SMTL ID : 4ug7.1

Structure of Bacillus subtilis Nitric Oxide Synthase in complex with 3,5-bis(2-(6-amino-4-methylpyridin-2-yl)ethyl)benzonitrile

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: W.60, S.63, R.65, C.66, I.67, L.75, M.221, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355 Ligands: H4B.2, 1EV.4 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.60, A:W.60, A:W.60, A:I.67, A:L.75, A:F.235, A:F.235, A:F.235, A:W.238, A:E.243, A:V.300, A:Y.355, A:Y.355 Hydrogen bonds: A:R.65 Water bridges: A:R.247, A:R.247, A:R.247 pi-Stacking: A:W.60 Metal complexes: A:C.66 HEM.8: 18 residues within 4Å: Chain B: W.60, S.63, R.65, C.66, I.67, L.75, M.221, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355 Ligands: H4B.9, 1EV.11 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:W.60, B:W.60, B:W.60, B:I.67, B:L.75, B:F.235, B:F.235, B:F.235, B:W.238, B:E.243, B:V.300, B:Y.355, B:Y.355 Hydrogen bonds: B:R.65 Water bridges: B:R.247, B:R.247, B:R.247 pi-Stacking: B:W.60 Metal complexes: B:C.66

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

H4B.2: 8 residues within 4Å: Chain A: R.247, T.328, W.329 Chain B: W.327, F.342, H.343, R.344 Ligands: HEM.1 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.247, A:T.328, A:W.329, B:F.342 pi-Stacking: A:W.329, A:W.329 pi-Cation interactions: A:W.329, A:W.329 H4B.9: 8 residues within 4Å: Chain A: W.327, F.342, H.343, R.344 Chain B: R.247, T.328, W.329 Ligands: HEM.8 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.247, B:T.328, B:W.329, A:F.342 pi-Stacking: B:W.329, B:W.329 pi-Cation interactions: B:W.329, B:W.329

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

CL.3: 5 residues within 4Å: Chain A: Q.129, Y.213, Y.239, N.248 Ligands: 1EV.4 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain B: Q.129, Y.213, Y.239, N.248 Ligands: 1EV.11 Ligand excluded by PLIP

2 x 1EV: 3,5-bis[2-(6-amino-4-methylpyridin-2-yl)ethyl]benzonitrile(Non-covalent)

1EV.4: 17 residues within 4Å: Chain A: R.65, H.128, Q.129, R.132, P.216, I.218, F.235, G.237, W.238, Y.239, E.243, N.248, R.254, W.329, Y.357 Ligands: HEM.1, CL.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.218, A:I.218, A:F.235, A:W.329, A:Y.357 Hydrogen bonds: A:R.65, A:R.132, A:M.240, A:E.243, A:R.254, A:R.254 Water bridges: A:Q.129 pi-Stacking: A:H.128, A:Y.357 1EV.11: 17 residues within 4Å: Chain B: R.65, H.128, Q.129, R.132, P.216, I.218, F.235, G.237, W.238, Y.239, E.243, N.248, R.254, W.329, Y.357 Ligands: HEM.8, CL.10 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:I.218, B:I.218, B:F.235, B:W.329, B:Y.357 Hydrogen bonds: B:R.65, B:R.132, B:M.240, B:E.243, B:R.254, B:R.254 Water bridges: B:Q.129 pi-Stacking: B:H.128, B:Y.357

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: W.238, S.298, I.299, V.300 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.238, A:S.298, A:I.299 GOL.6: 3 residues within 4Å: Chain A: D.270, Y.271, N.272 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.272, A:N.272 Water bridges: A:T.273 GOL.7: 6 residues within 4Å: Chain A: R.142, G.144, D.166, R.254, Y.255, K.257 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.166, A:D.166, A:R.254, A:K.257 Water bridges: A:R.142, A:D.166 GOL.12: 4 residues within 4Å: Chain B: W.238, S.298, I.299, V.300 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.238, B:S.298, B:I.299 GOL.13: 3 residues within 4Å: Chain B: D.270, Y.271, N.272 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.272, B:N.272 Water bridges: B:T.273 GOL.14: 6 residues within 4Å: Chain B: R.142, G.144, D.166, R.254, Y.255, K.257 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.166, B:D.166, B:R.254, B:K.257 Water bridges: B:R.142, B:D.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holden, J.K. et al., Inhibitor Bound Crystal Structures of Bacterial Nitric Oxide Synthase. Biochemistry (2015)

Release Date

2015-06-24

Peptides

NITRIC OXIDE SYNTHASE OXYGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NITRIC OXIDE SYNTHASE OXYGENASE

Related Entries With Identical Sequence