Research workbench
Structure of zinc induced heterodimer of two calcium free isoforms of phospholipase A2 from naja naja sagittifera at 2.7A resolution
Analyse Structure of zinc induced heterodimer of two calcium free isoforms of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XXW
- Type
- protein
- Length
- 238 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phospholipase A2 isoform 1; Phospholipase A2 isoform 2
- EC
- 3.1.1.4
- UniProt
- P60043, P60044
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phospholipase A2 isoform 1 (EC 3.1.1.4) | protein | 119 | 48% helix, 9% strand | P60043 |
| B | Phospholipase A2 isoform 2 (EC 3.1.1.4) | protein | 119 | 47% helix, 8% strand | P60044 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 698 | 0.79 | 0.84 | 59 | ACY |
Interfaces
1 interface between chains.
- A–B · 1062 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide (disulfide).
Compared structures
- 1XXW · Structure of zinc induced heterodimer of two calcium free isoforms of phospholipase A2… · the same entry in another collection · chain A against A, TM-score 1.00
- P60043 · AlphaFold monomer V2.0 prediction for basic phospholipase A2 1 (P60043) · a predicted model of the same protein · chain A against A, TM-score 0.98
- P60044 · AlphaFold monomer V2.0 prediction for acidic phospholipase A2 2 (P60044) · a predicted model of the same protein · chain B against A, TM-score 0.97
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P60043
- Every structure of UniProt P60044
- Elsewhere: RCSB PDB 1XXW · PDBe 1XXW · UniProt P60043 · UniProt P60044
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