메뉴 건너뛰기




Volumn 107, Issue 51, 2010, Pages 22055-22059

A naturally chimeric type IIA topoisomerase in Aquifex aeolicus highlights an evolutionary path for the emergence of functional paralogs

Author keywords

Chromosome dynamics; DNA binding proteins; Protein evolution

Indexed keywords

DNA TOPOISOMERASE (ATP HYDROLYSING) A; DNA TOPOISOMERASE (ATP HYDROLYSING) B; HOLOENZYME; PROTEIN PARC;

EID: 78650653937     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1012938107     Document Type: Article
Times cited : (20)

References (42)
  • 1
    • 50649101663 scopus 로고    scopus 로고
    • DNA topoisomerases: Harnessing and constraining energy to govern chromosome topology
    • Schoeffler AJ, Berger JM (2008) DNA topoisomerases: Harnessing and constraining energy to govern chromosome topology. Q Rev Biophys 41:41-101.
    • (2008) Q Rev Biophys , vol.41 , pp. 41-101
    • Schoeffler, A.J.1    Berger, J.M.2
  • 3
    • 0025027077 scopus 로고
    • New topoisomerase essential for chromosome segregation in E. coli
    • Kato J, et al. (1990) New topoisomerase essential for chromosome segregation in E. coli. Cell 63:393-404.
    • (1990) Cell , vol.63 , pp. 393-404
    • Kato, J.1
  • 4
    • 0034677898 scopus 로고    scopus 로고
    • Roles of topoisomerases in maintaining steady-state DNA supercoiling in Escherichia coli
    • Zechiedrich EL, et al . (2000) Roles of topoisomerases in maintaining steady-state DNA supercoiling in Escherichia coli. J Biol Chem 275:8103-8113.
    • (2000) J Biol Chem , vol.275 , pp. 8103-8113
    • Zechiedrich, E.L.1    Et Al, .2
  • 5
    • 0017849222 scopus 로고
    • Superhelical Escherichia coli DNA: Relaxation by coumermycin
    • Drlica K, Snyder M (1978) Superhelical Escherichia coli DNA: Relaxation by coumermycin. J Mol Biol 120:145-154.
    • (1978) J Mol Biol , vol.120 , pp. 145-154
    • Drlica, K.1    Snyder, M.2
  • 6
    • 0034669232 scopus 로고    scopus 로고
    • Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements
    • Crisona NJ, Strick TR, Bensimon D, Croquette V, Cozzarelli NR (2000) Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements. Genes Dev 14:2881-2892.
    • (2000) Genes Dev , vol.14 , pp. 2881-2892
    • Crisona, N.J.1    Strick, T.R.2    Bensimon, D.3    Croquette, V.4    Cozzarelli, N.R.5
  • 7
    • 0027171678 scopus 로고
    • Decatenation activity of topoisomerase IV during oriC and pBR322 DNA replication in vitro
    • Peng H, Marians KJ (1993) Decatenation activity of topoisomerase IV during oriC and pBR322 DNA replication in vitro. Proc Natl Acad Sci USA 90:8571-8575.
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 8571-8575
    • Peng, H.1    Marians, K.J.2
  • 9
    • 0001949962 scopus 로고    scopus 로고
    • Bacterial diversity based on type II DNA topoisomerase genes
    • Huang WM (1996) Bacterial diversity based on type II DNA topoisomerase genes. Annu Rev Genet 30:79-107.
    • (1996) Annu Rev Genet , vol.30 , pp. 79-107
    • Huang, W.M.1
  • 10
    • 0029955899 scopus 로고    scopus 로고
    • Conversion of DNA gyrase into a conventional type II topoisomerase
    • Kampranis SC, Maxwell A (1996) Conversion of DNA gyrase into a conventional type II topoisomerase. Proc Natl Acad Sci USA 93:14416-14421.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 14416-14421
    • Kampranis, S.C.1    Maxwell, A.2
  • 11
    • 0018422012 scopus 로고
    • Site-specific cleavage of DNA by E.coli DNA gyrase
    • Morrison A, Cozzarelli NR (1979) Site-specific cleavage of DNA by E.coli DNA gyrase. Cell 17:175-184.
    • (1979) Cell , vol.17 , pp. 175-184
    • Morrison, A.1    Cozzarelli, N.R.2
  • 13
    • 0021099691 scopus 로고
    • Double strand DNA cleavage by type II DNA topoisomerase from Drosophila melanogaster
    • Sander M, Hsieh T (1983) Double strand DNA cleavage by type II DNA topoisomerase from Drosophila melanogaster. J Biol Chem 258:8421-8428.
    • (1983) J Biol Chem , vol.258 , pp. 8421-8428
    • Sander, M.1    Hsieh, T.2
  • 14
    • 22544467771 scopus 로고    scopus 로고
    • The structural basis for substrate specificity in DNA topoisomerase IV
    • Corbett KD, Schoeffler AJ, Thomsen ND, Berger JM (2005) The structural basis for substrate specificity in DNA topoisomerase IV. J Mol Biol 351:545-561.
    • (2005) J Mol Biol , vol.351 , pp. 545-561
    • Corbett, K.D.1    Schoeffler, A.J.2    Thomsen, N.D.3    Berger, J.M.4
  • 15
    • 0025758726 scopus 로고
    • The C-terminal domain of the Escherichia coli DNA gyrase A subunit is a DNA-binding protein
    • Reece RJ, Maxwell A (1991) The C-terminal domain of the Escherichia coli DNA gyrase A subunit is a DNA-binding protein. Nucleic Acids Res 19:1399-1405. (Pubitemid 21913228)
    • (1991) Nucleic Acids Research , vol.19 , Issue.7 , pp. 1399-1405
    • Reece, R.J.1    Maxwell, A.2
  • 16
    • 22544447404 scopus 로고    scopus 로고
    • A superhelical spiral in the Escherichia coli DNA gyrase AC-terminal domain imparts unidirectional supercoiling bias
    • Ruthenburg AJ, Graybosch DM, Huetsch JC, Verdine GL (2005) A superhelical spiral in the Escherichia coli DNA gyrase AC-terminal domain imparts unidirectional supercoiling bias. J Biol Chem 280:26177-26184.
    • (2005) J Biol Chem , vol.280 , pp. 26177-26184
    • Ruthenburg, A.J.1    Graybosch, D.M.2    Huetsch, J.C.3    Verdine, G.L.4
  • 17
    • 2442611949 scopus 로고    scopus 로고
    • The C-terminal domain of DNA gyrase A adopts a DNA-bending beta-pinwheel fold
    • Corbett KD, Shultzaberger RK, Berger JM (2004) The C-terminal domain of DNA gyrase A adopts a DNA-bending beta-pinwheel fold. Proc Natl Acad Sci USA 101:7293-7298.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 7293-7298
    • Corbett, K.D.1    Shultzaberger, R.K.2    Berger, J.M.3
  • 18
    • 33645652225 scopus 로고    scopus 로고
    • The "GyrA-box" is required for the ability of DNA gyrase to wrap DNA and catalyze the supercoiling reaction
    • Kramlinger VM, Hiasa H (2006) The "GyrA-box" is required for the ability of DNA gyrase to wrap DNA and catalyze the supercoiling reaction. J Biol Chem 281:3738-3742.
    • (2006) J Biol Chem , vol.281 , pp. 3738-3742
    • Kramlinger, V.M.1    Hiasa, H.2
  • 19
    • 0030664213 scopus 로고    scopus 로고
    • Requirement of topoisomerase IV parC and parE genes for cell cycle progression and developmental regulation in Caulobacter crescentus
    • Ward D, Newton A (1997) Requirement of topoisomerase IV parC and parE genes for cell cycle progression and developmental regulation in Caulobacter crescentus. Mol Microbiol 26:897-910.
    • (1997) Mol Microbiol , vol.26 , pp. 897-910
    • Ward, D.1    Newton, A.2
  • 20
    • 0041306000 scopus 로고    scopus 로고
    • Chirality sensing by Escherichia coli topoisomerase IV and the mechanism of type II topoisomerases
    • Stone MD, et al. (2003) Chirality sensing by Escherichia coli topoisomerase IV and the mechanism of type II topoisomerases. Proc Natl Acad Sci USA 100:8654-8659.
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 8654-8659
    • Stone, M.D.1
  • 21
    • 0032568375 scopus 로고    scopus 로고
    • The complete genome of the hyperthermophilic bacterium Aquifex aeolicus
    • Deckert G, et al. (1998) The complete genome of the hyperthermophilic bacterium Aquifex aeolicus. Nature 392:353-358.
    • (1998) Nature , vol.392 , pp. 353-358
    • Deckert, G.1
  • 22
    • 0034986025 scopus 로고    scopus 로고
    • DNA gyrase from Thermotoga maritima
    • Guipaud O, Forterre P (2001) DNA gyrase from Thermotoga maritima. Methods Enzymol 334:162-171.
    • (2001) Methods Enzymol , vol.334 , pp. 162-171
    • Guipaud, O.1    Forterre, P.2
  • 23
    • 63349102030 scopus 로고    scopus 로고
    • Phylogenomics of DNA topoisomerases: Their origin and putative roles in the emergence of modern organisms
    • Forterre P, Gadelle D (2009) Phylogenomics of DNA topoisomerases: Their origin and putative roles in the emergence of modern organisms. Nucleic Acids Res 37:679-692.
    • (2009) Nucleic Acids Res , vol.37 , pp. 679-692
    • Forterre, P.1    Gadelle, D.2
  • 24
    • 11244308067 scopus 로고    scopus 로고
    • Structure of the topoisomerase IV C-terminal domain: Abroken beta-propeller implies a role as geometry facilitator in catalysis
    • Hsieh TJ, Farh L, Huang WM, Chan NL (2004) Structure of the topoisomerase IV C-terminal domain: Abroken beta-propeller implies a role as geometry facilitator in catalysis. J Biol Chem 279:55587-55593.
    • (2004) J Biol Chem , vol.279 , pp. 55587-55593
    • Hsieh, T.J.1    Farh, L.2    Huang, W.M.3    Chan, N.L.4
  • 25
    • 77955074328 scopus 로고    scopus 로고
    • Twisting of the DNA-binding surface by a β-strand-bearing proline modulates DNA gyrase activity
    • Hsieh TJ, et al. (2010) Twisting of the DNA-binding surface by a β-strand-bearing proline modulates DNA gyrase activity. Nucleic Acids Res.
    • (2010) Nucleic Acids Res
    • Hsieh, T.J.1
  • 26
    • 0017968152 scopus 로고
    • Micrococcus luteus DNA gyrase: Active components and a model for its supercoiling of DNA
    • Liu LF, Wang JC (1978) Micrococcus luteus DNA gyrase: Active components and a model for its supercoiling of DNA. Proc Natl Acad Sci USA 75:2098-2102.
    • (1978) Proc Natl Acad Sci USA , vol.75 , pp. 2098-2102
    • Liu, L.F.1    Wang, J.C.2
  • 27
    • 2442717681 scopus 로고    scopus 로고
    • Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria
    • Wall MK, Mitchenall LA, Maxwell A (2004) Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria. Proc Natl Acad Sci USA 101:7821-7826.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 7821-7826
    • Wall, M.K.1    Mitchenall, L.A.2    Maxwell, A.3
  • 28
    • 0037052330 scopus 로고    scopus 로고
    • Functional characterisation of mycobacterial DNA gyrase: An efficient decatenase
    • Manjunatha UH, et al. (2002) Functional characterisation of mycobacterial DNA gyrase: An efficient decatenase. Nucleic Acids Res 30:2144-2153.
    • (2002) Nucleic Acids Res , vol.30 , pp. 2144-2153
    • Manjunatha, U.H.1
  • 29
    • 0032859140 scopus 로고    scopus 로고
    • Evolution of protein function, from a structural perspective
    • Todd AE, Orengo CA, Thornton JM (1999) Evolution of protein function, from a structural perspective. Curr Opin Chem Biol 3:548-556.
    • (1999) Curr Opin Chem Biol , vol.3 , pp. 548-556
    • Todd, A.E.1    Orengo, C.A.2    Thornton, J.M.3
  • 30
    • 41149106300 scopus 로고    scopus 로고
    • Evolution of the beta-propeller fold
    • Chaudhuri I, Soding J, Lupas AN (2008) Evolution of the beta-propeller fold. Proteins 71:795-803.
    • (2008) Proteins , vol.71 , pp. 795-803
    • Chaudhuri, I.1    Soding, J.2    Lupas, A.N.3
  • 31
    • 28844455588 scopus 로고    scopus 로고
    • Recent advances in understanding structure-function relationships in the type II topoisomerase mechanism
    • Schoeffler AJ, Berger JM (2005) Recent advances in understanding structure-function relationships in the type II topoisomerase mechanism. Biochem Soc Trans 33:1465-1470.
    • (2005) Biochem Soc Trans , vol.33 , pp. 1465-1470
    • Schoeffler, A.J.1    Berger, J.M.2
  • 32
    • 76949089832 scopus 로고    scopus 로고
    • Bacterial nucleoid-associated proteins, nucleoid structure and gene expression
    • Dillon SC, Dorman CJ (2010) Bacterial nucleoid-associated proteins, nucleoid structure and gene expression. Nat Rev Microbiol 8:185-195.
    • (2010) Nat Rev Microbiol , vol.8 , pp. 185-195
    • Dillon, S.C.1    Dorman, C.J.2
  • 33
    • 0033199337 scopus 로고    scopus 로고
    • Natural synthesis of a DNA-binding protein from the C-terminal domain of DNA gyrase A in Borrelia burgdorferi
    • Knight SW, Samuels DS (1999) Natural synthesis of a DNA-binding protein from the C-terminal domain of DNA gyrase A in Borrelia burgdorferi. EMBO J 18:4875-4881.
    • (1999) EMBO J , vol.18 , pp. 4875-4881
    • Knight, S.W.1    Samuels, D.S.2
  • 34
    • 0029886852 scopus 로고    scopus 로고
    • The unique DNA topology and DNA topoisomerases of hyperthermophilic archaea
    • Forterre P, Bergerat A, Lopez-Garcia P (1996) The unique DNA topology and DNA topoisomerases of hyperthermophilic archaea. FEMS Microbiol Rev 18:237-248.
    • (1996) FEMS Microbiol Rev , vol.18 , pp. 237-248
    • Forterre, P.1    Bergerat, A.2    Lopez-Garcia, P.3
  • 35
    • 0030987132 scopus 로고    scopus 로고
    • An atypical topoisomerase II from Archaea with implications for meiotic recombination
    • Bergerat A, et al. (1997) An atypical topoisomerase II from Archaea with implications for meiotic recombination. Nature 386:414-417.
    • (1997) Nature , vol.386 , pp. 414-417
    • Bergerat, A.1
  • 36
    • 0035711194 scopus 로고    scopus 로고
    • Tobacco etch virus protease: Mechanism of autolysis and rational design of stable mutants with wild-type catalytic proficiency
    • Kapust RB, et al. (2001) Tobacco etch virus protease: Mechanism of autolysis and rational design of stable mutants with wild-type catalytic proficiency. Protein Eng 14:993-1000.
    • (2001) Protein Eng , vol.14 , pp. 993-1000
    • Kapust, R.B.1
  • 37
    • 14244272868 scopus 로고    scopus 로고
    • PHENIX: Building new software for automated crystallographic structure determination
    • Adams PD, et al. (2002) PHENIX: building new software for automated crystallographic structure determination. Acta Crystallogr D 58:1948-1954.
    • (2002) Acta Crystallogr D , vol.58 , pp. 1948-1954
    • Adams, P.D.1
  • 38
    • 13244281317 scopus 로고    scopus 로고
    • Coot: Model-building tools for molecular graphics
    • Emsley P, Cowtan K (2004) Coot: model-building tools for molecular graphics. Acta Crystallogr D 60:2126-2132.
    • (2004) Acta Crystallogr D , vol.60 , pp. 2126-2132
    • Emsley, P.1    Cowtan, K.2
  • 39
    • 0037441653 scopus 로고    scopus 로고
    • Structure validation by Calpha geometry: Phi, psi and Cbeta deviation
    • Lovell SC, et al. (2003) Structure validation by Calpha geometry: Phi, psi and Cbeta deviation. Proteins 50:437-450.
    • (2003) Proteins , vol.50 , pp. 437-450
    • Lovell, S.C.1
  • 40
    • 68049142320 scopus 로고    scopus 로고
    • Multiple alignment of DNA sequences with MAFFT
    • Katoh K, Asimenos G, Toh H (2009) Multiple alignment of DNA sequences with MAFFT. Methods Mol Biol 537:39-64.
    • (2009) Methods Mol Biol , vol.537 , pp. 39-64
    • Katoh, K.1    Asimenos, G.2    Toh, H.3
  • 42
    • 77954531031 scopus 로고    scopus 로고
    • University of Edinburgh, Edinburgh
    • Rambaut A (2009) FigTree (University of Edinburgh, Edinburgh).
    • (2009) FigTree
    • Rambaut, A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.