SMTL ID : 3n6e.1

Structure of endothelial nitric oxide synthase N368D mutant heme domain complexed with 6,6'-(2,2'-(5-amino-1,3-phenylene)bis(ethane-2,1-diyl))bis(4-methylpyridin-2-amine)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 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: XFN.4, H4B.6 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:E.325, A:F.437, A:F.437, A:F.437 Hydrogen bonds: A:Y.439 Water bridges: A:E.325 Salt bridges: A:R.147 pi-Stacking: A:W.142 Metal complexes: A:C.148 HEM.7: 20 residues within 4Å: Chain B: W.142, A.145, R.147, C.148, V.149, G.150, 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.11, XFN.12 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:W.142, B:W.142, B:W.142, B:A.145, B:R.147, B:F.317, B:F.317, B:F.317, B:W.320, B:E.325, B:V.382, B:W.411, B:F.437, B:F.437, B:F.437 Water bridges: B:R.329 pi-Stacking: B:W.142 Metal complexes: B:C.148

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

ACT.2: 4 residues within 4Å: Chain A: G.150, W.320, V.382, S.390 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.320, A:S.390 Water bridges: A:Q.153 ACT.8: 6 residues within 4Å: Chain B: G.150, I.152, Q.153, W.320, V.382, S.390 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.152, B:Q.153 Hydrogen bonds: B:S.390, B:S.390

2 x GOL: GLYCEROL(Non-functional Binders)

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

2 x XFN: 6,6'-[(5-aminobenzene-1,3-diyl)diethane-2,1-diyl]bis(4-methylpyridin-2-amine)(Non-covalent)

XFN.4: 15 residues within 4Å: Chain A: S.210, Q.211, P.298, V.300, N.302, F.317, G.319, W.320, Y.321, M.322, E.325, W.411, Y.439 Chain B: W.38 Ligands: HEM.1 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Q.211, A:P.298, A:F.317, A:W.411, B:W.38 Hydrogen bonds: A:S.210, A:N.302, A:M.322, A:E.325 XFN.12: 15 residues within 4Å: Chain B: V.68, L.69, S.210, Q.211, P.298, V.300, N.302, F.317, G.319, W.320, Y.321, M.322, E.325, Y.439 Ligands: HEM.7 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:P.298, B:F.317 Hydrogen bonds: B:S.210, B:N.302, B:M.322, B:E.325, B:Y.439

2 x CAD: CACODYLIC ACID(Non-covalent)

CAD.5: 2 residues within 4Å: Chain A: W.286, C.346 No protein-ligand interaction detected (PLIP) CAD.10: 1 residues within 4Å: Chain B: C.346 No protein-ligand interaction detected (PLIP)

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

H4B.6: 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.3 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:W.411 pi-Stacking: A:W.411, A:W.411 pi-Cation interactions: A:W.411 Hydrophobic interactions: B:E.427 H4B.11: 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.7, GOL.9 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.329, B:A.410, B:W.411 pi-Stacking: B:W.411, B:W.411 pi-Cation interactions: B:W.411 Hydrophobic interactions: A:E.427

1 x ZN: ZINC ION(Non-covalent)

ZN.13: 5 residues within 4Å: Chain A: C.58, C.63 Chain B: C.58, C.63, G.65 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., Role of zinc in isoform-selective inhibitor binding to neuronal nitric oxide synthase . Biochemistry (2010)

Release Date

2011-02-09

Peptides

Nitric oxide synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase

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