Research workbench
C-terminal domain of peptide chain release factor from methanosarcina mazei.
Analyse C-terminal domain of peptide chain release factor from methanosarcina mazei. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IR9
- Type
- protein
- Length
- 319 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peptide chain release factor subunit 1
- UniProt
- Q8PX75
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.36
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peptide chain release factor subunit 1 | protein | 162 | 36% helix, 27% strand | Q8PX75 |
| B | Peptide chain release factor subunit 1 | protein | 157 | 38% helix, 29% strand | Q8PX75 |
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
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 95 | 0.36 | 0.75 | 15 | empty |
| 2 | 61 | 0.30 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 750 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 3IR9 · C-terminal domain of Peptide Chain Release Factor from Methanosarcina mazei. · the same entry in another collection · chain A against A, TM-score 1.00
- Q8PX75 · AlphaFold monomer V2.0 prediction for peptide chain release factor subunit 1 (Q8PX75) · a predicted model of the same protein · chain A against A, TM-score 0.85
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 Q8PX75
- Elsewhere: RCSB PDB 3IR9 · PDBe 3IR9 · UniProt Q8PX75
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.