SMTL ID : 4d3o.1

Structure of Bacillus subtilis Nitric Oxide Synthase in complex with 6-(3-(2-(1H-Pyrrolo(2,3-b)pyridin-6-yl)ethyl)-5-(aminomethyl) phenethyl)-4-methylpyridin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: W.60, S.63, R.65, C.66, I.67, G.68, L.75, P.108, M.221, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355, Y.357 Ligands: S97.3 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:W.60, A:W.60, A:W.60, A:R.65, A:I.67, A:P.108, A:F.235, 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, A:Y.355 Water bridges: A:R.65, A:R.247, A:R.247 Salt bridges: A:R.65 pi-Stacking: A:W.60 Metal complexes: A:C.66 HEM.7: 20 residues within 4Å: Chain B: W.60, S.63, R.65, C.66, I.67, G.68, L.75, P.108, M.221, F.235, N.236, G.237, W.238, M.240, E.243, V.300, W.329, Y.355, Y.357 Ligands: S97.9 23 PLIP interactions: 23 interactions with chain B, Hydrophobic interactions: B:W.60, B:W.60, B:W.60, B:R.65, B:I.67, B:P.108, B:F.235, B:F.235, B:F.235, B:F.235, B:W.238, B:W.238, B:E.243, B:V.300, B:W.329, B:Y.355, B:Y.355 Water bridges: B:R.65, B:R.247, 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, Y.213, Y.239, N.248 Ligands: POL.4 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain B: Q.129, Y.213, Y.239, N.248 Ligands: POL.10 Ligand excluded by PLIP

2 x S97: 6-(2-{3-(aminomethyl)-5-[2-(1H-pyrrolo[2,3-b]pyridin-6-yl)ethyl]phenyl}ethyl)-4-methylpyridin-2-amine(Non-covalent)

S97.3: 16 residues within 4Å: Chain A: H.128, P.216, I.218, F.235, G.237, W.238, Y.239, E.243, R.247, T.328, W.329, Y.357 Chain B: W.327, F.342 Ligands: HEM.1, POL.4 10 PLIP interactions: 1 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:F.342, A:I.218, A:I.218, A:F.235, A:W.329 Hydrogen bonds: A:M.240, A:E.243, A:R.247, A:Y.357 pi-Cation interactions: A:R.247 S97.9: 16 residues within 4Å: Chain A: W.327, F.342 Chain B: H.128, P.216, I.218, F.235, G.237, W.238, Y.239, E.243, R.247, T.328, W.329, Y.357 Ligands: HEM.7, POL.10 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.218, B:I.218, B:F.235, B:W.329, A:F.342 Hydrogen bonds: B:M.240, B:E.243, B:R.247, B:T.328, B:Y.357 pi-Cation interactions: B:R.247

2 x POL: N-PROPANOL(Non-covalent)

POL.4: 5 residues within 4Å: Chain A: E.243, R.247, N.248 Ligands: CL.2, S97.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.243, A:R.247 Hydrogen bonds: A:E.243 Water bridges: A:R.254 POL.10: 5 residues within 4Å: Chain B: E.243, R.247, N.248 Ligands: CL.8, S97.9 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:E.243, B:R.247 Hydrogen bonds: B:E.243 Water bridges: B:R.254

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: W.238, S.298, I.299, V.300 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.298, A:I.299 GOL.6: 7 residues within 4Å: Chain A: R.142, G.144, P.146, D.166, R.254, Y.255, K.257 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.142, A:G.144, A:K.257, A:K.257 Water bridges: A:D.166, A:R.254 GOL.11: 4 residues within 4Å: Chain B: W.238, S.298, I.299, V.300 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.298, B:I.299 GOL.12: 7 residues within 4Å: Chain B: R.142, G.144, P.146, D.166, R.254, Y.255, K.257 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.142, B:G.144, B:K.257, B:K.257 Water bridges: B:D.166, B:R.254

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
A

NITRIC OXIDE SYNTHASE OXYGENASE

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