MolNFT v1 · #104055 · protein
The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase RV2419C
4PZ9: “The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase RV2419C”. X-ray diffraction, 3 pockets (best druggability 0.69). MolNFT v1 #104055 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4PZ9
- Type
- protein
- Length
- 420 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glucosyl-3-phosphoglycerate phosphatase
- EC
- 3.1.3.-, 3.1.3.70
- UniProt
- P9WIC6
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.-, 3.1.3.70) | protein | 212 | 42% helix, 19% strand | P9WIC6 |
| B | Glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.-, 3.1.3.70) | protein | 208 | 40% helix, 20% strand | P9WIC6 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 517 | 0.69 | 0.80 | 46 | empty |
| 2 | 330 | 0.64 | 0.80 | 35 | empty |
| 3 | 65 | 0.36 | 0.78 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 819 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 4PZ9 · The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase Rv2419c · the same entry in another collection · chain A against A, TM-score 1.00
- P9WIC6 · AlphaFold monomer V2.0 prediction for glucosyl-3-phosphoglycerate phosphatase (P9WIC6) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P9WIC6
- Elsewhere: RCSB PDB 4PZ9 · PDBe 4PZ9 · UniProt P9WIC6
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