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The refined crystal structure of dimeric phospholipase A2 at 2.5 ångströms. access to a shielded catalytic center
Analyse The refined crystal structure of dimeric phospholipase A2 at 2.5 ångströms.… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1PP2
- Type
- protein
- Length
- 244 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Calcium-free phospholipase A2
- EC
- 3.1.1.4
- UniProt
- P00624
- Pockets
- 2 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R, L | Calcium-free phospholipase A2 (EC 3.1.1.4) | protein | 122 | 43% helix, 10% strand | P00624 |
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 155 | 0.82 | 0.98 | 34 | empty |
| 2 | 572 | 0.79 | 0.85 | 62 | empty |
Interfaces
1 interface between chains.
- R–L · 1289 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide (disulfide).
Compared structures
- 1PP2 · The refined crystal structure of dimeric phospholipase A2 at 2.5 ångströms. access to a… · the same entry in another collection · chain R against R, TM-score 1.00
- P00624 · AlphaFold monomer V2.0 prediction for acidic phospholipase A2 (P00624) · a predicted model of the same protein · chain R against A, TM-score 0.95
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 P00624
- Elsewhere: RCSB PDB 1PP2 · PDBe 1PP2 · UniProt P00624
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