SMTL ID : 2oye.1

Indomethacin-(R)-alpha-ethyl-ethanolamide bound to Cyclooxygenase-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-dimer

Ligands

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

NAG-NDG.1: 3 residues within 4Å: Chain A: P.40, Y.55, N.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.55, A:N.68 Hydrophobic interactions: A:Y.55 NAG-NDG.9: 3 residues within 4Å: Chain B: P.40, Y.55, N.68 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.68 Hydrophobic interactions: B:Y.55

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

NAG-NAG-BMA-BMA.2: 7 residues within 4Å: Chain A: N.144, S.146, Y.147, M.216 Chain B: L.238, E.239, Y.242 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.239 NAG-NAG-BMA-BMA.10: 7 residues within 4Å: Chain A: L.238, E.239, Y.242 Chain B: N.144, S.146, Y.147, M.216 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.239, A:E.239

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

NAG-NAG.3: 6 residues within 4Å: Chain A: Y.402, E.405, Q.406, N.410, M.413, D.416 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.406 NAG-NAG.11: 6 residues within 4Å: Chain B: Y.402, E.405, Q.406, N.410, M.413, D.416 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.406

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

BOG.4: 3 residues within 4Å: Chain A: S.87, F.88, F.91 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.87 BOG.5: 6 residues within 4Å: Chain A: P.86, V.119, R.120, L.123, E.524 Ligands: IM8.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.120 Salt bridges: A:R.120 BOG.12: 3 residues within 4Å: Chain B: S.87, F.88, F.91 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.87 BOG.13: 6 residues within 4Å: Chain B: P.86, V.119, R.120, L.123, E.524 Ligands: IM8.16 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.120 Salt bridges: B:R.120

2 x FLC: CITRATE ANION(Non-covalent)

FLC.6: 3 residues within 4Å: Chain A: T.212, K.222 Ligands: HEM.7 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.212, A:T.212, A:T.212 Water bridges: A:G.214, A:G.214 Salt bridges: A:H.207, A:K.222 FLC.14: 3 residues within 4Å: Chain B: T.212, K.222 Ligands: HEM.15 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.212, B:T.212, B:T.212 Water bridges: B:G.214, B:G.214 Salt bridges: B:H.207, B:K.222

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

HEM.7: 19 residues within 4Å: Chain A: Y.148, A.199, 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, D.450 Ligands: FLC.6 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:Q.203, A:F.210, A:L.295, A:W.387, A:I.444 Hydrogen bonds: A:Y.148, A:T.212, A:N.382, A:D.450 pi-Stacking: A:H.207, A:H.207, A:H.388, A:H.388 Metal complexes: A:H.388 HEM.15: 19 residues within 4Å: Chain B: Y.148, A.199, 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, D.450 Ligands: FLC.14 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:Q.203, B:F.210, B:L.295, B:W.387, B:I.444 Hydrogen bonds: B:T.212, B:T.212, B:N.382, B:D.450, B:D.450 pi-Stacking: B:H.207, B:H.207, B:H.388, B:H.388 Metal complexes: B:H.388

2 x IM8: 2-[1-(4-CHLOROBENZOYL)-5-METHOXY-2-METHYL-1H-INDOL-3-YL]-N-[(1R)-1-(HYDROXYMETHYL)PROPYL]ACETAMIDE(Non-covalent)

IM8.8: 19 residues within 4Å: Chain A: L.93, V.116, R.120, V.349, L.352, S.353, Y.355, L.384, Y.385, W.387, F.518, M.522, I.523, E.524, G.526, A.527, S.530, L.531 Ligands: BOG.5 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.93, A:W.387, A:F.518, A:F.518, A:A.527, A:L.531 Hydrogen bonds: A:R.120, A:R.120, A:Y.355, A:E.524, A:E.524, A:S.530 Halogen bonds: A:L.384 IM8.16: 19 residues within 4Å: Chain B: L.93, V.116, R.120, V.349, L.352, S.353, Y.355, L.384, Y.385, W.387, F.518, M.522, I.523, E.524, G.526, A.527, S.530, L.531 Ligands: BOG.13 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.93, B:W.387, B:F.518, B:F.518, B:A.527, B:L.531 Hydrogen bonds: B:R.120, B:R.120, B:Y.355, B:Y.355, B:E.524, B:S.530 Halogen bonds: B:L.384

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harman, C.A. et al., Structural basis of enantioselective inhibition of cyclooxygenase-1 by S-alpha-substituted indomethacin ethanolamides. J.Biol.Chem. (2007)

Release Date

2007-07-24

Peptides

Prostaglandin G/H synthase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
P

B
P

Prostaglandin G/H synthase 1

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