5ZHU

Crystal structure of the DNA-binding domain of human myelin-gene regulatory factor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.202 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.228 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of the DNA-binding domain of human myelin-gene regulatory factor reveals its potential protein-DNA recognition mode.

Chen, B.Zhu, Y.Ye, S.Zhang, R.

(2018) J. Struct. Biol. 203: 170-178

  • DOI: 10.1016/j.jsb.2018.04.007
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Myelin-gene regulatory factor (MYRF) is a membrane-bound transcription factors, which is responsible for the differentiation of oligodendrocytes and myelination of central nervous system. Followed by a self-cleavage by the intramolecular chaperone au ...

    Myelin-gene regulatory factor (MYRF) is a membrane-bound transcription factors, which is responsible for the differentiation of oligodendrocytes and myelination of central nervous system. Followed by a self-cleavage by the intramolecular chaperone auto-processing (ICA) domain, DNA-binding domain (DBD) of MYRF is released from the endoplasmic reticulum (ER) and translocated to the nucleus to regulate gene expression. In present work, we have solved the crystal structure of the human MYRF-DBD to 1.85-Å resolution. It exhibits a typical s-type Ig-fold and packs as symmetric trimeric form in the crystal via hydrogen-bond networks in three regions. Accordingly, we identified a couple of key residues on MYRF-DBD, which might play important roles in DNA-binding, in particular Arg521 on its C-terminal tail. The R521A mutant of DBD only showed 17% affinity to dsDNA targets compared to wild-type DBD. Then we built a plausible protein-DNA binding model of MYRF-DBD, which will help to elucidate its mechanism in DNA-binding and transcriptional regulation.


    Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, People's Republic of China; University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Myelin regulatory factor
A, B, C
183Homo sapiensMutation(s): 0 
Gene Names: MYRF (C11orf9, KIAA0954, MRF)
EC: 3.4.-.-
Find proteins for Q9Y2G1 (Homo sapiens)
Go to Gene View: MYRF
Go to UniProtKB:  Q9Y2G1
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.202 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.228 
  • Space Group: P 3
Unit Cell:
Length (Å)Angle (°)
a = 107.414α = 90.00
b = 107.414β = 90.00
c = 48.432γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
PHENIXphasing
PHENIXrefinement
HKL-3000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-05-23
    Type: Initial release
  • Version 1.1: 2018-07-04
    Type: Data collection, Database references