ISDA

Deposition Date 2025-03-10

Release Date 2025-07-09

Last Version Date 2025-07-09

Entry Detail

PDB ID:

9QEO

Keywords:

RNA BINDING PROTEIN

Title:

Crystal structure of YTHDF2 in complex with compound 5 (AI-DF2-36)

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.98 Å

R-Value Free:

0.25

R-Value Work:

0.21

R-Value Observed:

0.21

Space Group:

P 65

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:YTH domain-containing family protein 2
Gene (Uniprot):YTHDF2
Chain IDs:A, B
Chain Length:167
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q9Y5A9 Pfam ID:PF04146

Ligand Molecules

A1I6E

GOL

SO4

Primary Citation

Discovery of YTHDF2 Ligands by Fragment-Based Design

Invernizzi, A, Nai, F, Bedi, R.K, Vargas-Rosales, P.A, Li, Y, Bochenkova, E, Herok, M, Zalesak, F, Caflisch, A, Liebschner, D, Afonine, P.V, Baker, M.L, Bunkoczi, G, Chen, V.B, Croll, T.I, Hintze, B, Hung, L.W, Jain, S, McCoy, A.J, Moriarty, N.W, Oeffner, R.D, Poon, B.K, Prisant, M.G, Read, R.J, Richardson, J.S, Richardson, D.C, Sammito, M.D, Sobolev, O.V, Stockwell, D.H, Terwilliger, T.C, Urzhumtsev, A.G, Videau, L.L, Williams, C.J, Adams, P.D.Show

Acs Bio Med Chem Au ? ? ? (2025)

DOI: 10.1021/acsbiomedchemau.5c00099

Primary Citation of related structures