SMTL ID : 5g3m.1 (1 other biounit)

Discovery of a novel secreted phospholipase A2 (sPLA2) inhibitor.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: F.26, G.28, G.30, D.47 Ligands: PEG.6, 9JH.12 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:F.26, A:G.28, A:G.30, A:D.47, A:D.47

5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 5 residues within 4Å: Chain A: F.26, H.44, D.47, T.51, C.122 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.51 DMS.3: 3 residues within 4Å: Chain A: L.75, C.76, Q.92 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.76 DMS.4: 9 residues within 4Å: Chain A: K.22, G.24, C.25, C.27, G.28, L.29, G.30, G.31 Ligands: PEG.9 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.29 DMS.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) DMS.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 3 residues within 4Å: Chain A: W.67, Q.68, C.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.69 PEG.6: 8 residues within 4Å: Chain A: I.2, G.28, G.30, D.47, K.61 Ligands: CA.1, PEG.11, 9JH.12 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.30, A:G.30, A:K.61 PEG.7: 3 residues within 4Å: Chain A: R.64, S.66, E.80 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.66 Water bridges: A:R.64, A:S.66, A:P.78 PEG.8: 3 residues within 4Å: Chain A: R.15, A.19, Y.103 No protein-ligand interaction detected (PLIP) PEG.9: 6 residues within 4Å: Chain A: L.29, G.30, G.31, H.32, Q.112 Ligands: DMS.4 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.29 PEG.10: 2 residues within 4Å: Chain A: H.32, Q.112 No protein-ligand interaction detected (PLIP) PEG.11: 4 residues within 4Å: Chain A: I.2, L.29, K.61 Ligands: PEG.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.61

1 x 9JH: 4-BENZYLBENZAMIDE(Non-covalent)

9JH.12: 15 residues within 4Å: Chain A: I.2, L.5, A.6, P.17, Y.20, M.21, F.26, C.27, G.28, C.43, H.46, D.47, I.94 Ligands: CA.1, PEG.6 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.2, A:L.5, A:L.5, A:A.6, A:P.17, A:I.94 Hydrogen bonds: A:G.28, A:D.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Giordanetto, F. et al., Discovery of Azd2716: A Novel Secreted Phospholipase A2 (Spla2) Inhibitor for the Treatment of Coronary Artery Disease. Acs Med.Chem.Lett. (2016)

Release Date

2016-09-14

Peptides

GROUP 10 SECRETORY PHOSPHOLIPASE A2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GROUP 10 SECRETORY PHOSPHOLIPASE A2

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