Research workbench
Crystal structure of salmonella typhimurium propionate kinase A88V mutant, in complex with amppnp and propionate
Analyse Crystal structure of salmonella typhimurium propionate kinase A88V mutant, in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4XH4
- Type
- protein
- Length
- 394 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Propionate kinase
- EC
- 2.7.2.15
- UniProt
- O06961
- Ligands
- ANP, SO4
- Pockets
- 4 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Propionate kinase (EC 2.7.2.15) | protein | 394 | 44% helix, 20% strand | O06961 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
- GOL · Glycerol · additive · chains A
- PPI · Propanoic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 320 | 0.57 | 0.76 | 32 | PPI |
| 2 | 136 | 0.40 | 0.74 | 20 | empty |
| 3 | 55 | 0.27 | 0.74 | 17 | empty |
| 4 | 61 | 0.26 | 0.72 | 19 | empty |
Compared structures
- 4XH4 · Crystal structure of Salmonella typhimurium propionate kinase A88V mutant, in complex… · the same entry in another collection · chain A against A, TM-score 1.00
- O06961 · AlphaFold monomer V2.0 prediction for propionate kinase (O06961) · a predicted model of the same protein · 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 O06961
- Elsewhere: RCSB PDB 4XH4 · PDBe 4XH4 · UniProt O06961
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