SMTL ID : 3jx0.1

Structure of rat neuronal nitric oxide synthase D597N mutant heme domain in complex with N1-{(3'S,4'S)-4'-[(6"-amino-4"-methylpyridin-2"-yl)methyl]pyrrolidin-3'-yl}-N2-(3'-fluorophenethyl)ethane-1,2-diamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, L.128, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.2, JI4.3, ACT.4 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:A.116, A:F.288, A:F.288, A:F.288, A:W.291, A:E.296, A:W.382, A:F.408, A:F.408 Hydrogen bonds: A:Y.410 Water bridges: A:R.300, A:R.300 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.7: 19 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, G.121, S.161, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.8, JI4.9 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:A.116, B:R.118, B:V.120, B:F.288, B:F.288, B:W.291, B:E.296, B:F.408, B:F.408 Hydrogen bonds: B:R.118 Water bridges: B:R.300 pi-Stacking: B:W.113 Metal complexes: B:C.119

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

H4B.2: 11 residues within 4Å: Chain A: S.38, M.40, R.300, V.381, W.382 Chain B: W.380, F.395, H.396, Q.397, E.398 Ligands: HEM.1 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:V.381, A:W.382 Water bridges: A:S.38, A:R.300, A:W.382 pi-Stacking: A:W.382, A:W.382 pi-Cation interactions: A:W.382 Hydrophobic interactions: B:E.398 H4B.8: 11 residues within 4Å: Chain A: W.380, F.395, H.396, Q.397, E.398 Chain B: S.38, M.40, R.300, V.381, W.382 Ligands: HEM.7 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.300, B:R.300, B:V.381, B:W.382 Water bridges: B:S.38, B:W.382 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382 Hydrophobic interactions: A:E.398

2 x JI4: N-{(3S,4S)-4-[(6-amino-4-methylpyridin-2-yl)methyl]pyrrolidin-3-yl}-N'-[2-(3-fluorophenyl)ethyl]ethane-1,2-diamine(Non-covalent)

JI4.3: 16 residues within 4Å: Chain A: M.40, L.41, Q.182, P.269, V.271, F.288, G.290, W.291, Y.292, M.293, E.296, W.382, Y.410 Chain B: W.10 Ligands: HEM.1, GOL.5 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.269, A:V.271, A:F.288, A:W.382, B:W.10, B:W.10 Hydrogen bonds: A:Q.182, A:M.293, A:E.296, A:E.296 Water bridges: A:Q.182, A:N.301 JI4.9: 16 residues within 4Å: Chain A: W.10 Chain B: M.40, L.41, Q.182, P.269, V.271, F.288, S.289, G.290, W.291, Y.292, E.296, W.382, Y.410 Ligands: HEM.7, GOL.11 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.269, B:F.288, B:W.382 Hydrogen bonds: B:E.296, B:E.296 Water bridges: B:Q.182, B:Q.182 pi-Stacking: A:W.10

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

ACT.4: 5 residues within 4Å: Chain A: G.121, W.291, V.353, S.361 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.361, A:S.361 ACT.10: 4 residues within 4Å: Chain B: G.121, W.291, V.353, S.361 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.361, B:S.361 Water bridges: B:Q.124

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: S.181, R.185, N.273 Ligands: JI4.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.185, A:N.273 Water bridges: A:Q.411 GOL.11: 5 residues within 4Å: Chain B: L.41, Y.410, Q.411, D.413 Ligands: JI4.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.411 Water bridges: B:N.273

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 5 residues within 4Å: Chain A: C.30, C.35, M.36 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

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, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain

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