MolNFT v1 · #18044 · protein
Crystal structure of bnsp-6, a LYS49-phospholipase A2
1PC9: “Crystal structure of bnsp-6, a LYS49-phospholipase A2”. X-ray diffraction, 2 pockets (best druggability 0.53). MolNFT v1 #18044 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1PC9
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bnsp-6
- EC
- 3.1.1.4
- UniProt
- Q9IAT9
- Pockets
- 2 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bnsp-6 (EC 3.1.1.4) | protein | 121 | 47% helix, 7% strand | Q9IAT9 |
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 | 132 | 0.53 | 0.80 | 18 | empty |
| 2 | 141 | 0.50 | 0.79 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 528 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide (disulfide).
Compared structures
- 1PC9 · Crystal Structure of BnSP-6, a Lys49-Phospholipase A2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9IAT9 · AlphaFold monomer V2.0 prediction for basic phospholipase A2 homolog bnsp-7 (Q9IAT9) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9IAT9
- Elsewhere: RCSB PDB 1PC9 · PDBe 1PC9 · UniProt Q9IAT9
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