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The crystal structure of phosphoribosylglycinamide formyltransferase from campylobacter jejuni subsp. jejuni nctc 11168
Analyse The crystal structure of phosphoribosylglycinamide formyltransferase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CJJ
- Type
- protein
- Length
- 377 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoribosylglycinamide formyltransferase
- EC
- 2.1.2.2
- UniProt
- Q0PBV2
- Ligands
- SO4, CL
- Pockets
- 4 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) | protein | 187 | 35% helix, 24% strand | Q0PBV2 |
| B | Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) | protein | 190 | 35% helix, 26% strand | Q0PBV2 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains B
- CL · Chloride ion · ion · chains A
- GOL · Glycerol · additive · chains A
- PEG · Di(hydroxyethyl)ether · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 299 | 0.61 | 0.79 | 41 | SO4 |
| 2 | 259 | 0.59 | 0.79 | 29 | CL |
| 3 | 81 | 0.34 | 0.75 | 14 | empty |
| 4 | 62 | 0.28 | 0.73 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 650 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 5CJJ · The crystal structure of phosphoribosylglycinamide formyltransferase from Campylobacter… · the same entry in another collection · 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 Q0PBV2
- Elsewhere: RCSB PDB 5CJJ · PDBe 5CJJ · UniProt Q0PBV2
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