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Nucleic Acids Research Advance Access published online on February 16, 2008

Nucleic Acids Research, doi:10.1093/nar/gkm1152
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.


Nucleic Acid Enzymes

Saccharomyces cerevisiae Mus81-Mms4 is a catalytic, DNA structure-selective endonuclease

Kirk Tevebaugh Ehmsen1 and Wolf-Dietrich Heyer1,2,*

1Section of Microbiology and 2Section of Molecular and Cellular Biology, University of California Davis, Davis, CA 95616-8665, USA

*To whom correspondence should be addressed. Tel: 530-752-3001; Fax: 530-752-3011; Email: wdheyer{at}ucdavis.edu

Received October 2, 2007. Revised December 7, 2007. Accepted December 12, 2007.

The DNA structure-selective endonuclease Mus81-Mms4/Eme1 is a context-specific recombination factor that supports DNA replication, but is not essential for DSB repair in Saccharomyces cerevisiae. We overexpressed Mus81-Mms4 in S. cerevisiae, purified the heterodimer to apparent homogeneity, and performed a classical enzymological characterization. Kinetic analysis (kcat, KM) demonstrated that Mus81-Mms4 is catalytically active and identified three substrate classes in vitro. Class I substrates reflect low KM (3–7 nM) and high kcat (~1 min–1) and include the nicked Holliday junction, 3'-flapped and replication fork-like structures. Class II substrates share low KM (1–6 nM) but low kcat (≤0.3 min–1) relative to Class I substrates and include the D-loop and partial Holliday junction. The splayed Y junction defines a class III substrate having high KM (~30 nM) and low kcat (0.26 min–1). Holliday junctions assembled from oligonucleotides with or without a branch migratable core were negligibly cut in vitro. We found that Mus81 and Mms4 are phosphorylated constitutively and in the presence of the genotoxin MMS. The endogenous complex purified in either modification state is negligibly active on Holliday junctions. Hence, Holliday junction incision activity in vitro cannot be attributed to the Mus81-Mms4 heterodimer in isolation.


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