MolNFT v1 · #119507 · protein
Cubic crystal of the native plpd
5FYA · Patatin-like protein, plpd: “Cubic crystal of the native plpd”. X-ray diffraction, 3 pockets (best druggability 0.79). MolNFT v1 #119507 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5FYA
- Type
- protein
- Length
- 508 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Patatin-like protein, plpd
- UniProt
- Q9HYQ6
- Pockets
- 3 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Patatin-like protein, plpd | protein | 253 | 47% helix, 15% strand | Q9HYQ6 |
| B | Patatin-like protein, plpd | protein | 255 | 46% helix, 17% strand | Q9HYQ6 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 488 | 0.79 | 0.86 | 57 | empty |
| 2 | 412 | 0.77 | 0.86 | 57 | empty |
| 3 | 121 | 0.44 | 0.77 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1327 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5FYA · Cubic crystal of the native PlpD · 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 Q9HYQ6
- Elsewhere: RCSB PDB 5FYA · PDBe 5FYA · UniProt Q9HYQ6
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