SMTL ID : 3svq.1

Structure of rat neuronal nitric oxide synthase heme domain in complex with 6-(((3R,4R)-4-(2-((2,2-Difluoro-2-(2,3-difluorophenyl)ethyl)amino)ethoxy)pyrrolidin-3-yl)methyl)-4-methylpyridin-2-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-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, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408 Ligands: H4B.2, JK4.3, ACT.4 13 PLIP interactions: 13 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:W.382, A:F.408, A:F.408 Hydrogen bonds: A:R.118 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.6: 16 residues within 4Å: Chain B: W.113, R.118, C.119, V.120, G.121, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408 Ligands: H4B.7, JK4.8 14 PLIP interactions: 14 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:F.288, B:F.288, B:F.288, B:W.291, B:W.291, B:E.296, B:F.408, B:F.408 Hydrogen bonds: B:R.118 Water bridges: B:E.296 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, R.300, V.381, W.382 Chain B: W.380, F.395, H.396, Q.397, E.398 Ligands: HEM.1, JK4.3 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:V.381, A:W.382 Water bridges: A:G.37, A:S.38, A:R.300 pi-Stacking: A:W.382, A:W.382 Hydrophobic interactions: B:E.398 H4B.7: 11 residues within 4Å: Chain A: W.380, F.395, H.396, Q.397, E.398 Chain B: S.38, R.300, V.381, W.382 Ligands: HEM.6, JK4.8 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.300, B:V.381, B:W.382 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382 Hydrophobic interactions: A:E.398

2 x JK4: 6-{[(3R,4R)-4-(2-{[2-(2,3-difluorophenyl)-2,2-difluoroethyl]amino}ethoxy)pyrrolidin-3-yl]methyl}-4-methylpyridin-2-amine(Non-covalent)

JK4.3: 16 residues within 4Å: Chain A: M.40, L.41, R.118, Q.182, P.269, V.271, F.288, S.289, G.290, W.291, E.296, W.382, Y.410 Chain B: W.10 Ligands: HEM.1, H4B.2 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.41, A:P.269, A:Y.410, A:Y.410, B:W.10 Hydrogen bonds: A:R.118, A:E.296 Water bridges: A:Q.182, A:Y.266, A:E.296, A:R.300 JK4.8: 15 residues within 4Å: Chain A: W.10 Chain B: M.40, R.118, Q.182, P.269, V.271, F.288, S.289, G.290, W.291, E.296, W.382, Y.410 Ligands: HEM.6, H4B.7 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:W.10, B:P.269, B:Y.410, B:Y.410 Hydrogen bonds: B:R.118 Water bridges: B:E.296

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 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.291 Hydrogen bonds: A:W.291, A:S.361 ACT.9: 4 residues within 4Å: Chain B: G.121, W.291, V.353, S.361 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.361, B:S.361

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 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

Xue, F. et al., Improved Synthesis of Chiral Pyrrolidine Inhibitors and Their Binding Properties to Neuronal Nitric Oxide Synthase. J.Med.Chem. (2011)

Release Date

2011-09-28

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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