Research workbench
TRNA processing enzyme (apo form 1)
Analyse TRNA processing enzyme (apo form 1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3WFO
- Type
- protein
- Length
- 1,276 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Poly a polymerase
- EC
- 2.7.7.72
- UniProt
- O67911
- Ligands
- SO4
- Pockets
- 10 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 55% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Poly a polymerase (EC 2.7.7.72) | protein | 425 | 55% helix, 12% strand | O67911 |
| B | Poly a polymerase (EC 2.7.7.72) | protein | 426 | 56% helix, 12% strand | O67911 |
| C | Poly a polymerase (EC 2.7.7.72) | protein | 425 | 55% helix, 10% strand | O67911 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 11 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1035 | 0.79 | 0.80 | 80 | SO4 |
| 2 | 1041 | 0.76 | 0.78 | 78 | SO4 |
| 3 | 1173 | 0.75 | 0.78 | 88 | SO4 |
| 4 | 189 | 0.63 | 0.84 | 32 | empty |
| 5 | 225 | 0.51 | 0.76 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1327 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
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 O67911
- Elsewhere: RCSB PDB 3WFO · PDBe 3WFO · UniProt O67911
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