SMTL ID : 4d3k.1

Structure of Bacillus subtilis nitric oxide synthase in complex with 6,6'-((5-(3-aminopropyl)-1,3-phenylene)bis(ethane-2,1-diyl))bis(4- methylpyridin-2-amine)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: W.60, S.63, R.65, C.66, I.67, L.75, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355, Y.357 Ligands: 12S.3 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:W.60, A:W.60, A:W.60, A:R.65, A:I.67, A:L.75, A:F.235, A:F.235, A:F.235, A:W.238, A:W.238, A:E.243, A:V.300, A:W.329, A:Y.355 Hydrogen bonds: A:W.329 Water bridges: A:R.65, A:R.247 Salt bridges: A:R.65 pi-Stacking: A:W.60 Metal complexes: A:C.66 HEM.5: 17 residues within 4Å: Chain B: W.60, S.63, R.65, C.66, I.67, M.221, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355, Y.357 Ligands: 12S.7 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:W.60, B:W.60, B:W.60, B:R.65, B:I.67, B:F.235, B:F.235, B:F.235, B:W.238, B:E.243, B:V.300, B:W.329, B:Y.355 Hydrogen bonds: B:W.329 Water bridges: B:R.247 Salt bridges: B:R.65 pi-Stacking: B:W.60 Metal complexes: B:C.66

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

CL.2: 5 residues within 4Å: Chain A: Q.129, R.132, Y.213, Y.239, N.248 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain B: Q.129, R.132, Y.213, Y.239, N.248 Ligand excluded by PLIP

2 x 12S: 6,6'-{[5-(3-aminopropyl)benzene-1,3-diyl]diethane-2,1-diyl}bis(4-methylpyridin-2-amine)(Non-covalent)

12S.3: 12 residues within 4Å: Chain A: H.128, I.218, F.235, W.238, Y.239, E.243, R.247, T.328, W.329, Y.357 Chain B: F.342 Ligands: HEM.1 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.218, A:F.235, A:W.329, B:F.342 Hydrogen bonds: A:E.243, A:R.247, A:T.328 Water bridges: A:K.360, A:K.360 pi-Cation interactions: A:R.247 12S.7: 13 residues within 4Å: Chain A: F.342, H.343 Chain B: H.128, I.218, F.235, W.238, Y.239, E.243, R.247, T.328, W.329, Y.357 Ligands: HEM.5 9 PLIP interactions: 1 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:F.342, B:I.218, B:I.218, B:F.235, B:W.329 Hydrogen bonds: B:E.243, B:R.247, B:T.328 pi-Cation interactions: B:R.247

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: W.238, S.298, I.299, Q.308 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.298, A:I.299, A:Q.308 GOL.8: 3 residues within 4Å: Chain B: W.238, S.298, I.299 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.298, B:I.299, B:I.299

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 3 residues within 4Å: Chain B: W.8, K.36, D.40 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holden, J.K. et al., Structure-Based Design of Bacterial Nitric Oxide Synthase Inhibitors. J.Med.Chem. (2015)

Release Date

2015-01-14

Peptides

NITRIC OXIDE SYNTHASE OXYGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NITRIC OXIDE SYNTHASE OXYGENASE

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