SMTL ID : 6iej.2 (1 other biounit)

The C2 domain of cytosolic phospholipase A2 alpha bound to phosphatidylcholine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.27, D.30, D.80, A.81, N.82 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.27, A:D.30, A:D.80, A:D.80, A:A.81 CA.2: 6 residues within 4Å: Chain A: D.27, T.28, D.30, N.52 Ligands: CA.3, HXG.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.27, A:T.28, A:D.30, A:D.30 CA.3: 4 residues within 4Å: Chain A: T.28, N.52 Ligands: CA.2, HXG.5 No protein-ligand interaction detected (PLIP) CA.6: 5 residues within 4Å: Chain B: D.27, D.30, D.80, A.81, N.82 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.27, B:D.30, B:D.80, B:D.80, B:A.81 CA.7: 6 residues within 4Å: Chain B: D.27, T.28, D.30, N.52 Ligands: CA.8, HXG.10 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.27, B:T.28, B:D.30, B:D.30 CA.8: 4 residues within 4Å: Chain B: T.28, N.52 Ligands: CA.7, HXG.10 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: D.53, N.55 Chain B: D.53, N.55 Ligands: MG.9 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:D.53, A:D.53, A:N.55, B:D.53, B:N.55 MG.9: 5 residues within 4Å: Chain A: D.53, N.55 Chain B: D.53, N.55 Ligands: MG.4 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:D.53, A:D.53, A:N.55, B:D.53, B:N.55

2 x HXG: 1,2-dihexanoyl-sn-glycero-3-phosphocholine(Non-covalent)

HXG.5: 11 residues within 4Å: Chain A: L.26, D.27, D.30, H.49, N.51, N.52, A.81, N.82, Y.83 Ligands: CA.2, CA.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.52 Salt bridges: A:D.30 pi-Cation interactions: A:Y.83 HXG.10: 11 residues within 4Å: Chain B: L.26, D.27, D.30, H.49, N.51, N.52, A.81, N.82, Y.83 Ligands: CA.7, CA.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.52 Salt bridges: B:D.30 pi-Cation interactions: B:Y.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirano, Y. et al., Structural basis of phosphatidylcholine recognition by the C2-domain of cytosolic phospholipase A2alpha. Elife (2019)

Release Date

2019-05-22

Peptides

Cytosolic phospholipase A2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

Cytosolic phospholipase A2

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