SMTL ID : 1rs9.1

Bovine endothelial NOS heme domain with D-phenylalanine-D-nitroarginine amide bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.22 Å

Oligo State

homo-dimer

Ligands

2 x CAC: CACODYLATE ION(Non-covalent)

CAC.1: 2 residues within 4Å: Chain A: W.258, C.318 No protein-ligand interaction detected (PLIP) CAC.7: 2 residues within 4Å: Chain B: W.258, C.318 No protein-ligand interaction detected (PLIP)

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

ACT.2: 7 residues within 4Å: Chain A: G.122, I.124, Q.125, W.292, V.354, S.362 Ligands: HEM.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.125, A:W.292 Hydrogen bonds: A:S.362, A:S.362 Water bridges: A:I.124 ACT.8: 5 residues within 4Å: Chain B: I.124, Q.125, W.292, V.354, S.362 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Q.125, B:W.292 Hydrogen bonds: B:W.292, B:S.362

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

HEM.3: 20 residues within 4Å: Chain A: W.114, A.117, R.119, C.120, V.121, S.162, M.275, F.289, S.290, G.291, W.292, M.294, E.297, V.354, W.383, F.409, Y.411 Ligands: ACT.2, H4B.4, D7P.5 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.114, A:W.114, A:W.114, A:A.117, A:V.121, A:F.289, A:F.289, A:F.289, A:F.289, A:W.292, A:E.297, A:V.354, A:F.409, A:F.409 Hydrogen bonds: A:Y.411 Water bridges: A:E.297, A:E.297 pi-Stacking: A:W.114 Metal complexes: A:C.120 HEM.10: 17 residues within 4Å: Chain B: W.114, R.119, C.120, V.121, S.162, M.275, F.289, G.291, W.292, M.294, E.297, V.354, W.383, F.409, Y.411 Ligands: H4B.11, D7P.12 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:W.114, B:W.114, B:R.119, B:V.121, B:F.289, B:F.289, B:F.289, B:F.289, B:W.292, B:E.297, B:V.354, B:F.409, B:F.409, B:F.409 pi-Stacking: B:W.114 Metal complexes: B:C.120

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

H4B.4: 12 residues within 4Å: Chain A: S.38, V.40, R.301, A.382, W.383 Chain B: W.381, F.396, H.397, Q.398, E.399 Ligands: HEM.3, GOL.6 9 PLIP interactions: 2 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:E.399 Water bridges: B:H.397, A:S.38, A:W.383 Hydrogen bonds: A:R.301, A:A.382, A:W.383 pi-Stacking: A:W.383, A:W.383 H4B.11: 12 residues within 4Å: Chain A: W.381, F.396, H.397, Q.398, E.399 Chain B: S.38, V.40, R.301, A.382, W.383 Ligands: HEM.10, GOL.13 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:E.399 Hydrogen bonds: B:R.301, B:A.382, B:W.383 pi-Stacking: B:W.383, B:W.383 pi-Cation interactions: B:W.383

2 x D7P: D-PHENYLALANYL-N~5~-[(2,2-DIHYDROXYHYDRAZINO)(IMINO)METHYL]-D-ORNITHINAMIDE(Non-covalent)

D7P.5: 15 residues within 4Å: Chain A: V.40, L.41, Q.183, R.186, P.270, V.272, F.289, S.290, G.291, W.292, E.297, Y.411 Chain B: W.10 Ligands: HEM.3, GOL.6 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:V.40, A:L.41, A:V.272, A:Y.411, B:W.10, B:W.10 Hydrogen bonds: A:S.182, A:R.186 Water bridges: A:Q.183, A:N.274 Salt bridges: A:E.297 D7P.12: 16 residues within 4Å: Chain A: W.10 Chain B: V.40, L.41, S.182, Q.183, R.186, P.270, V.272, F.289, S.290, G.291, W.292, E.297, Y.411 Ligands: HEM.10, GOL.13 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:V.40, B:L.41, B:V.272, B:Y.411, A:W.10, A:W.10 Hydrogen bonds: B:S.182, B:R.186 Water bridges: B:Q.183, B:N.274, B:R.308 Salt bridges: B:E.297

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: V.40, R.301, H.307, W.383 Chain B: W.10 Ligands: H4B.4, D7P.5 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.301, A:R.301, B:W.10 GOL.13: 6 residues within 4Å: Chain A: W.10 Chain B: V.40, R.301, H.307 Ligands: H4B.11, D7P.12 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.301, B:R.301, B:H.307 Water bridges: B:D.305, B:D.305, A:H.397

1 x ZN: ZINC ION(Non-covalent)

ZN.9: 4 residues within 4Å: Chain A: C.30, C.35 Chain B: C.30, C.35 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:C.30, A:C.35, B:C.30, B:C.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Flinspach, M. et al., Structures of the neuronal and endothelial nitric oxide synthase heme domain with D-nitroarginine-containing dipeptide inhibitors bound. Biochemistry (2004)

Release Date

2004-06-15

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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