MolNFT v1 · #90379 · protein
An X-ray structure of a putative phosphogylcerate kinase from francisella tularensis subsp. tularensis schu S4
4EHJ · Phosphoglycerate kinase: “An X-ray structure of a putative phosphogylcerate kinase from francisella tularensis subsp. tularensis schu S4”. X-ray diffraction, 1 ligand (SO4), 7 pockets (best druggability 0.50). MolNFT v1 #90379 on…
- PDB
- 4EHJ
- Type
- protein
- Length
- 780 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoglycerate kinase
- EC
- 2.7.2.3
- UniProt
- Q5NF76
- Ligands
- SO4
- Pockets
- 7 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Phosphoglycerate kinase (EC 2.7.2.3) | protein | 390 | 43% helix, 17% strand | Q5NF76 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 121 | 0.50 | 0.80 | 20 | empty |
| 2 | 114 | 0.50 | 0.81 | 20 | empty |
| 3 | 91 | 0.47 | 0.81 | 27 | empty |
| 4 | 86 | 0.44 | 0.80 | 27 | SO4 |
| 5 | 73 | 0.38 | 0.77 | 14 | empty |
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 4EHJ · An X-ray Structure of a Putative Phosphogylcerate Kinase from Francisella tularensis… · the same entry in another collection · chain A against A, TM-score 1.00
- Q5NF76 · AlphaFold monomer V2.0 prediction for phosphoglycerate kinase (Q5NF76) · a predicted model of the same protein · chain A 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 Q5NF76
- Elsewhere: RCSB PDB 4EHJ · PDBe 4EHJ · UniProt Q5NF76
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