1EXE

SOLUTION STRUCTURE OF A MUTANT OF TRANSCRIPTION FACTOR 1.


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 23 
  • Selection Criteria: structures with acceptable covalent geometry,structures with the least restraint violations,structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Solution structure of a mutant of transcription factor 1: implications for enhanced DNA binding.

Liu, W.Vu, H.M.Geiduschek, E.P.Kearns, D.R.

(2000) J.Mol.Biol. 302: 821-830

  • DOI: 10.1006/jmbi.2000.4084

  • PubMed Abstract: 
  • An NMR solution structure of a mutant of the homodimer protein transcription factor 1, TF1-G15/I32 (22 kDa), has been solved to atomic resolution, with 23 final structures that converge to an r.m. s.d. of 0.78 A. The overall shape of TF1-G15/I32 rema ...

    An NMR solution structure of a mutant of the homodimer protein transcription factor 1, TF1-G15/I32 (22 kDa), has been solved to atomic resolution, with 23 final structures that converge to an r.m. s.d. of 0.78 A. The overall shape of TF1-G15/I32 remains similar to that of the wild-type protein and other type II DNA-binding proteins. Each monomer has two N-terminal alpha-helices separated by a short loop, followed by a three-stranded beta-sheet, whose extension between the second and third beta-strands forms an antiparallel beta-ribbon arm, leading to a C-terminal third alpha-helix that is severely kinked in the middle. Close examination of the structure of TF1-G15/I32 reveals why it is more stable and binds DNA more tightly than does its wild-type counterpart. The dimeric core, consisting of the N-terminal helices and the beta-sheets, is more tightly packed, and this might be responsible for its increased thermal stability. The DNA-binding domain, composed of the top face of the beta-sheet, the beta-ribbon arms and the C-terminal helices, is little changed from wild-type TF1. Rather, the enhancement in DNA affinity must be due almost exclusively to the creation of an additional DNA-binding site at the side of the dimer by changes affecting helices 1 and 2: helix 2 of TF1-G15/I32 is one residue longer than helix 2 of the wild-type protein, bends inward, and is both translationally and rotationally displaced relative to helix 1. This rearrangement creates a longer, narrower fissure between the V-shaped N-terminal helices and exposes additional positively charged surface at each side of the dimer.


    Related Citations: 
    • Mechanisms for the Enhanced Thermal Stability of a Mutant of Transcription Factor 1 as Explained by 1H, 15N and 13C NMR Chemical Shifts and Secondary Structure Analysis.
      Vu, H.M.,Liu, W.,Grove, A.,Geiduschek, E.P.,Kearns, D.R.
      (2000) BIOCHIM.BIOPHYS.ACTA 1478: 113
    • Structure of the Bacillus subtilis phage SPO1-encoded Type II DNA-binding Protein TF1 in Solution.
      Jia, X.,Grove, A.,Ivancic, M.,Hsu, V.L.,Geiduschek, E.P.,Kearns, D.R.
      (1996) J.Mol.Biol. 263: 259


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of California, at San Diego, La Jolla, CA 92093, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TRANSCRIPTION FACTOR 1
A, B
99Bacillus phage SP01Mutation(s): 2 
Gene Names: TF1
Find proteins for P04445 (Bacillus phage SP01)
Go to UniProtKB:  P04445
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 23 
  • Selection Criteria: structures with acceptable covalent geometry,structures with the least restraint violations,structures with the lowest energy 
  • Olderado: 1EXE Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-10-18
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance