SMTL ID : 4d1p.1

Structure of human endothelial nitric oxide synthase heme domain IN COMPLEX WITH 6-((((3S, 5R)-5-(((6-AMINO-4-METHYLPYRIDIN-2-YL)METHOXY) METHYL)PYRROLIDIN-3-YL)OXY) METHYL)-4-METHYLPYRIDIN-2-AMINE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: W.138, A.141, R.143, C.144, V.145, G.146, S.186, F.313, S.314, G.315, W.316, M.318, E.321, V.378, W.407, F.433, Y.435 Ligands: H4B.2, Q16.3, ACT.4 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:W.138, A:W.138, A:W.138, A:A.141, A:R.143, A:F.313, A:F.313, A:F.313, A:F.313, A:W.316, A:E.321, A:V.378, A:F.433, A:F.433, A:F.433 Water bridges: A:R.325 pi-Stacking: A:W.138 Metal complexes: A:C.144 HEM.12: 20 residues within 4Å: Chain B: W.138, A.141, R.143, C.144, V.145, G.146, S.186, F.313, S.314, G.315, W.316, M.318, E.321, V.378, W.407, F.433, Y.435 Ligands: ACT.11, H4B.13, Q16.14 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:W.138, B:W.138, B:W.138, B:A.141, B:R.143, B:F.313, B:F.313, B:F.313, B:F.313, B:W.316, B:E.321, B:V.378, B:F.433, B:F.433, B:F.433 Hydrogen bonds: B:Y.435 Water bridges: B:E.321, B:Y.435 pi-Stacking: B:W.138 Metal complexes: B:C.144

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

H4B.2: 10 residues within 4Å: Chain A: S.62, R.325, A.406, W.407 Chain B: W.405, F.420, H.421, Q.422, E.423 Ligands: HEM.1 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:W.407 H4B.13: 11 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.12 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.325, B:R.325, B:A.406, B:W.407 pi-Stacking: B:W.407, B:W.407 pi-Cation interactions: B:W.407 Hydrophobic interactions: A:E.423

2 x Q16: 6-((((3S, 5R)-5-(((6-amino-4-methylpyridin-2-yl)methoxy)methyl)pyrrolidin-3-yl)oxy)methyl)-4-methylpyridin-2-amine(Non-covalent)

Q16.3: 12 residues within 4Å: Chain A: F.65, Q.207, P.294, V.296, F.313, G.315, W.316, Y.317, E.321, W.407 Chain B: W.34 Ligands: HEM.1 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:P.294, A:V.296, A:F.313, B:W.34 Hydrogen bonds: A:M.318, A:E.321 Water bridges: A:R.325 pi-Stacking: A:F.65 Q16.14: 10 residues within 4Å: Chain A: W.34 Chain B: F.65, P.294, V.296, F.313, G.315, W.316, Y.317, E.321 Ligands: HEM.12 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.294, B:V.296, B:F.313, A:W.34 Hydrogen bonds: B:M.318, B:E.321 pi-Stacking: B:F.65

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

ACT.4: 5 residues within 4Å: Chain A: G.146, W.316, V.378, S.386 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.316, A:S.386 ACT.5: 4 residues within 4Å: Chain A: Q.207, R.210, N.326, R.332 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.207, A:N.326 Salt bridges: A:R.210, A:R.332 ACT.11: 5 residues within 4Å: Chain B: G.146, W.316, V.378, S.386 Ligands: HEM.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.386, B:S.386 Water bridges: B:Q.149 ACT.15: 4 residues within 4Å: Chain B: Q.207, R.210, N.326, R.332 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.207, B:N.326 Water bridges: B:S.206, B:Y.291 Salt bridges: B:R.210, B:R.332

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

BTB.6: 5 residues within 4Å: Chain A: W.282, V.341, C.342, D.344 Ligands: GD.10 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.344 BTB.7: 1 residues within 4Å: Chain A: E.337 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.337 BTB.16: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: GD.18 3 PLIP interactions: 3 interactions with chain B Water bridges: B:E.281, B:E.281 Salt bridges: B:E.281 BTB.17: 2 residues within 4Å: Chain B: E.258, P.259 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.258 Salt bridges: B:E.258

1 x GOL: GLYCEROL(Non-functional Binders)

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

1 x ZN: ZINC ION(Non-covalent)

ZN.9: 4 residues within 4Å: Chain A: C.54, C.59 Chain B: C.54, C.59 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:C.54, A:C.59, B:C.54, B:C.59

2 x GD: GADOLINIUM ATOM(Non-functional Binders)(Non-covalent)

GD.10: 1 residues within 4Å: Ligands: BTB.6 No protein-ligand interaction detected (PLIP) GD.18: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: BTB.16 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.279, B:E.281, H2O.25, H2O.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Structures of Human Constitutive Nitric Oxide Synthases. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-10-15

Peptides

NITRIC OXIDE SYNTHASE, ENDOTHELIAL: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NITRIC OXIDE SYNTHASE, ENDOTHELIAL

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