SMTL ID : 3rqo.1

Structure of the endothelial nitric oxide synthase heme domain in complex with 6-(((3R,4R)-4-(2-((1S,2R/1R,2S)-2-(3-Clorophenyl)cyclopropylamino)ethoxy)pyrrolidin-3-yl)methyl)-4-methylpyridin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: W.141, R.146, C.147, V.148, G.149, L.156, S.189, M.302, F.316, S.317, G.318, W.319, E.324, W.410, F.436 Ligands: H4B.2, X2D.3 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:W.141, A:W.141, A:W.141, A:F.316, A:F.316, A:F.316, A:F.316, A:W.319, A:F.436, A:F.436, A:F.436 Hydrogen bonds: A:R.146 pi-Stacking: A:W.141 Metal complexes: A:C.147 HEM.8: 19 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, E.324, V.381, W.410, F.436 Ligands: H4B.9, X2D.10, ACT.11 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:W.141, B:W.141, B:W.141, B:L.156, B:F.316, B:F.316, B:F.316, B:F.316, B:W.319, B:V.381, B:F.436, B:F.436, B:F.436 pi-Stacking: B:W.141 Metal complexes: B:C.147

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

H4B.2: 13 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, X2D.3, GOL.5 7 PLIP interactions: 1 interactions with chain B, 6 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 H4B.9: 13 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, X2D.10, GOL.12 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.328, B:A.409, B:W.410 Water bridges: B:E.324, B:R.328 pi-Stacking: B:W.410, B:W.410 Hydrophobic interactions: A:E.426

2 x X2D: 6-{[(3R,4R)-4-(2-{[(1R,2S)-2-(3-chlorophenyl)cyclopropyl]amino}ethoxy)pyrrolidin-3-yl]methyl}-4-methylpyridin-2-amine(Non-covalent)

X2D.3: 17 residues within 4Å: Chain A: V.67, R.146, Q.210, P.297, V.299, F.316, S.317, G.318, W.319, Y.320, E.324, W.410, Y.438 Chain B: W.37 Ligands: HEM.1, H4B.2, GOL.5 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.67, A:P.297, A:P.297, A:V.299, A:Y.320, A:Y.438, A:Y.438, B:W.37 Hydrogen bonds: A:R.146, A:E.324 Water bridges: A:Q.210, A:Q.210 X2D.10: 16 residues within 4Å: Chain A: W.37 Chain B: V.67, L.68, R.146, Q.210, P.297, V.299, F.316, G.318, W.319, E.324, W.410, Y.438 Ligands: HEM.8, H4B.9, GOL.12 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.67, B:L.68, B:P.297, B:P.297, B:Y.438, B:Y.438, A:W.37 Hydrogen bonds: B:R.146, B:E.324 Water bridges: B:Q.210

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

ACT.4: 5 residues within 4Å: Chain A: G.149, I.151, W.319, V.381, S.389 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.151 Hydrogen bonds: A:W.319, A:S.389 ACT.11: 6 residues within 4Å: Chain B: G.149, I.151, W.319, V.381, S.389 Ligands: HEM.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.389, B:S.389

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: R.328, H.334 Chain B: W.37 Ligands: H4B.2, X2D.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.328, A:R.328, A:H.334 GOL.12: 6 residues within 4Å: Chain A: W.37 Chain B: V.67, R.328, H.334 Ligands: H4B.9, X2D.10 5 PLIP interactions: 4 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, A:H.424

2 x CAD: CACODYLIC ACID(Non-covalent)

CAD.6: 3 residues within 4Å: Chain A: W.285, L.289, C.345 No protein-ligand interaction detected (PLIP) CAD.13: 2 residues within 4Å: Chain B: W.285, C.345 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 5 residues within 4Å: Chain A: C.57, C.62, G.64 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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Cyclopropyl- and methyl-containing inhibitors of neuronal nitric oxide synthase. Bioorg.Med.Chem. (2013)

Release Date

2012-05-02

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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