Research workbench
Structure of M. tuberculosis CysQ, a PAP phosphatase with PO4 and 2Ca bound
Analyse Structure of M. tuberculosis CysQ, a PAP phosphatase with PO4 and 2Ca bound in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DJK
- Type
- protein
- Length
- 251 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.799
- Source
- Mycobacterium tuberculosis
- Molecule
- 3'-phosphoadenosine 5'-phosphate phosphatase
- EC
- 3.1.3.7, 3.1.3.11, 3.1.3.25
- UniProt
- P9WKJ0
- Ligands
- CA, NA, PO4
- Pockets
- 3 · best druggability 0.38
Structure
x-ray diffraction · resolution 1.799 · 1 distinct chain · 38% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 3'-phosphoadenosine 5'-phosphate phosphatase (EC 3.1.3.7, 3.1.3.11, 3.1.3.25) | protein | 251 | 38% helix, 23% strand | P9WKJ0 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- PO4 · Phosphate ion · ion · chains A
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 | 142 | 0.38 | 0.73 | 22 | CA, PO4 |
| 2 | 50 | 0.33 | 0.78 | 12 | empty |
| 3 | 51 | 0.33 | 0.78 | 14 | empty |
Compared structures
- 5DJK · Structure of M. tuberculosis cysq, a pap phosphatase with PO4 and 2CA bound · the same entry in another collection · chain A against A, TM-score 1.00
- P9WKJ0 · AlphaFold monomer V2.0 prediction for 3'-phosphoadenosine 5'-phosphate phosphatase… · a predicted model of the same protein · chain A 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 P9WKJ0
- Elsewhere: RCSB PDB 5DJK · PDBe 5DJK · UniProt P9WKJ0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.