DNA Sequence of the E. Coli GyrB Gene: Application of a New Sequencing Strategy

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1987 Jan 26

PMID 3029692

Citations 54

Authors

T Adachi

M Mizuuchi

E A Robinson

E Appella

M H ODea

M Gellert

K Mizuuchi

Affiliations

Soon will be listed here.

Abstract

We have determined the sequence of the E. coli gyrB gene, using a new sequencing approach in which transposition from a mini-Mu plasmid into the DNA provides random start points for dideoxynucleotide sequence analysis. The gyrB sequence corresponds to a protein 804 amino acids long; a previously isolated protein fragment with partial enzymatic activity has been identified as the C-terminal half-molecule. A plausible terminator of gyrB transcription is located just beyond the structural gene.

Citing Articles

DNA Topoisomerases.

Bush N, Evans-Roberts K, Maxwell A EcoSal Plus. 2015; 6(2).

PMID: 26435256 PMC: 11575854. DOI: 10.1128/ecosalplus.ESP-0010-2014.

Reduced expression of the vca0421 gene of Vibrio cholerae O1 results in innate resistance to ciprofloxacin.

Okuda J, Hayashi N, Wakahara Y, Gotoh N Antimicrob Agents Chemother. 2010; 54(11):4917-9.

PMID: 20805389 PMC: 2976169. DOI: 10.1128/AAC.01652-09.

Structure of YidB protein from Shigella flexneri shows a new fold with homeodomain motif.

Osipiuk J, Maltseva N, Dementieva I, Clancy S, Collart F, Joachimiak A Proteins. 2006; 65(2):509-13.

PMID: 16927377 PMC: 2885951. DOI: 10.1002/prot.21054.

Active-site residues of Escherichia coli DNA gyrase required in coupling ATP hydrolysis to DNA supercoiling and amino acid substitutions leading to novobiocin resistance.

Gross C, Parsons J, Grossman T, Charifson P, Bellon S, Jernee J Antimicrob Agents Chemother. 2003; 47(3):1037-46.

PMID: 12604539 PMC: 149296. DOI: 10.1128/AAC.47.3.1037-1046.2003.

Mismatch-targeted transposition of Mu: a new strategy to map genetic polymorphism.

Yanagihara K, Mizuuchi K Proc Natl Acad Sci U S A. 2002; 99(17):11317-21.

PMID: 12177413 PMC: 123254. DOI: 10.1073/pnas.132403399.

References

Sugino A, Peebles C, Kreuzer K, Cozzarelli N . Mechanism of action of nalidixic acid: purification of Escherichia coli nalA gene product and its relationship to DNA gyrase and a novel nicking-closing enzyme. Proc Natl Acad Sci U S A. 1977; 74(11):4767-71. PMC: 432036. DOI: 10.1073/pnas.74.11.4767. View

Mizuuchi K, Craigie R . Mechanism of bacteriophage mu transposition. Annu Rev Genet. 1986; 20:385-429. DOI: 10.1146/annurev.ge.20.120186.002125. View

Higgins N, Peebles C, Sugino A, Cozzarelli N . Purification of subunits of Escherichia coli DNA gyrase and reconstitution of enzymatic activity. Proc Natl Acad Sci U S A. 1978; 75(4):1773-7. PMC: 392422. DOI: 10.1073/pnas.75.4.1773. View

Mizuuchi K, ODea M, Gellert M . DNA gyrase: subunit structure and ATPase activity of the purified enzyme. Proc Natl Acad Sci U S A. 1978; 75(12):5960-3. PMC: 393096. DOI: 10.1073/pnas.75.12.5960. View

Hansen F, von Meyenburg K . Characterization of the dnaA, gyrB and other genes in the dnaA region of the Escherichia coli chromosome on specialized transducing phages lambda tna. Mol Gen Genet. 1979; 175(2):135-44. DOI: 10.1007/BF00425529. View

Brown P, Peebles C, Cozzarelli N . A topoisomerase from Escherichia coli related to DNA gyrase. Proc Natl Acad Sci U S A. 1979; 76(12):6110-4. PMC: 411812. DOI: 10.1073/pnas.76.12.6110. View

Gellert M, Fisher L, ODea M . DNA gyrase: purification and catalytic properties of a fragment of gyrase B protein. Proc Natl Acad Sci U S A. 1979; 76(12):6289-93. PMC: 411849. DOI: 10.1073/pnas.76.12.6289. View

Cozzarelli N . DNA gyrase and the supercoiling of DNA. Science. 1980; 207(4434):953-60. DOI: 10.1126/science.6243420. View

Bachmann B, Low K . Linkage map of Escherichia coli K-12, edition 6. Microbiol Rev. 1980; 44(1):1-56. PMC: 373233. DOI: 10.1128/mr.44.1.1-56.1980. View

10.

SANGER F, Coulson A, Barrell B, Smith A, Roe B . Cloning in single-stranded bacteriophage as an aid to rapid DNA sequencing. J Mol Biol. 1980; 143(2):161-78. DOI: 10.1016/0022-2836(80)90196-5. View

11.

Gottesman S, Gottesman M, Shaw J, Pearson M . Protein degradation in E. coli: the lon mutation and bacteriophage lambda N and cII protein stability. Cell. 1981; 24(1):225-33. DOI: 10.1016/0092-8674(81)90518-3. View

12.

Gellert M . DNA topoisomerases. Annu Rev Biochem. 1981; 50:879-910. DOI: 10.1146/annurev.bi.50.070181.004311. View

13.

Fuhrman S, Deininger P, Laporte P, Friedmann T, Geiduschek E . Analysis of transcription of the human Alu family ubiquitous repeating element by eukaryotic RNA polymerase III. Nucleic Acids Res. 1981; 9(23):6439-56. PMC: 327615. DOI: 10.1093/nar/9.23.6439. View

14.

Staden R . Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing. Nucleic Acids Res. 1982; 10(15):4731-51. PMC: 321125. DOI: 10.1093/nar/10.15.4731. View

15.

Ikemura T, Ozeki H . Codon usage and transfer RNA contents: organism-specific codon-choice patterns in reference to the isoacceptor contents. Cold Spring Harb Symp Quant Biol. 1983; 47 Pt 2:1087-97. DOI: 10.1101/sqb.1983.047.01.123. View

16.

Biggin M, Gibson T, Hong G . Buffer gradient gels and 35S label as an aid to rapid DNA sequence determination. Proc Natl Acad Sci U S A. 1983; 80(13):3963-5. PMC: 394179. DOI: 10.1073/pnas.80.13.3963. View

17.

Messing J . New M13 vectors for cloning. Methods Enzymol. 1983; 101:20-78. DOI: 10.1016/0076-6879(83)01005-8. View

18.

Barnes W, Bevan M, Son P . Kilo-sequencing: creation of an ordered nest of asymmetric deletions across a large target sequence carried on phage M13. Methods Enzymol. 1983; 101:98-122. DOI: 10.1016/0076-6879(83)01008-3. View

19.

Mizuuchi K . In vitro transposition of bacteriophage Mu: a biochemical approach to a novel replication reaction. Cell. 1983; 35(3 Pt 2):785-94. DOI: 10.1016/0092-8674(83)90111-3. View

20.

Mulligan M, HAWLEY D, Entriken R, McClure W . Escherichia coli promoter sequences predict in vitro RNA polymerase selectivity. Nucleic Acids Res. 1984; 12(1 Pt 2):789-800. PMC: 321093. DOI: 10.1093/nar/12.1part2.789. View