SMTL ID : 1q5t.2 (2 other biounits)

Gln48 PLA2 separated from Vipoxin from the venom of Vipera ammodytes meridionalis.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 9 residues within 4Å: Chain A: C.26, G.34, R.35, Q.37, Y.110, H.114, C.115, T.116, E.117 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.35, A:Q.37, A:Y.110, A:C.115, A:T.116, A:E.117, A:E.117 SO4.2: 2 residues within 4Å: Chain A: A.39, R.42 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.99, A:N.99 Salt bridges: A:R.42 SO4.3: 9 residues within 4Å: Chain B: C.26, G.34, R.35, Q.37, Y.110, H.114, C.115, T.116, E.117 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.35, B:Q.37, B:Y.110, B:C.115, B:T.116, B:T.116, B:E.117 Salt bridges: B:R.35 SO4.4: 4 residues within 4Å: Chain A: D.79, L.80, C.81 Chain C: R.53 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:L.80, A:C.81 Salt bridges: C:R.53 SO4.5: 9 residues within 4Å: Chain C: C.26, G.34, R.35, Q.37, Y.110, H.114, C.115, T.116, E.117 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.35, C:Q.37, C:C.115, C:T.116, C:E.117 SO4.6: 2 residues within 4Å: Chain C: A.39, R.42 3 PLIP interactions: 3 interactions with chain C Water bridges: C:N.99, C:N.99 Salt bridges: C:R.42 SO4.7: 9 residues within 4Å: Chain D: C.26, G.34, R.35, Q.37, Y.110, H.114, C.115, T.116, E.117 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.35, D:Q.37, D:C.115, D:T.116, D:T.116, D:E.117 Salt bridges: D:R.35 SO4.8: 4 residues within 4Å: Chain A: R.53 Chain C: D.79, L.80, C.81 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Salt bridges: A:R.53 Hydrogen bonds: C:D.79, C:L.80, C:C.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Georgieva, D.N. et al., The X-ray structure of a snake venom Gln48 phospholipase A2 at 1.9A resolution reveals anion-binding sites. Biochem.Biophys.Res.Commun. (2004)

Release Date

2004-05-04

Peptides

Phospholipase A2 inhibitor: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Phospholipase A2 inhibitor

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