4Q2J

A novel structure-based mechanism for DNA-binding of SATB1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.603 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.228 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of the ubiquitin-like domain-CUT repeat-like tandem of special AT-rich sequence binding protein 1 (SATB1) reveals a coordinating DNA-binding mechanism.

Wang, Z.Yang, X.Guo, S.Yang, Y.Su, X.C.Shen, Y.Long, J.

(2014) J.Biol.Chem. 289: 27376-27385

  • DOI: 10.1074/jbc.M114.562314

  • PubMed Abstract: 
  • SATB1 is essential for T-cell development and growth and metastasis of multitype tumors and acts as a global chromatin organizer and gene expression regulator. The DNA binding ability of SATB1 plays vital roles in its various biological functions. We ...

    SATB1 is essential for T-cell development and growth and metastasis of multitype tumors and acts as a global chromatin organizer and gene expression regulator. The DNA binding ability of SATB1 plays vital roles in its various biological functions. We report the crystal structure of the N-terminal module of SATB1. Interestingly, this module contains a ubiquitin-like domain (ULD) and a CUT repeat-like (CUTL) domain (ULD-CUTL tandem). Detailed biochemical experiments indicate that the N terminus of SATB1 (residues 1-248, SATB1((1-248))), including the extreme 70 N-terminal amino acids, and the ULD-CUTL tandem bind specifically to DNA targets. Our results show that the DNA binding ability of full-length SATB1 requires the contribution of the CUTL domain, as well as the CUT1-CUT2 tandem domain and the homeodomain. These findings may reveal a multiple-domain-coordinated mechanism whereby SATB1 recognizes DNA targets.


    Organizational Affiliation

    the State Key Laboratory of Elemento-organic Chemistry, Nankai University and.,From the State Key Laboratory of Medicinal Chemical Biology.,From the State Key Laboratory of Medicinal Chemical Biology, the College of Life Sciences, and jflong@nankai.edu.cn.,From the State Key Laboratory of Medicinal Chemical Biology, the College of Life Sciences, and.,From the State Key Laboratory of Medicinal Chemical Biology, the College of Life Sciences, and the Synergetic Innovation Center of Chemical Science and Engineering, Tianjin 300071, China shenyuequan@gmail.com.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA-binding protein SATB1
A, B, C, D
180Mus musculusMutation(s): 0 
Gene Names: Satb1
Find proteins for Q60611 (Mus musculus)
Go to UniProtKB:  Q60611
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.603 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.228 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 128.978α = 90.00
b = 91.971β = 128.97
c = 100.239γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data reduction
MAR345dtbdata collection
HKL-2000data scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-03-11
    Type: Initial release