SMTL ID : 5w58.1

Crystal Complex of Cyclooxygenase-2: (S)-ARN-2508 (a dual COX and FAAH inhibitor)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

homo-dimer

Ligands

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

NAG-NAG-NAG.1: 7 residues within 4Å: Chain A: E.109, N.113, Y.116, R.185, F.189 Chain B: L.207, H.211 No protein-ligand interaction detected (PLIP) NAG-NAG-NAG.8: 7 residues within 4Å: Chain A: L.207, H.211 Chain B: E.109, N.113, Y.116, R.185, F.189 No protein-ligand interaction detected (PLIP)

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

NAG.2: 5 residues within 4Å: Chain A: S.6, P.8, Y.23, E.35, N.36 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.35 Hydrogen bonds: A:S.6, A:S.6, A:E.35 NAG.3: 5 residues within 4Å: Chain A: Q.375, N.379, S.381, I.382, E.385 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.379, A:E.385, A:E.385 NAG.9: 5 residues within 4Å: Chain B: S.6, P.8, Y.23, E.35, N.36 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:E.35 Hydrogen bonds: B:S.6, B:S.6, B:Y.23, B:E.35 NAG.10: 5 residues within 4Å: Chain B: Q.375, N.379, S.381, I.382, E.385 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.379, B:E.385

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

BOG.4: 9 residues within 4Å: Chain A: K.51, P.52, P.54, V.57, Y.84, S.88, R.89, L.92, E.493 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.57, A:Y.84 Hydrogen bonds: A:K.51, A:K.51, A:P.52, A:S.88, A:S.88, A:S.88, A:R.89, A:E.493 Salt bridges: A:R.89 BOG.5: 4 residues within 4Å: Chain A: N.55, T.56, Y.59, P.483 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.59 Hydrogen bonds: A:N.55, A:T.56 BOG.11: 9 residues within 4Å: Chain B: K.51, P.52, P.54, V.57, Y.84, S.88, R.89, L.92, E.493 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.57, B:Y.84 Hydrogen bonds: B:K.51, B:K.51, B:P.52, B:S.88, B:S.88, B:S.88, B:R.89 Salt bridges: B:R.89 BOG.12: 4 residues within 4Å: Chain B: N.55, T.56, Y.59, P.483 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.59 Hydrogen bonds: B:N.55, B:T.56, B:T.56

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

HEM.6: 18 residues within 4Å: Chain A: Y.117, A.168, F.169, A.171, Q.172, H.176, F.179, K.180, T.181, H.183, V.264, N.351, Y.354, H.355, W.356, H.357, L.360, V.416 19 PLIP interactions: 18 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.169, A:A.171, A:Q.172, A:F.179, A:V.264, A:Y.354, A:W.356, A:L.360, A:L.360, A:V.416, A:V.416 Hydrogen bonds: A:T.181, A:T.181, A:N.351, A:N.351 Salt bridges: A:H.183 pi-Stacking: A:H.176 Metal complexes: A:H.357, H2O.1 HEM.13: 18 residues within 4Å: Chain B: Y.117, A.168, F.169, A.171, Q.172, H.176, F.179, K.180, T.181, H.183, V.264, N.351, Y.354, H.355, W.356, H.357, L.360, V.416 19 PLIP interactions: 18 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: B:F.169, B:A.171, B:Q.172, B:F.179, B:V.264, B:Y.354, B:W.356, B:L.360, B:L.360, B:V.416, B:V.416 Hydrogen bonds: B:Y.117, B:T.181, B:N.351, B:N.351 Salt bridges: B:H.183 pi-Stacking: B:H.176 Metal complexes: B:H.357, H2O.12

2 x FF8: (2S)-2-{2-fluoro-3'-[(hexylcarbamoyl)oxy][1,1'-biphenyl]-4-yl}propanoic acid(Non-covalent)

FF8.7: 24 residues within 4Å: Chain A: V.85, R.89, F.174, F.178, G.196, V.197, V.313, Y.317, V.318, L.321, Y.324, N.344, I.346, F.350, Y.354, W.356, M.491, V.492, G.495, A.496, S.499, L.500, G.502, L.503 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:F.174, A:F.178, A:F.178, A:V.197, A:L.321, A:L.321, A:Y.324, A:I.346, A:F.350, A:F.350, A:W.356, A:V.492, A:A.496, A:L.503 Hydrogen bonds: A:Y.324, A:Y.324, A:Y.354, A:S.499 Salt bridges: A:R.89 FF8.14: 24 residues within 4Å: Chain B: V.85, R.89, F.174, F.178, G.196, V.197, V.313, Y.317, V.318, L.321, Y.324, N.344, I.346, F.350, Y.354, W.356, M.491, V.492, G.495, A.496, S.499, L.500, G.502, L.503 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:F.174, B:F.178, B:F.178, B:V.197, B:L.321, B:L.321, B:Y.324, B:I.346, B:F.350, B:F.350, B:W.356, B:V.492, B:A.496, B:L.503 Hydrogen bonds: B:Y.324, B:S.499 Salt bridges: B:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goodman, M.C. et al., Dual cyclooxygenase-fatty acid amide hydrolase inhibitor exploits novel binding interactions in the cyclooxygenase active site. J. Biol. Chem. (2018)

Release Date

2018-01-31

Peptides

Prostaglandin G/H synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Prostaglandin G/H synthase 2

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