SMTL ID : 3u8d.2 (1 other biounit)

Functionally selective inhibition of Group IIA phospholipase A2 reveals a role for vimentin in regulating arachidonic acid metabolism

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x U8D: (3-{[3-(2-amino-2-oxoethyl)-1-benzyl-2-ethyl-1H-indol-5-yl]oxy}propyl)phosphonic acid(Non-covalent)

U8D.1: 21 residues within 4Å: Chain A: L.2, F.5, H.6, I.9, A.17, A.18, Y.21, G.22, H.27, C.28, G.29, V.30, G.31, C.44, H.47, D.48, Y.51, K.52, K.62, F.98 Ligands: CA.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.2, A:F.5, A:H.6, A:I.9, A:Y.21, A:V.30, A:F.98 Hydrogen bonds: A:G.29, A:G.31, A:H.47, A:D.48, A:D.48 Water bridges: A:K.52

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: H.27, G.29, V.30, G.31, D.48 Ligands: U8D.1 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.27, A:G.29, A:G.31, A:D.48, A:D.48 CA.3: 5 residues within 4Å: Chain A: F.23, G.25, C.26, Y.112, N.114 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.23, A:G.25, A:Y.112, H2O.1, H2O.2

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: N.4, R.7, F.68 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: Q.86, E.89 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, L.K. et al., Selective Inhibition of Human Group IIA-secreted Phospholipase A2 (hGIIA) Signaling Reveals Arachidonic Acid Metabolism Is Associated with Colocalization of hGIIA to Vimentin in Rheumatoid Synoviocytes. J.Biol.Chem. (2013)

Release Date

2012-10-17

Peptides

Phospholipase A2, membrane associated: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Phospholipase A2, membrane associated

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