SMTL ID : 6ofy.1

Crystal Structure of Arachidonic Acid bound to V349I murine COX-2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.1: 3 residues within 4Å: Chain A: Y.24, E.36, N.37 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.24, A:E.36, A:N.37 Water bridges: A:S.7, A:S.7, A:T.39 NAG.2: 7 residues within 4Å: Chain A: E.110, N.114, Y.117, R.186, F.190 Chain B: L.208 Ligands: NAG.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.186 Water bridges: A:N.114, A:S.116 NAG.3: 2 residues within 4Å: Chain A: R.186 Ligands: NAG.2 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:D.209 Hydrophobic interactions: A:R.186 NAG.4: 6 residues within 4Å: Chain A: Y.372, Q.376, N.380, S.382, I.383, E.386 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.380 NAG.9: 5 residues within 4Å: Chain B: S.7, P.9, Y.24, E.36, N.37 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.7, B:S.7, B:E.36, B:N.37 NAG.10: 7 residues within 4Å: Chain A: L.208 Chain B: E.110, N.114, Y.117, R.186, F.190 Ligands: NAG.11 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.110, B:N.114, B:Y.117 Water bridges: B:L.115, B:R.186, B:R.186, B:R.186 NAG.11: 3 residues within 4Å: Chain A: L.208 Chain B: R.186 Ligands: NAG.10 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:D.209 Hydrophobic interactions: B:R.186 NAG.12: 6 residues within 4Å: Chain B: Y.372, Q.376, N.380, S.382, I.383, E.386 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.380

2 x COH: PROTOPORPHYRIN IX CONTAINING CO(Non-covalent)

COH.5: 18 residues within 4Å: Chain A: Y.118, A.169, A.172, Q.173, T.176, H.177, F.180, K.181, T.182, H.184, V.265, N.352, Y.355, H.356, H.358, L.361, V.417, Q.424 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:A.172, A:Q.173, A:F.180, A:F.180, A:V.265, A:Y.355, A:L.361, A:V.417 Hydrogen bonds: A:Y.118, A:T.182, A:N.352, A:N.352, A:Q.424 Salt bridges: A:H.184 pi-Stacking: A:H.177 Metal complexes: A:H.358 COH.13: 19 residues within 4Å: Chain B: Y.118, A.169, F.170, A.172, Q.173, T.176, H.177, F.180, K.181, T.182, H.184, V.265, N.352, Y.355, H.356, H.358, L.361, V.417, Q.424 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:F.170, B:A.172, B:Q.173, B:F.180, B:F.180, B:V.265, B:Y.355, B:L.361, B:V.417 Hydrogen bonds: B:T.182, B:T.182, B:N.352, B:Q.424 pi-Stacking: B:H.177 Metal complexes: B:H.358

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

BOG.6: 8 residues within 4Å: Chain A: E.149, K.150, L.153, R.154, R.155, R.408, E.456, E.460 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.153 Hydrogen bonds: A:K.150, A:R.155, A:R.408, A:E.456 Salt bridges: A:K.150, A:R.155

1 x AKR: ACRYLIC ACID(Non-covalent)

AKR.7: 5 residues within 4Å: Chain A: C.6, P.124, V.125, A.126, C.129 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.126

2 x ACD: ARACHIDONIC ACID(Non-covalent)

ACD.8: 13 residues within 4Å: Chain A: F.175, I.315, Y.318, I.319, S.323, Y.325, Y.355, W.357, F.488, G.496, A.497, S.500, L.501 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.315, A:Y.318, A:I.319, A:I.319, A:Y.325, A:Y.355, A:W.357, A:F.488, A:A.497 Hydrogen bonds: A:Y.355 ACD.14: 12 residues within 4Å: Chain B: F.175, Y.318, I.319, L.322, Y.325, F.351, Y.355, G.496, A.497, S.500, L.501, L.504 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.175, B:Y.318, B:L.322, B:Y.355, B:L.504, B:L.504

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, L. et al., Arg-513 and Leu-531 Are Key Residues Governing Time-Dependent Inhibition of Cyclooxygenase-2 by Aspirin and Celebrex. Biochemistry (2019)

Release Date

2020-02-05

Peptides

Prostaglandin G/H synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Prostaglandin G/H synthase 2