1BYM

SOLUTION STRUCTURES OF THE C-TERMINAL DOMAIN OF DIPHTHERIA TOXIN REPRESSOR


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: NO NOE DISTANCE VIOLATION GREATER THAN 0.35 A, NO DIHEDRAL ANGLE RESTRAINT VIOLATION GREATER THAN 5 DEG, RMS DIFFERENCE FOR BOND DEVIATIONS FROM IDEALITY LESS THAN 0.01 A, RMS DIFFERENCE FOR ANGLE DEVIATIONS FROM IDEALITY LESS THAN 2 DEG, LOWEST TOTAL ENERGY 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Solution structure and peptide binding studies of the C-terminal src homology 3-like domain of the diphtheria toxin repressor protein.

Wang, G.Wylie, G.P.Twigg, P.D.Caspar, D.L.Murphy, J.R.Logan, T.M.

(1999) Proc Natl Acad Sci U S A 96: 6119-6124

  • DOI: 10.1073/pnas.96.11.6119
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The diphtheria toxin repressor (DtxR) is the best-characterized member of a family of homologous proteins that regulate iron uptake and virulence gene expression in the Gram-positive bacteria. DtxR contains two domains that are separated by a short, ...

    The diphtheria toxin repressor (DtxR) is the best-characterized member of a family of homologous proteins that regulate iron uptake and virulence gene expression in the Gram-positive bacteria. DtxR contains two domains that are separated by a short, unstructured linker. The N-terminal domain is structurally well-defined and is responsible for Fe2+ binding, dimerization, and DNA binding. The C-terminal domain adopts a fold similar to eukaryotic Src homology 3 domains, but the functional role of the C-terminal domain in repressor activity is unknown. The solution structure of the C-terminal domain, consisting of residues N130-L226 plus a 13-residue N-terminal extension, has been determined by using NMR spectroscopy. Residues before A147 are highly mobile and adopt a random coil conformation, but residues A147-L226 form a single structured domain consisting of five beta-strands and three helices arranged into a partially orthogonal, two-sheet beta-barrel, similar to the structure observed in the crystalline Co2+ complex of full-length DtxR. Chemical shift perturbation studies demonstrate that a proline-rich peptide corresponding to residues R125-G139 of intact DtxR binds to the C-terminal domain in a pocket formed by residues in beta-strands 2, 3, and 5, and helix 3. Binding of the proline-rich peptide by the C-terminal domain of DtxR presents an example of peptide binding by a prokaryotic Src homology 3-like protein. The results of this study, combined with previous x-ray studies of intact DtxR, provide insights into a possible biological function of the C-terminal domain in regulating repressor activity.


    Organizational Affiliation

    Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (DIPHTHERIA TOXIN REPRESSOR)
A
97Corynebacterium diphtheriaeMutation(s): 0 
Gene Names: dtxR
Find proteins for P0DJL7 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis))
Go to UniProtKB:  P0DJL7
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: NO NOE DISTANCE VIOLATION GREATER THAN 0.35 A, NO DIHEDRAL ANGLE RESTRAINT VIOLATION GREATER THAN 5 DEG, RMS DIFFERENCE FOR BOND DEVIATIONS FROM IDEALITY LESS THAN 0.01 A, RMS DIFFERENCE FOR ANGLE DEVIATIONS FROM IDEALITY LESS THAN 2 DEG, LOWEST TOTAL ENERGY 
  • OLDERADO: 1BYM Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-10-21
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance