SMTL ID : 3nlh.1

Structure of endothelial nitric oxide synthase heme domain N368D mutant complexed with 6-{{(3'S,4'S)-3'-[2"-(3'''-fluorophenethylamino)ethoxy]pyrrolidin-4'-yl}methyl}-4-methylpyridin-2-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 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, W.411, F.437, Y.439 Ligands: H4B.2, ACT.3, JSS.5 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:W.142, A:W.142, A:A.145, A:R.147, A:F.317, A:F.317, A:F.317, A:F.317, A:W.320, A:E.325, A:F.437, A:F.437 Hydrogen bonds: A:Y.439 Salt bridges: A:R.147 pi-Stacking: A:W.142 Metal complexes: A:C.148 HEM.8: 22 residues within 4Å: Chain B: 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, Y.439 Ligands: H4B.9, ACT.10, JSS.12 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:W.142, B:W.142, B:W.142, B:A.145, B:R.147, B:L.157, B:F.317, B:F.317, B:F.317, B:W.320, B:E.325, B:V.382, B:F.437, B:F.437 Salt 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: 12 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 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.329, A:A.410, A:W.411 Water bridges: A:R.329 pi-Stacking: A:W.411, A:W.411 Hydrophobic interactions: B:E.427 H4B.9: 12 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 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.329, B:R.329, B:A.410, B:W.411 Water bridges: B:S.66, B:L.67 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: 7 residues within 4Å: Chain B: G.150, I.152, Q.153, W.320, V.382, S.390 Ligands: HEM.8 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Q.153 Hydrogen bonds: B:S.390, B:S.390

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: V.68, R.329, H.335 Chain B: W.38 Ligands: H4B.2, JSS.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.329, A:R.329 Water bridges: A:R.336 GOL.11: 7 residues within 4Å: Chain A: W.38 Chain B: V.68, R.329, H.335, W.411 Ligands: H4B.9, JSS.12 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Water bridges: A:H.425, B:D.333 Hydrogen bonds: B:R.329, B:R.329

2 x JSS: 6-{[(3S,4S)-4-(2-{[2-(3-fluorophenyl)ethyl]amino}ethoxy)pyrrolidin-3-yl]methyl}-4-methylpyridin-2-amine(Non-covalent)

JSS.5: 17 residues within 4Å: Chain A: V.68, L.69, Q.211, P.298, V.300, F.317, S.318, G.319, W.320, Y.321, M.322, E.325, W.411, Y.439 Chain B: W.38 Ligands: HEM.1, GOL.4 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.69, A:P.298, A:V.300, A:F.317, A:W.411, A:Y.439 Hydrogen bonds: A:M.322, A:E.325, A:E.325 Water bridges: A:Q.211, A:Q.211, A:E.325, A:D.330, A:D.330, A:D.330 JSS.12: 16 residues within 4Å: Chain A: W.38 Chain B: V.68, L.69, Q.211, P.298, V.300, F.317, S.318, G.319, W.320, Y.321, M.322, E.325, W.411 Ligands: HEM.8, GOL.11 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:V.68, B:P.298, B:F.317, B:W.411, A:W.38, A:W.38 Hydrogen bonds: B:M.322, B:E.325 Water bridges: B:Q.211, B:Y.321, B:Y.321, B:D.330, B:D.330, B:D.330

2 x CAD: CACODYLIC ACID(Non-covalent)

CAD.6: 3 residues within 4Å: Chain A: W.286, L.290, C.346 No protein-ligand interaction detected (PLIP) CAD.13: 3 residues within 4Å: Chain B: W.286, A.289, 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

Ji, H. et al., Exploration of the Active Site of Neuronal Nitric Oxide Synthase by the Design and Synthesis of Pyrrolidinomethyl 2-Aminopyridine Derivatives. J.Med.Chem. (2010)

Release Date

2010-11-03

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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