MolNFT v1 · #104370 · protein
Structure of the saccharomyces cerevisiae PAN2 pseudoubiquitin- hydrolase
4Q8G · Pab-dependent POLY(A)-specific ribonuclease subunit PAN2: “Structure of the saccharomyces cerevisiae PAN2 pseudoubiquitin- hydrolase”. X-ray diffraction, 1 ligand (ZN), 4 pockets (best druggability 0.43). MolNFT v1 #104370 on…
- PDB
- 4Q8G
- Type
- protein
- Length
- 697 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pab-dependent POLY(A)-specific ribonuclease subunit PAN2
- EC
- 3.1.13.4
- UniProt
- P53010
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.43
Structure
x-ray diffraction · 2 distinct chains · 29% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pab-dependent POLY(A)-specific ribonuclease subunit PAN2 (EC 3.1.13.4) | protein | 344 | 29% helix, 31% strand | P53010 |
| B | Pab-dependent POLY(A)-specific ribonuclease subunit PAN2 (EC 3.1.13.4) | protein | 353 | 29% helix, 29% strand | P53010 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 85 | 0.43 | 0.80 | 21 | empty |
| 2 | 104 | 0.42 | 0.78 | 23 | empty |
| 3 | 99 | 0.36 | 0.74 | 20 | empty |
| 4 | 90 | 0.35 | 0.75 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 681 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 4Q8G · Structure of the Saccharomyces cerevisiae PAN2 pseudoubiquitin-hydrolase · the same entry in another collection · chain A against A, TM-score 1.00
- P53010 · AlphaFold monomer V2.0 prediction for PAN2-PAN3 deadenylation complex catalytic subunit… · 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 P53010
- Elsewhere: RCSB PDB 4Q8G · PDBe 4Q8G · UniProt P53010
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