5A7L

TP901-1 CI NTD (res 1-80)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.103 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural and Dynamics Studies of a Truncated Variant of Ci Repressor from Bacteriophage Tp901-1.

Rasmussen, K.K.Frandsen, K.E.H.Boeri Erba, E.Pedersen, M.Varming, A.K.Hammer, K.Kilstrup, M.Thulstrup, P.W.Blackledge, M.Jensen, M.R.Lo Leggio, L.

(2016) Sci.Rep. 6: 29574

  • DOI: 10.1038/srep29574

  • PubMed Abstract: 
  • The CI repressor from the temperate bacteriophage TP901-1 consists of two folded domains, an N-terminal helix-turn-helix DNA-binding domain (NTD) and a C-terminal oligomerization domain (CTD), which we here suggest to be further divided into CTD1 and ...

    The CI repressor from the temperate bacteriophage TP901-1 consists of two folded domains, an N-terminal helix-turn-helix DNA-binding domain (NTD) and a C-terminal oligomerization domain (CTD), which we here suggest to be further divided into CTD1 and CTD2. Full-length CI is a hexameric protein, whereas a truncated version, CI∆58, forms dimers. We identify the dimerization region of CI∆58 as CTD1 and determine its secondary structure to be helical both within the context of CI∆58 and in isolation. To our knowledge this is the first time that a helical dimerization domain has been found in a phage repressor. We also precisely determine the length of the flexible linker connecting the NTD to the CTD. Using electrophoretic mobility shift assays and native mass spectrometry, we show that CI∆58 interacts with the OL operator site as one dimer bound to both half-sites, and with much higher affinity than the isolated NTD domain thus demonstrating cooperativity between the two DNA binding domains. Finally, using small angle X-ray scattering data and state-of-the-art ensemble selection techniques, we delineate the conformational space sampled by CI∆58 in solution, and we discuss the possible role that the dynamics play in CI-repressor function.


    Organizational Affiliation

    Department of Chemistry, University of Copenhagen, Universitetsparken 5, Copenhagen, Denmark.,Univ. Grenoble Alpes, CNRS, CEA, Institut de Biologie Structurale, Grenoble, France.,Department of Biology, University of Copenhagen, Ole Maaløes vej 5, DK-2200 Copenhagen N, Denmark.,Metabolic signalling and regulation, Department of Systems Biology, Technical University of Denmark, DK-2800 Lyngby, Denmark.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CI
A
80Lactococcus phage TP901-1Mutation(s): 1 
Gene Names: cI
Find proteins for O48503 (Lactococcus phage TP901-1)
Go to UniProtKB:  O48503
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.103 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.216 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 53.720α = 90.00
b = 36.010β = 90.00
c = 38.770γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-07-27
    Type: Initial release