1WRT

NMR STUDY OF APO TRP REPRESSOR


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 15 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Refined solution structures of the Escherichia coli trp holo- and aporepressor.

Zhao, D.Arrowsmith, C.H.Jia, X.Jardetzky, O.

(1993) J.Mol.Biol. 229: 735-746

  • DOI: 10.1006/jmbi.1993.1076
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The solution structures of the trp-repressor from Escherichia coli in both the liganded (holo-) and unliganded (apo-) form, have been refined by restrained molecular dynamics with simulated annealing using the program XPLOR and additional experimenta ...

    The solution structures of the trp-repressor from Escherichia coli in both the liganded (holo-) and unliganded (apo-) form, have been refined by restrained molecular dynamics with simulated annealing using the program XPLOR and additional experimental constraints. The ensemble of refined holorepressor structures have a root-mean-square deviation (r.m.s.d.) of 0.8 A relative to the average structure for the backbone of the dimer core (helices A, B, C, A', B', C') and 2.5 A for the helix-turn-helix DNA-binding domain (helices D and E). The corresponding values for the aporepressor are 0.9 A for the backbone of the ABC-dimer core and 3.2 A for the DE helix-turn-helix. The r.m.s.d. of the average structures from the corresponding crystal structures are 2.3 A for the holorepressor ABC core and 4.2 A for its DE region; 2.3 A for the aporepressor core and 5.5 A for its DE region. The relative disorder of the DNA-binding domain is reflected in a number of experimental parameters including substantially more rapid backbone proton exchange rates, exchange-limited relaxation times and crystallographic B-factors. The stabilizing effect of the L-Trp ligand is evident in these measurements, as it is in the higher precision of the holorepressor structure.


    Related Citations: 
    • Sequence-Specific 1H NMR Assignments and Secondary Structure in Solution of Escherichia Coli Trp Repressor
      Arrowsmith, C.H.,Pachter, R.,Altman, R.B.,Iyer, S.B.,Jardetzky, O.
      (1990) Biochemistry 29: 6332
    • Sequential Simulated Annealing: An Efficient Procedure for Structural Refinement Based on NMR Constraints
      Zhao, D.,Jardetzky, O.
      (1993) J.Phys.Chem. 97: 3007
    • The Solution Structures of the Trp Repressor-Operator DNA Complex
      Zhang, H.,Zhao, D.,Revington, M.,Lee, W.,Jia, X.,Arrowsmith, C.,Jardetzky, O.
      (1994) J.Mol.Biol. 238: 592
    • The Solution Structures of Escherichia Coli Trp Repressor and Trp Aporepressor at an Intermediate Resolution
      Arrowsmith, C.,Pachter, R.,Altman, R.,Jardetzky, O.
      (1991) Eur.J.Biochem. 202: 53
    • NMR Assignments for the Amino-Terminal Residues of Trp Repressor and Their Role in DNA Binding
      Arrowsmith, C.H.,Carey, J.,Treat-Clemons, L.,Jardetzky, O.
      (1989) Biochemistry 28: 3875


    Organizational Affiliation

    Stanford Magnetic Resonance Laboratory, Stanford University, CA 94305-5055.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
APO TRP REPRESSOR
R, S
105Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: trpR (rtrY)
Find proteins for P0A881 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A881
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 15 
  • Olderado: 1WRT Olderado
Software Package:
Software NamePurpose
X-PLORphasing
X-PLORrefinement
X-PLORmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1995-05-12 
  • Released Date: 1996-06-20 
  • Deposition Author(s): Zhao, D., Zheng, Z.

Revision History 

  • Version 1.0: 1996-06-20
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance