Research workbench
Tuber borchii phospholipase A2
Analyse Tuber borchii phospholipase A2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4AUP
- Type
- protein
- Length
- 243 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phospholipase A2 group xiii
- UniProt
- Q9P4F6
- Ligands
- SCN
- Pockets
- 3 · best druggability 0.54
Structure
x-ray diffraction · 2 distinct chains · 65% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phospholipase A2 group xiii | protein | 120 | 63% helix, 0% strand | Q9P4F6 |
| B | Phospholipase A2 group xiii | protein | 123 | 67% helix, 0% strand | Q9P4F6 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 141 | 0.54 | 0.81 | 33 | ACT, SCN |
| 2 | 94 | 0.43 | 0.79 | 19 | empty |
| 3 | 95 | 0.42 | 0.78 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 337 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4AUP · Tuber borchii Phospholipase A2 · the same entry in another collection · chain A against A, TM-score 1.00
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 Q9P4F6
- Elsewhere: RCSB PDB 4AUP · PDBe 4AUP · UniProt Q9P4F6
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