Research workbench
Crystal structure of aminoimidazole riboside kinase from salmonella enterica complexed with aminoimidazole riboside and ATP analog
Analyse Crystal structure of aminoimidazole riboside kinase from salmonella enterica… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1TZ6
- Type
- protein
- Length
- 594 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative sugar kinase
- EC
- 2.7.1.4
- UniProt
- Q8ZKR2
- Ligands
- ACP, AIS, K, MG
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative sugar kinase (EC 2.7.1.4) | protein | 297 | 41% helix, 25% strand | Q8ZKR2 |
| B | Putative sugar kinase (EC 2.7.1.4) | protein | 297 | 42% helix, 23% strand | Q8ZKR2 |
Ligands and binding sites
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · 2 copies · chains A, B
- AIS · 5-aminoimidazole ribonucleoside · ligand · chains A
- K · Potassium ion · metal · 4 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 587 | 0.72 | 0.80 | 83 | MG, ACP, AIS |
| 2 | 527 | 0.69 | 0.79 | 75 | MG, ACP |
| 3 | 54 | 0.45 | 0.84 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 794 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 1TZ6 · Crystal structure of aminoimidazole riboside kinase from Salmonella enterica complexed… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8ZKR2 · AlphaFold monomer V2.0 prediction for aminoimidazole riboside kinase (Q8ZKR2) · 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 Q8ZKR2
- Elsewhere: RCSB PDB 1TZ6 · PDBe 1TZ6 · UniProt Q8ZKR2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.