SMTL ID : 8ufu.2 (1 other biounit)

Structure of human endothelial nitric oxide synthase heme domain in complex with 7-(9-amino-6,7,8,9-tetrahydro-5H-benzo[7]annulen-2-yl)-4-methylquinolin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: W.138, A.141, R.143, C.144, V.145, G.146, F.313, S.314, G.315, W.316, M.318, E.321, R.325, W.407, F.433, Y.435 Ligands: WRI.2 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:W.138, A:W.138, A:W.138, A:A.141, A:F.313, A:F.313, A:F.313, A:W.316, A:W.316, A:F.433, A:F.433, A:F.433 Salt bridges: A:R.143, A:R.325 pi-Stacking: A:W.138 Metal complexes: A:C.144 HEM.13: 17 residues within 4Å: Chain B: W.138, A.141, R.143, C.144, V.145, S.186, F.313, S.314, G.315, W.316, M.318, E.321, R.325, W.407, F.433, Y.435 Ligands: WRI.14 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:W.138, B:W.138, B:W.138, B:A.141, B:R.143, B:V.145, B:F.313, B:F.313, B:F.313, B:W.316, B:F.433, B:F.433, B:F.433 Hydrogen bonds: B:Y.435 Salt bridges: B:R.143, B:R.325 pi-Stacking: B:W.138 Metal complexes: B:C.144

4 x WRI: (7M)-7-[(9S)-9-amino-6,7,8,9-tetrahydro-5H-benzo[7]annulen-2-yl]-4-methylquinolin-2-amine(Non-covalent)

WRI.2: 10 residues within 4Å: Chain A: P.294, V.296, F.313, W.316, Y.317, E.321, R.325, W.407 Ligands: HEM.1, WRI.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.296, A:F.313 Hydrogen bonds: A:M.318, A:E.321 WRI.3: 11 residues within 4Å: Chain A: S.62, V.64, F.65, A.226, H.331, A.406, W.407 Chain B: W.34, W.405, F.420 Ligands: WRI.2 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:V.64, A:A.226, B:W.34, B:W.34 Hydrogen bonds: A:A.406 pi-Stacking: B:H.421 WRI.10: 10 residues within 4Å: Chain A: W.34, W.405, F.420, H.421 Chain B: S.62, V.64, H.331, A.406, W.407 Ligands: WRI.14 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.34, A:W.34, A:W.34, A:W.405, B:V.64, B:W.407 pi-Stacking: A:H.421 Hydrogen bonds: B:A.406 WRI.14: 10 residues within 4Å: Chain B: V.296, F.313, W.316, Y.317, M.318, E.321, R.325, W.407 Ligands: WRI.10, HEM.13 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:V.296, B:F.313, B:W.407 Hydrogen bonds: B:M.318, B:E.321

4 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.4: 2 residues within 4Å: Chain A: E.337, T.347 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.337 BTB.5: 2 residues within 4Å: Chain A: D.257, E.258 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.257, A:E.258 Salt bridges: A:E.258 BTB.15: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: GD.19 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.281 Salt bridges: B:E.281 BTB.16: 3 residues within 4Å: Chain B: D.257, E.258, P.259 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.258

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 1 residues within 4Å: Chain A: E.127 No protein-ligand interaction detected (PLIP) GOL.17: 2 residues within 4Å: Chain B: E.337, D.338 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.337

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 4 residues within 4Å: Chain A: Q.207, Y.317, R.325, N.326 Ligand excluded by PLIP CL.18: 5 residues within 4Å: Chain B: Q.207, R.210, Y.317, R.325, N.326 Ligand excluded by PLIP

3 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain A: C.54, C.59 Chain B: C.54, C.59 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:C.54, A:C.59, B:C.54, B:C.59 ZN.9: 3 residues within 4Å: Chain A: R.325, D.329 Chain B: H.421 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:D.329, A:D.329, B:H.421, H2O.3, H2O.3 ZN.11: 3 residues within 4Å: Chain A: H.421 Chain B: R.325, D.329 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.329, B:D.329, A:H.421, H2O.7, H2O.8

1 x CA: CALCIUM ION(Non-covalent)

CA.12: 1 residues within 4Å: Chain A: D.344 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.344, H2O.3, H2O.3

1 x GD: GADOLINIUM ATOM(Non-covalent)

GD.19: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: BTB.15 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.279, B:E.281, B:E.281, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Crystallographic and Computational Insights into Isoform-Selective Dynamics in Nitric Oxide Synthase. Biochemistry (2024)

Release Date

2024-03-13

Peptides

Nitric oxide synthase, endothelial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Nitric oxide synthase, endothelial

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