SMTL ID : 8ufs.1 (1 other biounit)

Structure of human endothelial nitric oxide synthase E361Q mutant heme domain obtain after soaking crystal with 4-methyl-7-(4-methyl-2,3,4,5-tetrahydrobenzo[f][1,4]oxazepin-7-yl)quinolin-2-amine dihydrochloride

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: W.138, A.141, R.143, C.144, V.145, G.146, S.186, M.299, F.313, S.314, G.315, W.316, M.318, Q.321, V.378, W.407, F.433, Y.435 Ligands: H4B.2 19 PLIP interactions: 19 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:F.313, A:W.316, A:Q.321, A:V.378, A:W.407, A:W.407, A:F.433, A:F.433, A:F.433 Hydrogen bonds: A:Y.435 pi-Stacking: A:W.138 Metal complexes: A:C.144 HEM.11: 21 residues within 4Å: Chain B: W.138, A.141, R.143, C.144, V.145, G.146, L.153, S.186, M.299, F.313, S.314, G.315, W.316, M.318, Q.321, V.378, W.407, F.433, Y.435 Ligands: H4B.12, GOL.16 21 PLIP interactions: 21 interactions with chain B, Hydrophobic interactions: B:W.138, B:W.138, B:W.138, B:A.141, B:L.153, B:F.313, B:F.313, B:F.313, B:F.313, B:W.316, B:W.316, B:Q.321, B:V.378, B:W.407, B:F.433, B:F.433, B:F.433 Water bridges: B:Q.321, B:Q.321 pi-Stacking: B:W.138 Metal complexes: B:C.144

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

H4B.2: 10 residues within 4Å: Chain A: S.62, R.325, A.406, W.407 Chain B: W.405, F.420, H.421, Q.422, E.423 Ligands: HEM.1 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:E.423 Water bridges: B:H.421 Hydrogen bonds: A:R.325, A:R.325, A:A.406, A:W.407 pi-Stacking: A:W.407, A:W.407 pi-Cation interactions: A:W.407, A:W.407 H4B.12: 12 residues within 4Å: Chain A: W.405, F.420, H.421, Q.422, E.423 Chain B: S.62, V.64, R.325, A.406, W.407 Ligands: HEM.11, GOL.15 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.325, B:A.406, B:W.407 Water bridges: B:S.62, B:R.325, B:W.407 pi-Stacking: B:W.407, B:W.407 pi-Cation interactions: B:W.407 Hydrophobic interactions: A:E.423

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

BTB.3: 5 residues within 4Å: Chain A: W.282, V.341, C.342, D.344 Ligands: GD.9 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.344 BTB.4: 3 residues within 4Å: Chain A: E.337, T.347, R.348 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.337, A:T.347 Salt bridges: A:E.337 BTB.5: 2 residues within 4Å: Chain A: D.257, E.258 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.258 BTB.13: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: GD.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.281, B:E.281 Salt bridges: B:E.281 BTB.14: 2 residues within 4Å: Chain B: D.257, E.258 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.258 BTB.19: 6 residues within 4Å: Chain B: W.282, A.285, L.286, D.338, C.342 Ligands: GD.21 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.282 BTB.20: 1 residues within 4Å: Chain B: D.344 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.344

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 1 residues within 4Å: Chain A: E.127 No protein-ligand interaction detected (PLIP) GOL.7: 1 residues within 4Å: Chain A: Q.217 No protein-ligand interaction detected (PLIP) GOL.15: 5 residues within 4Å: Chain B: V.64, R.325, H.331, W.407 Ligands: H4B.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.325, B:H.331 Water bridges: B:D.329 GOL.16: 6 residues within 4Å: Chain B: P.294, S.314, G.315, W.316, Q.321 Ligands: HEM.11 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:P.294, B:G.315, B:W.316, B:Q.321

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

CL.8: 4 residues within 4Å: Chain A: Q.207, Y.291, Y.317, N.326 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain B: Q.207, Y.317, N.326 Ligand excluded by PLIP

3 x GD: GADOLINIUM ATOM(Non-functional Binders)(Non-covalent)

GD.9: 1 residues within 4Å: Ligands: BTB.3 No protein-ligand interaction detected (PLIP) GD.18: 3 residues within 4Å: Chain B: T.279, E.281 Ligands: BTB.13 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.279, B:E.281, H2O.10 GD.21: 1 residues within 4Å: Ligands: BTB.19 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.10: 4 residues within 4Å: Chain A: C.54, C.59 Chain B: C.54, C.59 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.54, B:C.59, A:C.54, A:C.59

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 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase 3

Related Entries With Identical Sequence