SMTL ID : 5u6x.1

COX-1:P6 COMPLEX STRUCTURE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.93 Å

Oligo State

homo-dimer

Ligands

4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: Y.38, P.40, Y.55, P.67, N.68 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.38 NAG-NAG.3: 6 residues within 4Å: Chain A: Y.402, Q.406, N.410, M.413, D.416, Y.417 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.406 NAG-NAG.4: 5 residues within 4Å: Chain B: Y.38, P.40, Y.55, P.67, N.68 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.38 NAG-NAG.6: 6 residues within 4Å: Chain B: Y.402, Q.406, N.410, M.413, D.416, Y.417 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- MAN- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN.2: 7 residues within 4Å: Chain A: N.144, S.146, Y.147, M.216 Chain B: L.238, Y.242, Q.243 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:M.216 NAG-NAG-MAN-MAN-MAN.5: 9 residues within 4Å: Chain A: L.238, E.239, Y.242, Q.243, P.270 Chain B: N.144, S.146, Y.147, M.216 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:M.216 Hydrogen bonds: A:E.239

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

HEM.7: 16 residues within 4Å: Chain A: A.202, Q.203, H.207, F.210, K.211, T.212, L.295, N.382, Y.385, H.386, W.387, H.388, M.391, I.444, H.446, V.447 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:A.202, A:Q.203, A:F.210, A:F.210, A:L.295, A:Y.385, A:W.387, A:I.444, A:I.444, A:V.447 Hydrogen bonds: A:T.212, A:T.212, A:N.382 pi-Stacking: A:H.388 pi-Cation interactions: A:H.207 Metal complexes: A:H.388 HEM.10: 16 residues within 4Å: Chain B: Q.203, H.207, F.210, K.211, T.212, L.295, N.382, Y.385, H.386, W.387, H.388, M.391, L.408, I.444, H.446, V.447 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:Q.203, B:F.210, B:F.210, B:L.295, B:Y.385, B:W.387, B:L.408, B:I.444, B:V.447 Hydrogen bonds: B:Y.148, B:T.212, B:N.382 pi-Stacking: B:H.207, B:H.386 Metal complexes: B:H.388

2 x P6A: 3-(5-chlorofuran-2-yl)-5-methyl-4-phenyl-1,2-oxazole(Non-covalent)

P6A.8: 14 residues within 4Å: Chain A: V.116, R.120, V.349, L.352, S.353, Y.355, F.518, M.522, I.523, G.526, A.527, S.530, L.531 Ligands: BOG.9 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.352, A:L.352, A:F.518, A:A.527, A:L.531 P6A.11: 13 residues within 4Å: Chain B: V.116, R.120, V.349, L.352, S.353, Y.355, F.518, I.523, G.526, A.527, S.530, L.531 Ligands: BOG.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.116, B:L.352, B:F.518, B:L.531

3 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.9: 11 residues within 4Å: Chain A: R.83, P.86, L.112, V.116, V.119, R.120, L.123, F.470, G.471, E.524 Ligands: P6A.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.112, A:V.116 Hydrogen bonds: A:R.83, A:V.119, A:R.120 Salt bridges: A:R.120 BOG.12: 3 residues within 4Å: Chain B: S.87, F.88, F.91 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.88, B:F.88, B:F.91 Hydrogen bonds: B:S.87, B:S.87 BOG.13: 13 residues within 4Å: Chain B: R.83, P.86, I.89, L.92, L.93, L.112, L.115, V.116, V.119, R.120, L.123, E.524 Ligands: P6A.11 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.92, B:L.93, B:L.112, B:L.115, B:V.116 Hydrogen bonds: B:R.83, B:R.120, B:G.471 Salt bridges: B:R.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cingolani, G. et al., Structural basis for selective inhibition of Cyclooxygenase-1 (COX-1) by diarylisoxazoles mofezolac and 3-(5-chlorofuran-2-yl)-5-methyl-4-phenylisoxazole (P6). Eur J Med Chem (2017)

Release Date

2017-08-09

Peptides

Prostaglandin G/H synthase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Prostaglandin G/H synthase 1

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