Crosslinking of (Cytosine-5)-DNA Methyltransferase SsoII and its Complexes with Specific DNA Duplexes Provides an Insight into Their Structures

REFERENCES

• Lopatina , N. G. , Suchkov , S. V. , Kulikov , S. M. , Nikol'skaia , I. I. and Debov , S. S. 1985 . Site-specificity of DNA methylases from Shigella sonnei 47 cells . Biokhimiia , 50 : 1694 – 1701 .
   PubMedGoogle Scholar
• Kumar , S. , Cheng , X. , Klimasauskas , S. , Mi , S. , Posfai , J. , Roberts , R. J. and Wilson , G. G. 1994 . The DNA (cytosine-5) methyltransferases . Nucleic Acids Res. , 22 : 1 – 10 .
   PubMed Web of Science ®Google Scholar
• Karyagina , A. S. , Alexeevski , A. V. , Golovin , A. V. , Spirin , S. A. , Vorob'eva , O. V. and Kubareva , E. A. 2003 . Computer modeling of complexes of (C5-cytosine)-DNA methyltransferase SsoII with target and regulatory DNAs . Biophysics , 48 ( Suppl. 1 ) : S45 – S55 .
   Google Scholar
• Karyagina , A. , Shilov , I. , Tashlitskii , V. , Khodoun , M. , Vasil'ev , S. , Lau , P. C. and Nikolskaya , I. 1997 . Specific binding of SsoII DNA methyltransferase to its promoter region provides the regulation of SsoII restriction–modification gene expression . Nucleic Acids Res. , 25 : 2114 – 2120 .
   PubMed Web of Science ®Google Scholar
• Shilov , I. , Tashlitsky , V. , Khodoun , M. , Vasil'ev , S. , Alekseev , Y. , Kuzubov , A. , Kubareva , E. and Karyagina , A. 1998 . DNA-methyltransferase SsoII interaction with own promoter region binding site . Nucleic Acids Res , 26 : 2659 – 2664 .
   PubMed Web of Science ®Google Scholar
• Vorob'eva , O. V. , Vasil'ev , S. A. , Karyagina , A. S. , Oretskaya , T. S. and Kubareva , E. A. 2000 . Analysis of DNA–protein contacts in a complex between methyltransferase SsoII and a promoter region of the SsoII restriction–modification genes . Mol. Biol. (Mosk.) , 34 : 921 – 926 .
   PubMed Web of Science ®Google Scholar
• Fedotova , E. A. , Protsenko , A. S. , Zakharova , M. V. , Lavrova , N. V. , Alekseevsky , A. V. , Oretskaya , T. S. , Karyagina , A. S. , Solonin , A. S. and Kubareva , E. A. 2009 . SsoII-like DNA-methyltransferase Ecl18kI: interaction between regulatory and methylating functions . Biochemistry (Mosc.) , 74 : 85 – 91 .
   PubMed Web of Science ®Google Scholar
• Ryazanova , A. Y. , Molochkov , N. V. , Abrosimova , L. A. , Alexeevsky , A. V. , Karyagina , A. S. , Protsenko , A. S. , Friedhoff , P. , Oretskaya , T. S. and Kubareva , E. A. 2010 . Secondary structure of (cytosine-5)-DNA methyltransferase SsoII N-terminal region determined by circular dichroism spectroscopy . Mol. Biol. (Mosk.) , 44 : 807 – 816 .
   Web of Science ®Google Scholar
• Vorob'eva , O. V. , Karyagina , A. S. , Volkov , E. M. , Viryasov , M. B. , Oretskaya , T. S. and Kubareva , E. A. 2002 . An analysis of methyltransferase SsoII–DNA contacts in the enzyme–substrate complex . Russian J. Bioorg. Chem. , 28 : 363 – 370 .
   Web of Science ®Google Scholar
• Green , N. S. , Reisler , E. and Houk , K. N. 2001 . Quantitative evaluation of the lengths of homobifunctional protein cross-linking reagents used as molecular rulers . Protein Sci. , 10 : 1293 – 1304 .
   PubMed Web of Science ®Google Scholar
• Karyagina , A. S. , Lunin , V. G. , Levtchenko , I. Y. , Labbé , D. , Brousseau , R. , Lau , P. C. and Nikolskaya , I. I. 1995 . The SsoII and NlaX DNA methyltransferases: overproduction and functional analysis . Gene , 157 : 93 – 96 .
   PubMed Web of Science ®Google Scholar
• Denjmukhametov , M. M. , Brevnov , M. G. , Zakharova , M. V. , Repyk , A. V. , Solonin , A. S. , Petrauskene , O. V. and Gromova , E. S. 1998 . The Ecl18kI restriction–modification system: cloning, expression, properties of the purified enzymes . FEBS Lett. , 433 : 233 – 236 .
   PubMed Web of Science ®Google Scholar
• Laemmli , U. K. 1970 . Cleavage of structural proteins during the assembly of the head of bacteriophage T4 . Nature , 227 : 680 – 685 .
   PubMed Web of Science ®Google Scholar
• Ryazanova , A. Y. , Kubareva , E. A. , Grman , I. , Lavrova , N. V. , Ryazanova , E. M. , Oretskaya , T. S. and Hianik , T. 2011 . The study of the interaction of (cytosine-5)-DNA methyltransferase SsoII with DNA by acoustic method . Analyst , 136 : 1227 – 1233 .
   PubMed Web of Science ®Google Scholar
• Giron-Monzon , L. , Manelyte , L. , Ahrends , R. , Kirsch , D. , Spengler , B. and Friedhoff , P. 2004 . Mapping protein–protein interactions between MutL and MutH by cross-linking . J. Biol. Chem. , 279 : 49338 – 49345 .
   PubMed Web of Science ®Google Scholar
• Heinze , R. J. , Giron-Monzon , L. , Solovyova , A. , Elliot , S. L. , Geisler , S. , Cupples , C. G. , Connolly , B. A. and Friedhoff , P. 2009 . Physical and functional interactions between Escherichia coli MutL and the Vsr repair endonuclease . Nucleic Acids Res. , 37 : 4453 – 4463 .
   PubMed Web of Science ®Google Scholar
• Smyth , D. G. , Blumenfeld , O. O. and Konigsberg , W. 1964 . Reactions of N-ethylmaleimide with peptides and amino acids . Biochem. J. , 91 : 589 – 595 .
   PubMed Web of Science ®Google Scholar
• Kubareva , E. A. , Walter , J. , Karyagina , A. S. , Vorob'eva , O. V. , Lau , P. C. and Trautner , T. 2002 . Determination of methylation site of DNA-methyltransferase NlaX by a hybrid method . Biotechniques , 33 : 526 – 531 .
   PubMed Web of Science ®Google Scholar
• Dubey , A. K. and Roberts , R. J. 1992 . Sequence-specific DNA binding by the MspI DNA methyltransferase . Nucleic Acids Res. , 20 : 3167 – 3173 .
   PubMed Web of Science ®Google Scholar
• Renbaum , P. and Razin , A. 1995 . Footprint analysis of M.SssI and M.HhaI methyltransferases reveals extensive interactions with the substrate DNA backbone . J. Mol. Biol. , 248 : 19 – 26 .
   PubMed Web of Science ®Google Scholar
• Finta , C. and Kiss , A. 1997 . Footprint analysis of the BspRI DNA methyltransferase–DNA interaction . Nucleic Acids Res. , 25 : 2841 – 2846 .
   PubMed Web of Science ®Google Scholar
• Dormán , G. and Prestwich , G. D. 1994 . Benzophenone photophores in biochemistry . Biochemistry , 33 : 5661 – 5673 .
   PubMed Web of Science ®Google Scholar
• Hermanson , G. T. 2008 . Bioconjugate Techniques , 2nd ed. , 205 Amsterdam : Academic Press .
   Google Scholar
• Romanenkov , A. S. , Kisil , O. V. , Zatsepin , T. S. , Yamskova , O. V. , Karyagina , A. S. , Metelev , V. G. , Oretskaya , T. S. and Kubareva , E. A. 2006 . DNA-methyltransferase SsoII as a bifunctional protein: features of the interaction with the promoter region of SsoII restriction–modification genes . Biochemistry (Mosc.) , 71 : 1341 – 1349 .
   PubMed Web of Science ®Google Scholar