Research workbench
Crystal structure of R134D mutant of ynaf (universal stress protein F) from salmonella typhimurium
Analyse Crystal structure of R134D mutant of ynaf (universal stress protein F) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4R2M
- Type
- protein
- Length
- 284 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Universal stress protein F
- UniProt
- P67091
- Ligands
- ANP, MG
- Pockets
- 2 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Universal stress protein F | protein | 142 | 42% helix, 21% strand | P67091 |
| B | Universal stress protein F | protein | 142 | 40% helix, 21% strand | P67091 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 354 | 0.68 | 0.81 | 51 | MG, ANP |
| 2 | 190 | 0.66 | 0.85 | 27 | MG, ANP |
Interfaces
1 interface between chains.
- A–B · 843 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 4R2M · Crystal Structure of R134D mutant of YnaF (Universal Stress Protein F) from Salmonella… · the same entry in another collection · chain A against A, TM-score 1.00
- P67091 · AlphaFold monomer V2.0 prediction for universal stress protein F (P67091) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 P67091
- Elsewhere: RCSB PDB 4R2M · PDBe 4R2M · UniProt P67091
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