SMTL ID : 7us7.2 (1 other biounit)

Structure of human neuronal nitric oxide synthase R354A/G357D mutant heme domain in complex with 6-(4-(dimethylamino)but-1-yn-1-yl)-4-methylpyridin-2-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: 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.2, O5X.3 20 PLIP interactions: 20 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:W.113, A:A.116, A:R.118, A:F.288, A:F.288, A:F.288, A:W.291, 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 Salt bridges: A:R.118 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.8: 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.9, O5X.10 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, B:R.118, B:F.288, B:F.288, B:W.291, B:W.291, B:E.296, B:W.382, B:F.408, B:F.408 Water bridges: 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 12 PLIP interactions: 11 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:R.300, 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.9: 10 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.8 11 PLIP interactions: 1 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:E.398 Hydrogen bonds: B:R.300, B:V.381, B:W.382 Water bridges: B:R.300, B:R.300, B:R.300 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382, B:W.382

2 x O5X: 6-[4-(dimethylamino)but-1-yn-1-yl]-4-methylpyridin-2-amine(Non-covalent)

O5X.3: 9 residues within 4Å: Chain A: P.269, V.271, F.288, S.289, G.290, W.291, Y.292, E.296 Ligands: HEM.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.269, A:V.271, A:F.288 Hydrogen bonds: A:M.293, A:E.296 Water bridges: A:N.273 O5X.10: 9 residues within 4Å: Chain B: P.269, V.271, F.288, S.289, G.290, W.291, Y.292, E.296 Ligands: HEM.8 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.269, B:V.271, B:F.288 Hydrogen bonds: B:M.293, B:E.296 Water bridges: B:N.273

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: R.251, Y.343, S.347 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.251, A:Y.343, A:S.347, A:S.347 GOL.5: 4 residues within 4Å: Chain A: L.20, K.23, Q.68, R.373 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.68, A:R.373 Water bridges: A:K.23, A:E.64, A:Q.68, A:R.114 GOL.6: 5 residues within 4Å: Chain A: I.106, K.110, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.110, A:L.128, A:V.130, A:V.130 GOL.11: 6 residues within 4Å: Chain B: I.106, K.110, S.126, L.128, Q.129, V.130 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.110, B:L.128, B:V.130, B:V.130 Water bridges: B:S.126, B:Q.129

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

Vasu, D. et al., 2-Aminopyridines with a shortened amino sidechain as potent, selective, and highly permeable human neuronal nitric oxide synthase inhibitors. Bioorg.Med.Chem. (2022)

Release Date

2022-07-13

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Nitric oxide synthase, brain

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