Research workbench
Structures of yeast ribonucloetide reductase I
Analyse Structures of yeast ribonucloetide reductase I in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZYZ
- Type
- protein
- Length
- 1,545 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonucleoside-diphosphate reductase large chain 1
- EC
- 1.17.4.1
- UniProt
- P21524
- Ligands
- GLY
- Pockets
- 17 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonucleoside-diphosphate reductase large chain 1 (EC 1.17.4.1) | protein | 776 | 45% helix, 11% strand | P21524 |
| B | Ribonucleoside-diphosphate reductase large chain 1 (EC 1.17.4.1) | protein | 769 | 46% helix, 11% strand | P21524 |
Ligands and binding sites
- GLY · Glycine · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 962 | 0.77 | 0.79 | 99 | empty |
| 2 | 1071 | 0.76 | 0.78 | 94 | empty |
| 3 | 94 | 0.51 | 0.83 | 18 | empty |
| 4 | 189 | 0.44 | 0.74 | 26 | empty |
| 5 | 86 | 0.44 | 0.79 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 418 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 1ZYZ · Structures of Yeast Ribonucloetide Reductase I · the same entry in another collection · chain A against A, TM-score 1.00
- P21524 · AlphaFold monomer V2.0 prediction for ribonucleoside-diphosphate reductase large chain 1… · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P21524
- Elsewhere: RCSB PDB 1ZYZ · PDBe 1ZYZ · UniProt P21524
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