SMTL ID : 4d39.1

Structure of bovine endothelial nitric oxide synthase heme domain in complex with2-(2-(1H-imidazol-1-yl)pyrimidin-4-yl)-N-(3-cyanobenzyl) ethan-1-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 21 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, G.318, W.319, M.321, E.324, W.410, F.436, Y.438 Ligands: H4B.2, OLW.3, ACT.4 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:W.141, A:W.141, A:W.141, A:A.144, A:L.156, A:L.156, A:F.316, A:F.316, A:F.316, A:F.316, A:W.319, A:E.324, A:W.410, A:W.410, 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.8: 21 residues within 4Å: Chain B: W.141, A.144, 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.9, OLW.10 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:W.141, B:W.141, B:W.141, B:A.144, B:R.146, B:F.316, B:F.316, B:F.316, B:F.316, B:W.319, B:E.324, B:V.381, B:W.410, B:W.410, 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.6 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.328, A:A.409, A:W.410 Water bridges: A:S.65, A:R.328, A:W.410 pi-Stacking: A:W.410, A:W.410 pi-Cation interactions: A:W.410 Hydrophobic interactions: B:E.426 H4B.9: 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.8, GOL.13 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:E.426 Hydrogen bonds: B:R.328, B:A.409, B:W.410 Water bridges: B:R.328 pi-Stacking: B:W.410, B:W.410

2 x OLW: 3-[({2-[2-(1H-imidazol-1-yl)pyrimidin-4-yl]ethyl}amino)methyl]benzonitrile(Non-covalent)

OLW.3: 14 residues within 4Å: Chain A: V.67, L.68, Q.210, P.297, A.298, V.299, F.316, G.318, E.324, W.410, Y.438 Ligands: HEM.1, MTL.5, GOL.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.67, A:L.68, A:W.410, A:Y.438 pi-Stacking: A:F.316 OLW.10: 12 residues within 4Å: Chain B: V.67, L.68, Q.210, P.297, A.298, V.299, F.316, W.410, Y.438 Ligands: HEM.8, MTL.12, GOL.13 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.67, B:Q.210, B:V.299, B:W.410, B:Y.438 pi-Stacking: B:F.316

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 5 residues within 4Å: Chain A: G.149, W.319, V.381, S.389 Ligands: HEM.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.319, A:S.389 Water bridges: A:Q.152 ACT.11: 6 residues within 4Å: Chain B: G.149, I.151, Q.152, W.319, V.381, S.389 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.151, B:Q.152 Hydrogen bonds: B:S.389, B:S.389 Water bridges: B:Q.152

2 x MTL: D-MANNITOL(Non-covalent)

MTL.5: 11 residues within 4Å: Chain A: S.209, R.213, A.229, N.230, V.231, E.232, I.233, N.301, D.441, W.443 Ligands: OLW.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:R.213, A:A.229, A:N.230, A:E.232, A:I.233, A:N.301, A:D.441 Water bridges: A:S.209, A:S.209, A:A.229, A:V.231 MTL.12: 10 residues within 4Å: Chain B: S.209, R.213, A.229, N.230, V.231, E.232, I.233, N.301, D.441 Ligands: OLW.10 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.209, B:R.213, B:A.229, B:N.230, B:E.232, B:I.233, B:N.301, B:D.441 Water bridges: B:A.229, B:V.231, B:D.441

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: V.67, R.328, H.334, W.410 Chain B: W.37 Ligands: H4B.2, OLW.3 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.328, A:R.328, B:W.37 GOL.13: 7 residues within 4Å: Chain A: W.37 Chain B: V.67, R.328, H.334, W.410 Ligands: H4B.9, OLW.10 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.328, B:R.328, B:H.334 Water bridges: B:D.332, B:R.335, A:H.424

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: C.57, C.62 Chain B: C.57, C.62 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:C.57, A:C.62, B:C.57, B:C.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mukherjee, P. et al., Novel 2,4-Disubstituted Pyrimidines as Potent, Selective, and Cell-Permeable Inhibitors of Neuronal Nitric Oxide Synthase. J.Med.Chem. (2015)

Release Date

2014-12-24

Peptides

NITRIC OXIDE SYNTHASE, ENDOTHELIAL: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NITRIC OXIDE SYNTHASE, ENDOTHELIAL

Related Entries With Identical Sequence