Issue October 2001

category image Volume 19
No. 2 (p 193-364)
October 2001
ISSN 0739-1102

Solution Structure, Hydrodynamics and Thermodynamics of the UvrB C-terminal Domain (p. 219-236)

The solution structure, thermodynamic stability and hydrodynamic properties of the 55-residue C-terminal domain of UvrB that interacts with UvrC during excision repair in E. coli have been determined using a combination of high resolution NMR, ultracentrifugation, 15N NMR relaxation, gel permeation, NMR diffusion, circular dichroism and differential scanning calorimetry. The subunit molecular weight is 7,438 kDa., compared with 14.5±1.0 kDa. determined by equilibrium sedimentation, indicating a dimeric structure. The structure determined from NMR showed a stable dimer of anti-parallel helical hairpins that associate in an unusual manner, with a small and hydrophobic interface. The Stokes radius of the protein decreases from a high plateau value (ca. 22 Å) at protein concentrations greater than 4 µM to about 18 Å at concentrations less than 0.1 µM. The concentration and temperature-dependence of the far UV circular dichroism show that the protein is thermally stable (Tm ca. 71.5 °C at 36 µM). The simplest model consistent with these data was a dimer dissociating into folded monomers that then unfolds co-operatively. The van't Hoff enthalpy and dissociation constant for both transition was derived by fitting, with ΔH1=23 kJ mol-1, K1(298)=0.4 µM and ΔH2= 184 kJ mol-1. This is in good agreement with direct calorimetric analysis of the thermal unfolding of the protein, which gave a calorimetric enthalpy change of 181 kJ mol-1 and a van't Hoff enthalpy change of 354 kJ mol-1, confirming the dimer to monomer unfolding. The thermodynamic data can be reconciled with the observed mode of dimerization. 15N NMR relaxation measurements at 14.1 T and 11.75 T confirmed that the protein behaves as an asymmetric dimer at mM concentrations, with a flexible N-terminal linker for attachment to the remainder of the UvrB protein. The role of dimerisation of this domain in the excision repair mechanism is discussed.

Alexander Alexandrovich1
Michael Czisch2
Thomas A. Frenkiel3
Geoffrey P. Kelly3
Nora Goosen4
Geri F. Moolenaar4
Babur Z. Chowdhry5
Mark R. Sanderson1*
Andrew N. Lane6**

1Randall Centre
New Hunt?s House
King?s College
London SE1 1UL, UK.
2Bijvoet Center
Utrecht University
Padualaan 8
SON NMR Large-Scale Facility
NL-3584 CH, Utrecht
The Netherlands.
3Biomedical NMR Centre
National Institute for Medical Research The Ridgeway Mill Hill, London NW7 1AA, UK
4Gorlaeus Laboratories
Leiden University
Postbus 9502, 2300
RA Leiden, The Netherlands
5Chemical and Life Sciences
University of Greenwich Woolwich, London SE18 6PF, UK
6Molecular Structure
National Institute for Medical Research
The Ridgeway
Mill Hill, London NW7 1AA, UK.

Current address:
2MPl fur Psychiatrie
AG NMR, Kraepelinstr. 2-10
D-80804, Munchen, Germany.
*mark.sanderson@kcl.ac.uk
**alane@nimr.mrc.ac.uk

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