Research workbench
Structures of yeast ribonucleotide reductase I
Analyse Structures of yeast ribonucleotide reductase I in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZZD
- Type
- protein
- Length
- 646 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonucleoside-diphosphate reductase large chain 1; Ribonucleoside-diphosphate reductase…
- EC
- 1.17.4.1
- UniProt
- P21524, P49723
- Pockets
- 5 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonucleoside-diphosphate reductase large chain 1 (EC 1.17.4.1) | protein | 640 | 47% helix, 12% strand | P21524 |
| B | Ribonucleoside-diphosphate reductase small chain 2 (EC 1.17.4.1) | protein | 6 | 0% helix, 0% strand | P49723 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 194 | 0.56 | 0.80 | 33 | empty |
| 2 | 222 | 0.54 | 0.78 | 35 | empty |
| 3 | 109 | 0.38 | 0.75 | 14 | empty |
| 4 | 72 | 0.34 | 0.76 | 22 | empty |
| 5 | 50 | 0.27 | 0.75 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 420 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1ZZD · Structures of Yeast Ribonucleotide 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 0.99
- P49723 · AlphaFold monomer V2.0 prediction for ribonucleoside-diphosphate reductase small chain 2… · a predicted model of the same protein · chain B against A, TM-score 0.61
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
- Every structure of UniProt P49723
- Elsewhere: RCSB PDB 1ZZD · PDBe 1ZZD · UniProt P21524 · UniProt P49723
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