MolNFT v1 · #67781 · protein
APPEP_WTX opened state
3IUM · Prolyl endopeptidase: “APPEP_WTX opened state”. X-ray diffraction, 5 pockets (best druggability 0.67). MolNFT v1 #67781 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3IUM
- Type
- protein
- Length
- 668 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prolyl endopeptidase
- UniProt
- Q9X6R4
- Pockets
- 5 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 22% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Prolyl endopeptidase | protein | 668 | 22% helix, 34% strand | Q9X6R4 |
Ligands and binding sites
- GOL · Glycerol · additive · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 793 | 0.67 | 0.75 | 82 | GOL |
| 2 | 206 | 0.47 | 0.75 | 33 | empty |
| 3 | 100 | 0.38 | 0.76 | 25 | empty |
| 4 | 76 | 0.37 | 0.77 | 15 | empty |
| 5 | 70 | 0.33 | 0.75 | 18 | empty |
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 3IUM · apPEP_WTX opened state · 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 Q9X6R4
- Elsewhere: RCSB PDB 3IUM · PDBe 3IUM · UniProt Q9X6R4
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