.3: 14 residues within 4Å: Chain A: V.67, Q.210, P.297, V.299, F.316, S.317, G.318, W.319, Y.320, E.324, W.410, Y.438 Ligands: HEM.1, CL.6 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.297, A:V.299, A:F.316 Hydrogen bonds: A:M.321, A:E.324, A:Y.438 Water bridges: A:R.335, A:R.335 W67.9: 15 residues within 4Å: Chain B: Q.210, P.297, V.299, F.316, S.317, G.318, W.319, Y.320, M.321, E.324, W.410, Y.438 Ligands: HEM.7, GOL.10, CL.11 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:P.297, B:V.299, B:F.316 Hydrogen bonds: B:M.321, B:E.324 Water bridges: B:N.301, B:R.335, B:R.335

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: V.67, R.328, H.334, W.410 Chain B: W.37 Ligands: H4B.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.328, A:R.328, A:H.334 GOL.10: 7 residues within 4Å: Chain A: W.37 Chain B: V.67, R.328, H.334, W.410 Ligands: H4B.8, W67.9 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.328, B:R.328, B:H.334 Water bridges: B:D.332, B:R.335

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 4 residues within 4Å: Chain A: C.57, C.62 Chain B: C.57, C.62 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.57, B:C.62, A:C.57, A:C.62

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

CL.6: 6 residues within 4Å: Chain A: Q.210, R.213, Y.294, Y.320, N.329 Ligands: W67.3 Ligand excluded by PLIP CL.11: 6 residues within 4Å: Chain B: Q.210, R.213, Y.294, Y.320, N.329 Ligands: W67.9 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, H. et al., Potent and Selective Human Neuronal Nitric Oxide Synthase Inhibition by Optimization of the 2-Aminopyridine-Based Scaffold with a Pyridine Linker. J.Med.Chem. (2016)

Release Date

2016-04-20

Peptides

ENDOTHELIAL NITRIC OXIDE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ENDOTHELIAL NITRIC OXIDE SYNTHASE

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