Research workbench
ATP phosphoribosyltransferase (HisZG ATPPRT) from Psychrobacter arcticus in complex with PRATP
Analyse ATP phosphoribosyltransferase (HisZG ATPPRT) from Psychrobacter arcticus in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6FU7
- Type
- protein
- Length
- 1,167 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.31
- Source
- Psychrobacter arcticus (strain DSM 17307 / 273-4)
- Molecule
- ATP phosphoribosyltransferase regulatory subunit; ATP phosphoribosyltransferase
- EC
- 2.4.2.17
- UniProt
- Q4FTX3, Q4FQF7
- Ligands
- PRT, MG, CL
- Pockets
- 16 · best druggability 0.84
Structure
x-ray diffraction · resolution 2.31 · 4 distinct chains · 38% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP phosphoribosyltransferase regulatory subunit | protein | 376 | 42% helix, 22% strand | Q4FTX3 |
| B | ATP phosphoribosyltransferase regulatory subunit | protein | 378 | 41% helix, 23% strand | Q4FTX3 |
| C | ATP phosphoribosyltransferase (EC 2.4.2.17) | protein | 206 | 33% helix, 33% strand | Q4FQF7 |
| D | ATP phosphoribosyltransferase (EC 2.4.2.17) | protein | 207 | 32% helix, 33% strand | Q4FQF7 |
Ligands and binding sites
- PRT · Phosphoribosyl atp · ligand · 2 copies · chains C, D
- MG · Magnesium ion · metal · chains B
- CL · Chloride ion · ion · 3 copies · chains B, C, D
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 688 | 0.84 | 0.88 | 102 | CL, MG |
| 2 | 1179 | 0.76 | 0.78 | 108 | PRT |
| 3 | 560 | 0.75 | 0.83 | 57 | empty |
| 4 | 320 | 0.72 | 0.85 | 48 | empty |
| 5 | 50 | 0.71 | 0.99 | 16 | empty |
Interfaces
5 interfaces between chains.
- A–B · 3188 Ų buried · 41 hydrogen bonds · protein-protein
- C–D · 1267 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 693 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 350 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 43 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6FU7 · ATP phosphoribosyltransferase (hiszg atpprt) from psychrobacter arcticus in complex with… · the same entry in another collection · chain D against D, TM-score 1.00
- Q4FQF7 · AlphaFold monomer V2.0 prediction for ATP phosphoribosyltransferase (Q4FQF7) · a predicted model of the same protein · chain D against A, TM-score 0.99
- Q4FTX3 · AlphaFold monomer V2.0 prediction for ATP phosphoribosyltransferase regulatory subunit… · 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 Q4FTX3
- Every structure of UniProt Q4FQF7
- Elsewhere: RCSB PDB 6FU7 · PDBe 6FU7 · UniProt Q4FTX3 · UniProt Q4FQF7
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