Research workbench
Mn substituted ribonucleotide reductase R2 from E. COLI oxidized by hydrogen peroxide and hydroxylamine
Analyse Mn substituted ribonucleotide reductase R2 from E. COLI oxidized by hydrogen… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1JQC
- Type
- protein
- Length
- 681 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein R2 of ribonucleotide reductase
- EC
- 1.17.4.1
- UniProt
- P69924
- Ligands
- HG, MN
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 69% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein R2 of ribonucleotide reductase (EC 1.17.4.1) | protein | 340 | 71% helix, 4% strand | P69924 |
| B | Protein R2 of ribonucleotide reductase (EC 1.17.4.1) | protein | 341 | 68% helix, 4% strand | P69924 |
Ligands and binding sites
- HG · Mercury (II) ion · metal · 13 copies · chains A, B
- MN · Manganese (II) ion · metal · 4 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 129 | 0.73 | 0.92 | 27 | empty |
| 2 | 80 | 0.48 | 0.82 | 15 | empty |
| 3 | 84 | 0.38 | 0.77 | 20 | empty |
| 4 | 51 | 0.27 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 3038 Ų buried · 49 hydrogen bonds · protein-protein
Compared structures
- 1JQC · Mn substituted Ribonucleotide reductase R2 from E. Coli oxidized by hydrogen peroxide and… · the same entry in another collection · chain A against A, TM-score 1.00
- P69924 · AlphaFold monomer V2.0 prediction for ribonucleoside-diphosphate reductase 1 subunit beta… · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P69924
- Elsewhere: RCSB PDB 1JQC · PDBe 1JQC · UniProt P69924
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.