SMTL ID : 3jwx.1

Structure of endothelial nitric oxide synthase heme domain complexed with N1-[(3'R,4'R)-4'-((6"-amino-4"-methylpyridin-2"-yl)methyl)pyrrolidin-3'-yl]-N2-(3'-fluorophenethyl)ethane-1,2-diamine tetrahydrochloride

Coordinates

PDB Format

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.142, A.145, R.147, C.148, V.149, G.150, L.157, S.190, M.303, F.317, S.318, G.319, W.320, M.322, E.325, V.382, W.411, F.437 Ligands: H4B.2, ACT.3, JI5.5 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.142, A:W.142, A:W.142, A:A.145, A:L.157, A:F.317, A:F.317, A:F.317, A:F.317, A:W.320, A:W.320, A:E.325, A:V.382, A:F.437, A:F.437, A:F.437 Water bridges: A:R.147 pi-Stacking: A:W.142 Metal complexes: A:C.148 HEM.8: 20 residues within 4Å: Chain B: W.142, R.147, C.148, V.149, G.150, L.157, S.190, M.303, F.317, S.318, G.319, W.320, M.322, E.325, V.382, W.411, F.437 Ligands: H4B.9, ACT.10, JI5.12 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:W.142, B:W.142, B:W.142, B:F.317, B:F.317, B:F.317, B:F.317, B:W.320, B:E.325, B:V.382, B:F.437, B:F.437, B:F.437 Water bridges: B:R.147 pi-Stacking: B:W.142 Metal complexes: B:C.148

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

H4B.2: 13 residues within 4Å: Chain A: S.66, V.68, R.329, A.410, W.411 Chain B: W.409, F.424, H.425, Q.426, E.427 Ligands: HEM.1, GOL.4, JI5.5 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.329, A:A.410, A:W.411 Water bridges: A:S.66, A:R.329, A:W.411 pi-Stacking: A:W.411, A:W.411 Hydrophobic interactions: B:E.427 H4B.9: 13 residues within 4Å: Chain A: W.409, F.424, H.425, Q.426, E.427 Chain B: S.66, V.68, R.329, A.410, W.411 Ligands: HEM.8, GOL.11, JI5.12 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.329, B:A.410, B:W.411 Water bridges: B:R.329 pi-Stacking: B:W.411, B:W.411 Hydrophobic interactions: A:E.427

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

ACT.3: 5 residues within 4Å: Chain A: G.150, W.320, V.382, S.390 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.320, A:S.390 ACT.10: 6 residues within 4Å: Chain B: G.150, I.152, W.320, V.382, S.390 Ligands: HEM.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.390, B:S.390

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: R.329, H.335 Chain B: W.38 Ligands: H4B.2, JI5.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.329, A:R.329, A:H.335 GOL.11: 7 residues within 4Å: Chain A: W.38 Chain B: V.68, R.329, H.335, W.411 Ligands: H4B.9, JI5.12 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.329, B:R.329, B:H.335 Water bridges: B:D.333, A:H.425

2 x JI5: N-{(3R,4R)-4-[(6-amino-4-methylpyridin-2-yl)methyl]pyrrolidin-3-yl}-N'-[2-(3-fluorophenyl)ethyl]ethane-1,2-diamine(Non-covalent)

JI5.5: 17 residues within 4Å: Chain A: V.68, L.69, R.147, Q.211, P.298, V.300, F.317, S.318, G.319, W.320, E.325, W.411, Y.439 Chain B: W.38 Ligands: HEM.1, H4B.2, GOL.4 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.68, A:P.298, A:Y.439, A:Y.439, B:W.38 Hydrogen bonds: A:R.147 Water bridges: A:Q.211, A:E.325 JI5.12: 17 residues within 4Å: Chain A: W.38 Chain B: V.68, L.69, R.147, Q.211, P.298, V.300, F.317, S.318, G.319, W.320, E.325, W.411, Y.439 Ligands: HEM.8, H4B.9, GOL.11 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:W.38, B:V.68, B:P.298, B:Y.439, B:Y.439 Hydrogen bonds: B:R.147 Water bridges: B:Q.211

2 x CAD: CACODYLIC ACID(Non-covalent)

CAD.6: 2 residues within 4Å: Chain A: W.286, C.346 No protein-ligand interaction detected (PLIP) CAD.13: 2 residues within 4Å: Chain B: W.286, C.346 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: C.58, C.63 Chain B: C.58, C.63 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.58, B:C.63, A:C.58, A:C.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Delker, S.L. et al., Unexpected binding modes of nitric oxide synthase inhibitors effective in the prevention of a cerebral palsy phenotype in an animal model. J.Am.Chem.Soc. (2010)

Release Date

2010-05-05

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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