5M9N

Crystal structure of human TDRD1 extended Tudor domain in complex with a symmetrically dimethylated E2F peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of human TDRD1 extended Tudor domain in complex with a symmetrically dimethylated E2F peptide

Tallant, C.Savitsky, P.Moehlenbrink, J.Chan, C.Nunez-Alonso, G.Newman, J.A.von Delft, F.Arrowsmith, C.H.Edwards, A.M.Bountra, C.Fedorov, O.La Thangue, N.B.Knapp, S.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tudor domain-containing protein 1
A, B
220Homo sapiensMutation(s): 0 
Gene Names: TDRD1
Find proteins for Q9BXT4 (Homo sapiens)
Go to Gene View: TDRD1
Go to UniProtKB:  Q9BXT4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
E2F peptide
C
17Homo sapiensMutation(s): 0 
Gene Names: E2F1 (RBBP3)
Find proteins for Q01094 (Homo sapiens)
Go to Gene View: E2F1
Go to UniProtKB:  Q01094
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A, B
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
2MR
Query on 2MR

Download SDF File 
Download CCD File 
B
N3, N4-DIMETHYLARGININE
C8 H18 N4 O2
HVPFXCBJHIIJGS-LURJTMIESA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
2MR
Query on 2MR
C
L-PEPTIDE LINKINGC8 H18 N4 O2ARG
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.212 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 42.910α = 64.94
b = 52.962β = 88.85
c = 59.619γ = 67.67
Software Package:
Software NamePurpose
Aimlessdata scaling
XDSdata reduction
PHASERphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2016-11-16
    Type: Initial release