MolNFT v1 · #182303 · protein
Crystal structure of the class ie ribonucleotide reductase beta subunit from aerococcus urinae with CU(I) bound (cu sulfate soak)
7MMV · Ribonucleoside-diphosphate reductase: “Crystal structure of the class ie ribonucleotide reductase beta subunit from aerococcus urinae with CU(I)…”. X-ray diffraction, 2 ligands (CU1, CL), 3 pockets (best druggability 0.50). MolNFT…
- PDB
- 7MMV
- Type
- protein
- Length
- 622 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonucleoside-diphosphate reductase
- EC
- 1.17.4.1
- UniProt
- F2I8X9
- Ligands
- CU1, CL
- Pockets
- 3 · best druggability 0.50
Structure
x-ray diffraction · 2 distinct chains · 77% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonucleoside-diphosphate reductase (EC 1.17.4.1) | protein | 309 | 77% helix, 1% strand | F2I8X9 |
| B | Ribonucleoside-diphosphate reductase (EC 1.17.4.1) | protein | 313 | 76% helix, 1% strand | F2I8X9 |
Ligands and binding sites
- CU1 · Copper (I) ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 4 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 139 | 0.50 | 0.79 | 35 | empty |
| 2 | 100 | 0.40 | 0.76 | 17 | empty |
| 3 | 54 | 0.34 | 0.78 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 2758 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 7MMV · Crystal Structure of the Class Ie Ribonucleotide Reductase Beta Subunit from Aerococcus… · the same entry in another collection · chain A against A, TM-score 1.00
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 F2I8X9
- Elsewhere: RCSB PDB 7MMV · PDBe 7MMV · UniProt F2I8X9
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