SMTL ID : 1fe2.1

CRYSTAL STRUCTURE OF DIHOMO-GAMMA-LINOLEIC ACID BOUND IN THE CYCLOOXYGENASE CHANNEL OF PROSTAGLANDIN ENDOPEROXIDE H SYNTHASE-1.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 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: 3 residues within 4Å: Chain A: P.16, Y.31, N.44 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 7 residues within 4Å: Chain A: Y.378, Q.382, N.386, S.388, M.389, D.392, Y.393 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.382 NAG-NAG.9: 3 residues within 4Å: Chain B: P.16, Y.31, N.44 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 7 residues within 4Å: Chain B: Y.378, Q.382, N.386, S.388, M.389, D.392, Y.393 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.382

2 x NAG- NAG- BMA- BMA- BMA: beta-D-mannopyranose-(1-3)-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-BMA.2: 11 residues within 4Å: Chain A: E.116, N.120, S.122, Y.123, M.192, F.196 Chain B: L.214, E.215, Y.218, Q.219, P.246 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:M.192 Hydrogen bonds: B:E.215, B:P.246 NAG-NAG-BMA-BMA-BMA.10: 11 residues within 4Å: Chain A: L.214, E.215, Y.218, Q.219, P.246 Chain B: E.116, N.120, S.122, Y.123, M.192, F.196 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.215, A:E.215, A:P.246 Hydrophobic interactions: B:M.192

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

BOG.4: 4 residues within 4Å: Chain A: P.60, S.63, F.64, F.67 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.60, A:F.64, A:F.64 BOG.5: 9 residues within 4Å: Chain A: P.62, I.65, L.69, L.88, L.91, V.92, V.95, R.96, E.500 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.65, A:L.69, A:L.88, A:L.91, A:V.92 Hydrogen bonds: A:P.62 Water bridges: A:H.66, A:G.447 Salt bridges: A:R.96 BOG.6: 2 residues within 4Å: Chain A: R.73, W.74 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.73, A:W.74, A:W.74 BOG.12: 4 residues within 4Å: Chain B: P.60, S.63, F.64, F.67 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:P.60, B:F.64, B:F.64 BOG.13: 9 residues within 4Å: Chain B: P.62, I.65, L.69, L.88, L.91, V.92, V.95, R.96, E.500 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.65, B:L.69, B:L.88, B:L.91, B:V.92 Hydrogen bonds: B:P.62 Water bridges: B:G.447, B:E.500 Salt bridges: B:R.96 BOG.14: 2 residues within 4Å: Chain B: R.73, W.74 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:R.73, B:W.74, B:W.74

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

COH.7: 19 residues within 4Å: Chain A: Y.124, A.175, Q.179, T.182, H.183, F.186, K.187, T.188, L.271, N.358, Y.361, H.362, W.363, H.364, M.367, I.420, H.422, V.423, D.426 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Q.179, A:Q.179, A:L.271, A:W.363, A:I.420, A:V.423 Hydrogen bonds: A:Y.124, A:T.188, A:T.188, A:N.358, A:D.426, A:D.426 pi-Stacking: A:H.183, A:H.183, A:H.364, A:H.364, A:H.364 Metal complexes: A:H.364 COH.15: 19 residues within 4Å: Chain B: Y.124, A.175, Q.179, T.182, H.183, F.186, K.187, T.188, L.271, N.358, Y.361, H.362, W.363, H.364, M.367, I.420, H.422, V.423, D.426 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:Q.179, B:Q.179, B:L.271, B:W.363, B:I.420, B:V.423 Hydrogen bonds: B:T.188, B:T.188, B:T.188, B:N.358, B:D.426 pi-Stacking: B:H.183, B:H.183, B:H.364, B:H.364, B:H.364 Metal complexes: B:H.364

2 x LAX: EICOSA-8,11,14-TRIENOIC ACID(Non-covalent)

LAX.8: 22 residues within 4Å: Chain A: V.92, R.96, F.181, F.185, V.204, V.320, Y.324, V.325, L.328, Y.331, N.351, F.357, Y.361, W.363, F.494, I.499, G.502, A.503, S.506, L.507, G.509, L.510 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:F.181, A:F.181, A:F.185, A:V.204, A:V.320, A:Y.324, A:V.325, A:L.328, A:L.328, A:Y.331, A:F.357, A:Y.361, A:W.363, A:F.494, A:I.499, A:A.503, A:L.510, A:L.510 Hydrogen bonds: A:Y.331 Salt bridges: A:R.96 LAX.16: 22 residues within 4Å: Chain B: V.92, R.96, F.181, F.185, V.204, V.320, Y.324, V.325, L.328, Y.331, N.351, F.357, Y.361, W.363, F.494, I.499, G.502, A.503, S.506, L.507, G.509, L.510 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:F.181, B:F.181, B:F.185, B:V.204, B:V.320, B:Y.324, B:V.325, B:L.328, B:L.328, B:Y.331, B:F.357, B:Y.361, B:W.363, B:F.494, B:I.499, B:A.503, B:L.510, B:L.510 Hydrogen bonds: B:Y.331, B:Y.331 Salt bridges: B:R.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thuresson, E.D. et al., Mutational and X-ray crystallographic analysis of the interaction of dihomo-gamma -linolenic acid with prostaglandin endoperoxide H synthases. J.Biol.Chem. (2001)

Release Date

2001-05-02

Peptides

PROSTAGLANDIN ENDOPEROXIDE H SYNTHASE-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROSTAGLANDIN ENDOPEROXIDE H SYNTHASE-1

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