1OUZ

Crystal structure of a mutant IHF (BetaE44A) complexed with a variant H' Site (T44A)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.241 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Integration Host Factor: putting a twist on protein-DNA recognition

Lynch, T.W.Read, E.K.Mattis, A.N.Gardner, J.F.Rice, P.A.

(2003) J.Mol.Biol. 330: 493-502

  • Primary Citation of Related Structures:  1OWF, 1OWG

  • PubMed Abstract: 
  • Integration host factor (IHF) is a DNA-bending protein that recognizes its cognate sites through indirect readout. Previous studies have shown that binding of wild-type (WT)-IHF is disrupted by a T to A mutation at the center position of a conserved ...

    Integration host factor (IHF) is a DNA-bending protein that recognizes its cognate sites through indirect readout. Previous studies have shown that binding of wild-type (WT)-IHF is disrupted by a T to A mutation at the center position of a conserved TTR motif in its binding site, and that substitution of betaGlu44 with Ala prevented IHF from discriminating between A and T at this position. We have determined the crystal structures and relative binding affinities for all combinations of WT-IHF and IHF-betaGlu44Ala bound to the WT and mutant DNAs. Comparison of these structures reveals that DNA twist plays a major role in DNA recognition by IHF, and that this geometric parameter is dependent on the dinucleotide step and not on the bound IHF variant.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, The University of Chicago, 920 E 58th Street CLSC 221, Chicago, IL 60637, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Integration Host Factor Alpha-subunit
A
99Escherichia coli (strain K12)Gene Names: ihfA (hid, himA)
Find proteins for P0A6X7 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A6X7
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Integration Host Factor Beta-subunit
B
94Escherichia coli (strain K12)Gene Names: ihfB (himD, hip)
Find proteins for P0A6Y1 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A6Y1
Entity ID: 1
MoleculeChainsLengthOrganism
Phage lambda H' siteC35N/A
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*GP*GP*CP*CP*AP*AP*AP*AP*AP*AP*GP*CP*AP*TP*T)-3'D15N/A
Entity ID: 3
MoleculeChainsLengthOrganism
5'-D(*GP*CP*TP*TP*AP*TP*CP*AP*AP*TP*TP*TP*GP*TP*AP*GP*CP*AP*CP*C)-3'E20N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.241 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 46.799α = 90.00
b = 60.107β = 90.00
c = 181.179γ = 90.00
Software Package:
Software NamePurpose
CNSphasing
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-07-15
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance