Research workbench
Crystal structure of the recombinant ALPHA1/ALPHA2 catalytic heterodimer of bovine brain platelet-activating factor acetylhydrolase ib.
Analyse Crystal structure of the recombinant ALPHA1/ALPHA2 catalytic heterodimer of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1FXW
- Type
- protein
- Length
- 423 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Platelet-activating factor acetylhydrolase ib gamma subunit; Platelet-activating factor…
- EC
- 3.1.1.47
- UniProt
- Q29460, P68401
- Ligands
- CA
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Platelet-activating factor acetylhydrolase ib gamma subunit (EC 3.1.1.47) | protein | 211 | 41% helix, 11% strand | Q29460 |
| F | Platelet-activating factor acetylhydrolase ib beta subunit (EC 3.1.1.47) | protein | 212 | 45% helix, 13% strand | P68401 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 685 | 0.70 | 0.78 | 55 | CA |
| 2 | 287 | 0.60 | 0.78 | 25 | empty |
| 3 | 176 | 0.48 | 0.76 | 22 | empty |
| 4 | 50 | 0.26 | 0.74 | 12 | empty |
Interfaces
1 interface between chains.
- A–F · 1213 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 1FXW · Crystal structure of the recombinant ALPHA1/ALPHA2 catalytic heterodimer of bovine brain… · the same entry in another collection · chain A against A, TM-score 1.00
- P68401 · AlphaFold monomer V2.0 prediction for platelet-activating factor acetylhydrolase ib… · a predicted model of the same protein · chain F against A, TM-score 0.99
- Q29460 · AlphaFold monomer V2.0 prediction for platelet-activating factor acetylhydrolase ib… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q29460
- Every structure of UniProt P68401
- Elsewhere: RCSB PDB 1FXW · PDBe 1FXW · UniProt Q29460 · UniProt P68401
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