MolNFT v1 · #82121 · protein
Crystal structure of a putative GLYOXALASE/BLEOMYCIN resistance protein from rhodopseudomonas palustris CGA009
3VCX · GLYOXALASE/BLEOMYCIN resistance PROTEIN/DIOXYGENASE domain: “Crystal structure of a putative GLYOXALASE/BLEOMYCIN resistance protein from rhodopseudomonas palustris CGA009”. X-ray diffraction, 5 pockets (best druggability 0.60).…
- PDB
- 3VCX
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GLYOXALASE/BLEOMYCIN resistance PROTEIN/DIOXYGENASE domain
- UniProt
- Q6NBC6
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 20% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GLYOXALASE/BLEOMYCIN resistance PROTEIN/DIOXYGENASE domain | protein | 122 | 20% helix, 43% strand | Q6NBC6 |
| B | GLYOXALASE/BLEOMYCIN resistance PROTEIN/DIOXYGENASE domain | protein | 120 | 20% helix, 42% strand | Q6NBC6 |
Ligands and binding sites
- PG4 · Tetraethylene glycol · additive · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 292 | 0.60 | 0.78 | 29 | PG4 |
| 2 | 172 | 0.57 | 0.81 | 26 | PG4 |
| 3 | 176 | 0.50 | 0.77 | 19 | PG4 |
| 4 | 121 | 0.45 | 0.77 | 18 | PG4 |
| 5 | 58 | 0.39 | 0.80 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1435 Ų buried · 27 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 3VCX · Crystal structure of a putative glyoxalase/bleomycin resistance protein from… · 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 Q6NBC6
- Elsewhere: RCSB PDB 3VCX · PDBe 3VCX · UniProt Q6NBC6
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