MolNFT v1 · #30798 · protein
Crystal structure of T. gondii adenosine kinase complexed with N6- dimethyladenosine and AMP-pcp
2A9Z: “Crystal structure of T. gondii adenosine kinase complexed with N6- dimethyladenosine and AMP-pcp”. X-ray diffraction, 4 ligands (26A, ACP, NA), 3 pockets (best druggability 0.73). MolNFT v1 #30798 on GenesisL1: 3D structure, binding…
- PDB
- 2A9Z
- Type
- protein
- Length
- 351 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenosine kinase
- EC
- 2.7.1.20
- UniProt
- Q9TVW2
- Ligands
- 26A, ACP, NA, CL
- Pockets
- 3 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenosine kinase (EC 2.7.1.20) | protein | 351 | 41% helix, 23% strand | Q9TVW2 |
Ligands and binding sites
- 26A · 6N-dimethyladenosine · ligand · 2 copies · chains A
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains A
- NA · Sodium ion · metal · 2 copies · chains A
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 538 | 0.73 | 0.81 | 57 | CL, 26A, ACP |
| 2 | 82 | 0.45 | 0.81 | 21 | empty |
| 3 | 53 | 0.35 | 0.79 | 19 | empty |
Compared structures
- 2A9Z · Crystal structure of T. gondii adenosine kinase complexed with N6-dimethyladenosine and… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9TVW2 · AlphaFold monomer V2.0 prediction for adenosine kinase (Q9TVW2) · 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 Q9TVW2
- Elsewhere: RCSB PDB 2A9Z · PDBe 2A9Z · UniProt Q9TVW2
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