SMTL ID : 1y75.2 (2 other biounits)

A new form of catalytically inactive phospholipase A2 with an unusual disulphide bridge Cys 32- Cys 49 reveals recognition for N-acetylglucosmine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 13 residues within 4Å: Chain A: T.2, F.5, I.9, W.18, F.21, Y.27, C.28, G.29, C.30, C.43, H.46, C.47, K.62 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.2, A:W.18 Hydrogen bonds: A:C.43 Water bridges: A:T.2, A:Y.50, A:K.62 Salt bridges: A:H.46, A:K.62 NAG.4: 13 residues within 4Å: Chain C: T.2, F.5, I.9, W.18, F.21, Y.27, C.28, G.29, C.30, C.43, H.46, C.47, K.62 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:T.2, C:W.18 Hydrogen bonds: C:C.43, C:H.46 Water bridges: C:T.2, C:K.62 Salt bridges: C:H.46, C:K.62

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: D.23, N.110 Chain B: D.23, N.110 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:D.23, A:D.23, B:D.23, B:D.23 ZN.3: 3 residues within 4Å: Chain A: E.69 Chain C: E.69 Ligands: ZN.6 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Metal complexes: C:E.69, C:E.69, A:E.69, A:E.69 ZN.5: 4 residues within 4Å: Chain C: D.23, N.110 Chain D: D.23, N.110 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Metal complexes: C:D.23, C:D.23, D:D.23, D:D.23 ZN.6: 3 residues within 4Å: Chain A: E.69 Chain C: E.69 Ligands: ZN.3 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Metal complexes: C:E.69, C:E.69, A:E.69, A:E.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jabeen, T. et al., Crystal structure of a heterodimer of phospholipase A2 from Naja naja sagittifera at 2.3 A resolution reveals the presence of a new PLA2-like protein with a novel cys 32-Cys 49 disulphide bridge with a bound sugar at the substrate-binding site. Proteins (2006)

Release Date

2005-05-03

Peptides

phospholipase A2 isoform 5: AC
phospholipase A2 isoform 6: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

phospholipase A2 isoform 5

phospholipase A2 isoform 6

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