SMTL ID : 6cid.1

Structure of human neuronal nitric oxide synthase R354A/G357D mutant heme domain in complex with N-(1-(Piperidin-4-yl)indolin-5-yl)thiophene-2-carboximidamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: H.45, W.113, A.116, R.118, C.119, V.120, G.121, S.161, M.274, F.288, S.289, W.291, E.296, W.382, F.408, Y.410 Ligands: H4B.2, F2J.3, GOL.4 25 PLIP interactions: 25 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:W.291, A:E.296, A:W.382, A:W.382, A:F.408, A:F.408 Hydrogen bonds: A:Y.410, A:Y.410 Water bridges: A:R.300, A:R.300, A:R.403 Salt bridges: A:H.45, A:R.118 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.6: 21 residues within 4Å: Chain B: H.45, 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, V.353, W.382, F.408, Y.410 Ligands: H4B.7, F2J.8, GOL.9 23 PLIP interactions: 23 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: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 Salt bridges: B:H.45, 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 14 PLIP interactions: 2 interactions with chain B, 12 interactions with chain A Hydrophobic interactions: B:E.398 Water bridges: B:H.396, A:S.38, A:R.300, A:R.300, A:R.300, A:W.382 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, A:W.382 H4B.7: 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.6 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.300, B:V.381, B:W.382 Water bridges: B:S.38, B:R.300, B:R.300, B:R.300, B:W.382, A:H.396 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382, B:W.382 Hydrophobic interactions: A:E.398

2 x F2J: N-[1-(piperidin-4-yl)-1H-indol-5-yl]thiophene-2-carboximidamide(Non-covalent)

F2J.3: 10 residues within 4Å: Chain A: Q.182, P.269, V.271, F.288, S.289, G.290, W.291, E.296, Y.410 Ligands: HEM.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:P.269, A:V.271, A:V.271, A:F.288, A:Y.410 Hydrogen bonds: A:W.291, A:E.296 F2J.8: 11 residues within 4Å: Chain B: Q.182, P.269, V.271, M.274, F.288, S.289, G.290, W.291, E.296, Y.410 Ligands: HEM.6 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:P.269, B:V.271, B:V.271, B:F.288, B:Y.410 Hydrogen bonds: B:W.291, B:E.296 Water bridges: B:Y.410

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain A: V.120, G.121, I.123, W.291, V.353, A.358, S.361, F.362 Ligands: HEM.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.291, A:A.358, A:S.361 Water bridges: A:Q.124 GOL.9: 8 residues within 4Å: Chain B: V.120, G.121, I.123, W.291, V.353, A.358, S.361 Ligands: HEM.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:W.291, B:A.358, B:S.361 Water bridges: B:Q.124

1 x ZN: ZINC ION(Non-covalent)

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

Li, H. et al., Structural Basis for Isoform Selective Nitric Oxide Synthase Inhibition by Thiophene-2-carboximidamides. Biochemistry (2018)

Release Date

2018-10-31

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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