MolNFT v1 · #116052 · protein
Low resolution crystal structure of human ribonucleotide reductase ALPHA6 hexamer in complex with datp
5D1Y · Ribonucleoside-diphosphate reductase large subunit: “Low resolution crystal structure of human ribonucleotide reductase ALPHA6 hexamer in complex with datp”. X-ray diffraction, 7 pockets (best druggability 0.76). MolNFT v1 #116052…
- PDB
- 5D1Y
- Type
- protein
- Length
- 1,452 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonucleoside-diphosphate reductase large subunit
- EC
- 1.17.4.1
- UniProt
- P23921
- Pockets
- 7 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 48% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonucleoside-diphosphate reductase large subunit (EC 1.17.4.1) | protein | 714 | 49% helix, 12% strand | P23921 |
| B | Ribonucleoside-diphosphate reductase large subunit (EC 1.17.4.1) | protein | 738 | 48% helix, 12% strand | P23921 |
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1113 | 0.76 | 0.78 | 103 | empty |
| 2 | 995 | 0.75 | 0.78 | 95 | empty |
| 3 | 872 | 0.73 | 0.77 | 83 | empty |
| 4 | 647 | 0.70 | 0.78 | 65 | empty |
| 5 | 81 | 0.59 | 0.88 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1503 Ų buried · 29 hydrogen bonds · protein-protein
Compared structures
- 5D1Y · Low resolution crystal structure of human ribonucleotide reductase alpha6 hexamer in… · the same entry in another collection · chain A against A, TM-score 1.00
- P23921 · AlphaFold monomer V2.0 prediction for ribonucleoside-diphosphate reductase large subunit… · a predicted model of the same protein · chain B 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 P23921
- Elsewhere: RCSB PDB 5D1Y · PDBe 5D1Y · UniProt P23921
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.