SMTL ID : 7s3y.1

Structure ofrat neuronal nitric oxide synthase heme domain in complex with 7-((3-(2-(6-aminopyridin-2-yl)ethyl)phenoxy)methyl)quinolin-2-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 21 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, L.128, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.2, V5G.3, ACT.4, GOL.5 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:A.116, A:R.118, A:V.120, A:L.128, A:F.288, A:F.288, A:W.291, A:E.296, A:F.408, A:F.408, A:F.408 Hydrogen bonds: A:Y.410 Water bridges: A:R.300, A:R.300 Salt bridges: A:R.118 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.7: 22 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, G.121, L.128, S.161, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.8, V5G.9, ACT.10, GOL.11 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, B:R.118, B:V.120, B:L.128, B:F.288, B:F.288, B:F.288, B:W.291, B:E.296, B:W.382, B:F.408, B:F.408 Water bridges: B:R.300, B:R.300 Salt bridges: B:R.118 pi-Stacking: B:W.113 Metal complexes: B:C.119

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

H4B.2: 11 residues within 4Å: Chain A: S.38, M.40, R.300, V.381, W.382 Chain B: W.380, F.395, H.396, Q.397, E.398 Ligands: HEM.1 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:V.381, A:W.382 pi-Stacking: A:W.382, A:W.382 Hydrophobic interactions: B:E.398 H4B.8: 10 residues within 4Å: Chain A: W.380, F.395, H.396, Q.397, E.398 Chain B: S.38, R.300, V.381, W.382 Ligands: HEM.7 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:E.398 Hydrogen bonds: B:R.300, B:V.381, B:W.382 Water bridges: B:S.38, B:W.382 pi-Stacking: B:W.382, B:W.382

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

V5G.3: 14 residues within 4Å: Chain A: P.269, V.271, N.273, M.274, F.288, W.291, Y.292, M.293, E.296, Y.410, Q.411, D.413 Ligands: HEM.1, GOL.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.269, A:V.271, A:F.288, A:Y.410 Hydrogen bonds: A:M.293, A:E.296, A:Q.411 Water bridges: A:Q.411 V5G.9: 14 residues within 4Å: Chain B: P.269, V.271, N.273, M.274, F.288, W.291, Y.292, M.293, E.296, Y.410, Q.411, D.413 Ligands: HEM.7, GOL.11 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:P.269, B:P.269, B:V.271, B:F.288, B:Y.410, B:Y.410 Hydrogen bonds: B:M.293, B:E.296, B:Q.411 Water bridges: B:N.273, B:Q.411, B:D.413, B:D.413

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 6 residues within 4Å: Chain A: G.121, W.291, V.353, A.358, S.361 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.291 Hydrogen bonds: A:S.361 ACT.10: 5 residues within 4Å: Chain B: G.121, Q.124, W.291, S.361 Ligands: HEM.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.124, B:W.291, B:S.361

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: M.40, W.382 Ligands: HEM.1, V5G.3 No protein-ligand interaction detected (PLIP) GOL.11: 5 residues within 4Å: Chain B: M.40, W.382, Y.410 Ligands: HEM.7, V5G.9 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 6 residues within 4Å: Chain A: C.30, C.35, M.36 Chain B: C.30, C.35, M.36 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.30, B:C.35, A:C.30, A:C.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis, M.C. et al., Selective anti-MRSA inhibitors targeting bacterial nitric oxide synthase. To be published

Release Date

2022-09-14

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain

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