SMTL ID : 8fgv.1

Structure of rat neuronal nitric oxide synthase H692F mutant heme domain in complex with 6-(5-(2-(dimethylamino)ethyl)-2,3-difluorophenethyl)-4-methoxypyridin-2-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: XW5.2, H4B.7 17 PLIP interactions: 17 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:F.288, A:W.291, A:E.296, A:W.382, A:F.408, A:F.408, A:F.408 Hydrogen bonds: A:Y.410 Water bridges: A:R.300 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.8: 18 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, G.121, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.5, XW5.9 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, B:F.288, B:F.288, B:F.288, B:W.291, B:W.382, B:W.382, B:F.408, B:F.408 Water bridges: B:R.300 Salt bridges: B:R.118 pi-Stacking: B:W.113 Metal complexes: B:C.119

2 x XW5: 6-(2-{5-[2-(dimethylamino)ethyl]-2,3-difluorophenyl}ethyl)-4-methoxypyridin-2-amine(Non-covalent)

XW5.2: 15 residues within 4Å: Chain A: Q.182, Y.266, P.269, V.271, F.288, S.289, G.290, W.291, Y.292, M.293, E.296, R.300, D.301, R.307 Ligands: HEM.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.269, A:E.296 Hydrogen bonds: A:G.290, A:W.291, A:M.293 Water bridges: A:R.307 Salt bridges: A:D.301 Halogen bonds: A:Y.266 XW5.9: 14 residues within 4Å: Chain B: Q.182, P.269, V.271, F.288, S.289, G.290, W.291, Y.292, M.293, E.296, R.300, D.301, R.307 Ligands: HEM.8 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:P.269 Hydrogen bonds: B:G.290, B:W.291, B:M.293, B:R.307 Water bridges: B:R.300 Salt bridges: B:D.301 Halogen bonds: B:Y.292

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

ACT.3: 6 residues within 4Å: Chain A: G.121, I.123, Q.124, W.291, V.353, S.361 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.124, A:W.291 Hydrogen bonds: A:S.361 ACT.10: 5 residues within 4Å: Chain B: G.121, I.123, W.291, V.353, S.361 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.123 Hydrogen bonds: B:S.361

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: K.110, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.110, A:K.110, A:V.130, A:V.130

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

H4B.5: 11 residues within 4Å: Chain A: W.10, W.380, F.395, F.396, Q.397, E.398 Chain B: S.38, R.300, V.381, W.382 Ligands: HEM.8 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.300, 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 H4B.7: 10 residues within 4Å: Chain A: S.38, R.300, V.381, W.382 Chain B: W.380, F.395, F.396, Q.397, E.398 Ligands: HEM.1 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:V.381, A:W.382 pi-Stacking: A:W.382, A:W.382 pi-Cation interactions: A:W.382 Hydrophobic interactions: B:E.398

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 B, 2 interactions with chain A Metal complexes: B:C.30, B:C.35, A:C.30, A:C.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vasu, D. et al., Potent, Selective, and Membrane Permeable 2-Amino-4-Substituted Pyridine-Based Neuronal Nitric Oxide Synthase Inhibitors. J.Med.Chem. (2023)

Release Date

2023-10-11

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain