4RDO

Structure of YTH-YTHDF2 in the free state


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.213 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structure of the YTH domain of human YTHDF2 in complex with an m(6)A mononucleotide reveals an aromatic cage for m(6)A recognition.

Li, F.Zhao, D.Wu, J.Shi, Y.

(2014) Cell Res. 24: 1490-1492


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
YTH domain-containing family protein 2
A, B, C, D, E, F
167Homo sapiensMutation(s): 0 
Gene Names: YTHDF2 (HGRG8)
Find proteins for Q9Y5A9 (Homo sapiens)
Go to Gene View: YTHDF2
Go to UniProtKB:  Q9Y5A9
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, C, D, E, F
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.213 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 139.280α = 90.00
b = 139.280β = 90.00
c = 112.950γ = 120.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
REFMACrefinement
MAR345dtbdata collection
PDB_EXTRACTdata extraction
SOLVEphasing
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-12-24
    Type: Initial release