SMTL ID : 5uo4.1

Structure of human neuronal nitric oxide synthase heme domain in complex with 3-[(2-amino-4-methylquinolin-7-yl)methoxy]-5-(2-(methylamino)ethyl)benzonitrile

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.2, 8F1.3 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:W.113, A:A.116, A:R.118, A:V.120, A:F.288, A:F.288, A:F.288, A:W.291, A:E.296, A:W.382, A:W.382, A:F.408, A:F.408 Hydrogen bonds: A:Y.410 Water bridges: A:R.300, A:R.300 Salt bridges: A:R.118 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.8: 20 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, L.128, S.161, M.274, F.288, S.289, G.290, W.291, M.293, E.296, V.353, W.382, F.408, Y.410 Ligands: H4B.9, 8F1.10 25 PLIP interactions: 25 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, B:R.118, B:V.120, B:L.128, B:F.288, B:F.288, B:F.288, B:W.291, B:E.296, B:V.353, B:W.382, B:W.382, B:F.408, B:F.408, B:F.408 Hydrogen bonds: B:Y.410 Water bridges: B:R.300, B:R.300, B:R.300 Salt bridges: B:R.118 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 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:R.300, A:V.381, A:W.382 Water bridges: A:S.38, A:W.382 pi-Stacking: A:W.382, A:W.382 pi-Cation interactions: A:W.382, A:W.382 Hydrophobic interactions: B:E.398 H4B.9: 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.8 11 PLIP interactions: 10 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, B:W.382 Hydrophobic interactions: A:E.398

2 x 8F1: 3-[(2-amino-4-methylquinolin-7-yl)methoxy]-5-[2-(methylamino)ethyl]benzonitrile(Non-covalent)

8F1.3: 13 residues within 4Å: Chain A: P.269, V.271, N.273, M.274, F.288, S.289, G.290, W.291, Y.292, E.296, W.382, Y.410 Ligands: HEM.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.269, A:V.271, A:F.288, A:F.288, A:Y.410 Hydrogen bonds: A:N.273, A:E.296 Water bridges: A:R.300 8F1.10: 12 residues within 4Å: Chain B: P.269, V.271, N.273, M.274, F.288, G.290, W.291, Y.292, E.296, W.382, Y.410 Ligands: HEM.8 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.271, B:F.288, B:F.288, B:W.382, B:Y.410 Hydrogen bonds: B:M.293, B:E.296

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: P.2, R.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.3 GOL.5: 2 residues within 4Å: Chain A: Q.68, R.373 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.68, A:R.373 Water bridges: A:Q.68, A:Q.68, A:R.114, A:R.114 GOL.6: 4 residues within 4Å: Chain A: N.416, T.417, H.418, V.419 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.416 GOL.11: 2 residues within 4Å: Chain B: Q.68, R.373 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.373 Water bridges: B:K.23, B:E.64, B:Q.68, B:Y.107 GOL.12: 6 residues within 4Å: Chain A: Q.346, D.354, S.357 Chain B: K.324, T.325, S.326 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:T.325, B:T.325, B:S.326, B:S.326, A:Q.346, A:S.357 Water bridges: A:D.354

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 5 residues within 4Å: Chain A: C.30, C.35 Chain B: C.30, C.35, M.36 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

Cinelli, M.A. et al., Nitrile in the Hole: Discovery of a Small Auxiliary Pocket in Neuronal Nitric Oxide Synthase Leading to the Development of Potent and Selective 2-Aminoquinoline Inhibitors. J. Med. Chem. (2017)

Release Date

2017-05-03

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain

Related Entries With Identical Sequence