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J. Biol. Chem., Vol. 276, Issue 6, 4433-4440, February 9, 2001
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Binds and Organizes Escherichia coli Replication
Proteins through Distinct Domains
TO DETERMINE
CANDIDATE DOMAINS AND TO ASSIGN DOMAIN V AS THE
BINDING
DOMAIN*
From the Department of Biochemistry and Molecular Genetics and
Program in Molecular Biology, University of Colorado Health Sciences
Center, Denver, Colorado 80262
The
subunit dimerizes Escherichia
coli DNA polymerase III core through interactions with the
subunit. In addition to playing critical roles in the structural
organization of the holoenzyme,
mediates intersubunit
communications required for efficient replication fork function. We
identified potential structural domains of this multifunctional subunit
by limited proteolysis of C-terminal biotin-tagged
proteins. The
cleavage sites of each of eight different proteases were found to be
clustered within four regions of the
subunit. The second
susceptible region corresponds to the hinge between domain II and III
of the highly homologous
' subunit, and the third region is near the
C-terminal end of the
-
' alignment (Guenther, B., Onrust, R.,
Sali, A., O'Donnell, M., and Kuriyan, J. (1997) Cell 91, 335-345). We propose a five-domain structure for the
protein.
Domains I and II are based on the crystallographic structure of
' by
Guenther and colleagues. Domains III-V are based on our protease
cleavage results. Using this information, we expressed biotin-tagged
proteins lacking specific protease-resistant domains and analyzed
their binding to the
subunit by surface plasmon resonance. Results
from these studies indicated that the
binding site of
lies
within its C-terminal 147 residues (domain V).
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