SMTL ID : 6xmc.1

Nitric Oxide Synthase from Bacillus subtilis in complex with 7-((3-(2-(6-aminopyridin-2-yl)ethyl)phenoxy)methyl)quinolin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 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, Y.357 Ligands: V5G.2 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:W.60, A:W.60, A:R.65, A:I.67, A:L.75, A:F.235, A:F.235, A:W.238, A:E.243, A:V.300, A:Y.355, A:Y.355 Salt bridges: A:R.65 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, Y.357 Ligands: V5G.9 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:W.60, B:W.60, B:R.65, B:I.67, B:L.75, B:F.235, B:F.235, B:W.238, B:E.243, B:V.300, B:Y.355, B:Y.355 Salt bridges: B:R.65 pi-Stacking: B:W.60 Metal complexes: B:C.66

2 x V5G: 7-({3-[2-(6-aminopyridin-2-yl)ethyl]phenoxy}methyl)quinolin-2-amine(Non-covalent)

V5G.2: 13 residues within 4Å: Chain A: I.218, F.235, W.238, Y.239, E.243, R.247, T.328, W.329 Chain B: W.327, F.342, H.343 Ligands: HEM.1, POL.14 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:I.218, A:F.235, A:W.329, A:W.329, A:W.329, B:W.327, B:F.342, B:F.342 Hydrogen bonds: A:M.240, A:E.243, A:R.247, B:F.342 V5G.9: 13 residues within 4Å: Chain A: W.327, F.342, H.343 Chain B: I.218, F.235, W.238, Y.239, E.243, R.247, T.328, W.329 Ligands: POL.7, HEM.8 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:I.218, B:F.235, B:W.329, B:W.329, B:W.329, A:W.327, A:F.342, A:F.342 Hydrogen bonds: B:M.240, B:E.243, B:R.247, A:F.342

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

CL.3: 3 residues within 4Å: Chain A: Q.129, Y.239, N.248 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: Q.129, Y.239, N.248 Ligand excluded by PLIP

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 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.5: 7 residues within 4Å: Chain A: R.142, I.143, G.144, D.166, R.254, Y.255, K.257 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.142, A:G.144, A:Y.255, A:K.257 Water bridges: A:D.166 GOL.6: 3 residues within 4Å: Chain A: Y.355, F.356, Y.357 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.357 Water bridges: A:R.65, A:R.65, A:N.348 GOL.11: 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.12: 7 residues within 4Å: Chain B: R.142, I.143, G.144, D.166, R.254, Y.255, K.257 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.142, B:G.144, B:Y.255, B:K.257 Water bridges: B:D.166 GOL.13: 3 residues within 4Å: Chain B: Y.355, F.356, Y.357 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.357 Water bridges: B:R.65, B:R.65, B:N.348

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

POL.7: 3 residues within 4Å: Chain A: H.343 Chain B: R.247 Ligands: V5G.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.343 POL.14: 3 residues within 4Å: Chain A: R.247 Chain B: H.343 Ligands: V5G.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.343

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis, M.C. et al., Selective Anti-MRSA inhibitors targeting Nitric Oxide Synthase. To Be Published

Release Date

2021-07-07

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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