In silico method to predict functional similarity between two RecA orthologs

Journal of Biomolecular Screening

Volumn 16, Issue 4, 2011, Pages 457-459

  Sghaier, Haïtham ^a   Satoh, Katsuya ^b   Narumi, Issay ^b  

^a Centre National des Sciences et Technologies Nucleaires Tunis   (Tunisia)

^b Atomic Energy Agency   (Japan)

Author keywords

complementation; RecA; tri oligonucleotide usage correlations

Indexed keywords

RECA PROTEIN; RECA1 PROTEIN; RECA2 PROTEIN; UNCLASSIFIED DRUG;

ACCURACY; ARTICLE; BACTERIAL STRAIN; COMPUTER MODEL; NUCLEIC ACID ANALYSIS; ORTHOLOGY; PHYLOGENY; PRIORITY JOURNAL; TRI OLIGONUCLEOTIDE USAGE CORRELATION;

BACTERIAL PROTEINS; CODON; COMPUTATIONAL BIOLOGY; REC A RECOMBINASES;

BACTERIA (MICROORGANISMS);

EID: 79955368749     PISSN: 10870571     EISSN: 1552454X     Source Type: Journal    
DOI: 10.1177/1087057111400909     Document Type: Article

References (15)

1. Cox, M.M. Regulation of Bacterial RecA Protein Function. Crit. Rev. Biochem. Mol. Biol. 2007, 42, 41-63. (Pubitemid 46391133)
2. Patel, M. ; Jiang, Q. ; Woodgate, R. ; Cox, M.M. ; Goodman, M. F. A New Model for SOS-Induced Mutagenesis: How RecA Protein Activates DNA Polymerase V. Crit. Rev. Biochem. Mol. Biol. 2010, 45, 171-184.
3. Wigle, T.J. ; Sexton, J.Z. ; Gromova, A.V. ; Hadimani, M.B. ; Hughes, M.A. ; Smith, G.R. ; Yeh, L.A. ; Singleton, S.F. Inhibitors of RecA Activity Discovered by High-Throughput Screening: Cell-Permeable Small Molecules Attenuate the SOS Response in Escherichia coli. J Biomol. Screen. 2009, 14, 1092-1101.
4. Davenport, C.F. ; Tummler, B. Abundant Oligonucleotides Common to Most Bacteria. PLoS One 2010, 5, e9841.
5. Karlin, S. ; Mrazek, J. ; Campbell, A.M. Codon Usages in Different Gene Classes of the Escherichia coli Genome. Mol. Microbiol. 1998, 29, 1341-1355. (Pubitemid 28435288)
6. Pride, D.T. ; Meinersmann, R.J. ; Wassenaar, T.M. ; Blaser, M.J. Evolutionary Implications of Microbial Genome Tetranucleotide Frequency Biases. Genome Res. 2003, 13, 145-158.
7. Roca, A.I. ; Cox, M.M. RecA Protein: Structure, Function, and Role in Recombinational DNA Repair. Prog. Nucleic Acid Res. Mol. Biol. 1997, 56, 129-223.
8. Jain, R. ; Rivera, M.C. ; Lake, J.A. Horizontal Gene Transfer among Genomes: The Complexity Hypothesis. Proc. Natl. Acad. Sci. U. S. A. 1999, 96, 3801-3806. (Pubitemid 29168991)
9. Teeling, H. ; Waldmann, J. ; Lombardot, T. ; Bauer, M. ; Glockner, F.O. TETRA: A Web-Service and a Stand-Alone Program for the Analysis and Comparison of Tetranucleotide Usage Patterns in DNA Sequences. BMC Bioinformatics 2004, 5, 163.
10. Narumi, I. ; Satoh, K. ; Kikuchi, M. ; Funayama, T. ; Kitayama, S. ; Yanagisawa, T. ; Watanabe, H. ; Yamamoto, K. Molecular Analysis of the Deinococcus radiodurans recA Locus and Identification of a Mutation Site in a DNA Repair-Deficient Mutant, rec30. Mutat. Res. 1999, 435, 233-243.
11. Sghaier, H. ; Satoh, K. ; Ohba, H. ; Narumi, I. Assessing the Role of RecA Protein in the Radioresistant Bacterium Deinococcus geothermalis. Afr. J. Biochem. Res. 2010, 4, 111-118.
12. Schlesinger, D.J. Role of RecA in DNA Damage Repair in Deinococcus radiodurans. FEMS Microbiol. Lett. 2007, 274, 342-347. (Pubitemid 47256279)
13. Norioka, N. ; Hsu, M.Y. ; Inouye, S. ; Inouye, M. Two recA Genes in Myxococcus xanthus. J. Bacteriol. 1995, 177, 4179-4182.
14. Stohl, E.A. ; Blount, L. ; Seifert, H.S. Differential Cross-Complementation Patterns of Escherichia coli and Neisseria gonorrhoeae RecA Proteins. Microbiology 2002, 148, 1821-1831. (Pubitemid 34679036)
15. Weisburg, W.G. ; Giovannoni, S.J. ; Woese, C.R. The Deinococcus-Thermus Phylum and the Effect of rRNA Composition on Phylogenetic Tree Construction. Syst. Appl. Microbiol. 1989, 11, 128-134.