Research workbench
Crystal structure of YTHDF2 with compound YLI_DC1_008
Analyse Crystal structure of YTHDF2 with compound YLI_DC1_008 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7Z5M
- Type
- protein
- Length
- 296 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9Y5A9
- Ligands
- 5ZK, SO4, CL
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 148 | — | Q9Y5A9 |
| B | — | protein | 148 | — | Q9Y5A9 |
Ligands and binding sites
- 5ZK · ~{N},3-dimethyl-1~{H}-pyrazolo[4,3-d]pyrimidin-7-amine · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 3 copies · chains A
- CL · Chloride ion · ion · 3 copies · chains A, B
- GOL · Glycerol · additive · 7 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7Z5M · Crystal structure of YTHDF2 with compound YLI_DC1_008 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y5A9 · AlphaFold monomer V2.0 prediction for yth domain-containing family protein 2 (Q9Y5A9) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 Q9Y5A9
- Elsewhere: RCSB PDB 7Z5M · PDBe 7Z5M · UniProt Q9Y5A9
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