Bent helical structure in kinetoplast DNA - PubMed (original) (raw)
Bent helical structure in kinetoplast DNA
J C Marini et al. Proc Natl Acad Sci U S A. 1982 Dec.
Abstract
We have investigated the unusual physical properties of a restriction fragment of Leishmania tarentolae kinetoplast DNA. A gel-purified fragment comprising slightly more than half of a minicircle was determined by Maxam-Gilbert sequence determination to be 490 base pairs (bp) in length. This fragment has dramatically anomalous electrophoretic behavior; it has an apparent size of 450 bp on a 1% agarose gel but migrates as 1,380 bp on a 12% polyacrylamide gel. However, in gel filtration on Sephacryl S-500, the fragment elutes with an apparent size of 375 bp. Finally, it behaves anomalously in electric dichroism experiments. Field-free rotational relaxation times from transient electric dichroism studies are highly sensitive to effective molecular dimensions. The rotational relaxation time of the kinetoplast fragment is smaller than that of a 309-bp control fragment from pBR322. Because rigorous control experiments rule out the possibility that this fragment is modified, these anomalous properties must be dictated by the sequence itself. Fragment behavior indicates that it has an unusually compact configuration; we propose that this molecule contains a region of systematically bent B-DNA. This model accounts for the fragment's difficulty in snaking through the pores of a polyacrylamide gel, its ease in diffusing into Sephacryl beads, and its smaller rotational relaxation time. Bending of this molecule may be caused by periodicities in the DNA sequence.
Similar articles
- Physical characterization of a kinetoplast DNA fragment with unusual properties.
Marini JC, Effron PN, Goodman TC, Singleton CK, Wells RD, Wartell RM, Englund PT. Marini JC, et al. J Biol Chem. 1984 Jul 25;259(14):8974-9. J Biol Chem. 1984. PMID: 6086618 - On the sequence determinants and flexibility of the kinetoplast DNA fragment with abnormal gel electrophoretic mobilities.
Diekmann S, Wang JC. Diekmann S, et al. J Mol Biol. 1985 Nov 5;186(1):1-11. doi: 10.1016/0022-2836(85)90251-7. J Mol Biol. 1985. PMID: 3001314 - A highly bent fragment of Crithidia fasciculata kinetoplast DNA.
Kitchin PA, Klein VA, Ryan KA, Gann KL, Rauch CA, Kang DS, Wells RD, Englund PT. Kitchin PA, et al. J Biol Chem. 1986 Aug 25;261(24):11302-9. J Biol Chem. 1986. PMID: 3015964 - A computer graphics study of sequence-directed bending in DNA.
Levene SD, Crothers DM. Levene SD, et al. J Biomol Struct Dyn. 1983 Oct;1(2):429-35. doi: 10.1080/07391102.1983.10507452. J Biomol Struct Dyn. 1983. PMID: 6400882 - Bending and flexibility of kinetoplast DNA.
Levene SD, Wu HM, Crothers DM. Levene SD, et al. Biochemistry. 1986 Jul 15;25(14):3988-95. doi: 10.1021/bi00362a003. Biochemistry. 1986. PMID: 3017412
Cited by
- Mitochondrial genome maintenance-the kinetoplast story.
Amodeo S, Bregy I, Ochsenreiter T. Amodeo S, et al. FEMS Microbiol Rev. 2023 Nov 1;47(6):fuac047. doi: 10.1093/femsre/fuac047. FEMS Microbiol Rev. 2023. PMID: 36449697 Free PMC article. Review. - Leishmania kinetoplast DNA contributes to parasite burden in infected macrophages: Critical role of the cGAS-STING-TBK1 signaling pathway in macrophage parasitemia.
Yilmaz IC, Dunuroglu E, Ayanoglu IC, Ipekoglu EM, Yildirim M, Girginkardesler N, Ozbel Y, Toz S, Ozbilgin A, Aykut G, Gursel I, Gursel M. Yilmaz IC, et al. Front Immunol. 2022 Nov 2;13:1007070. doi: 10.3389/fimmu.2022.1007070. eCollection 2022. Front Immunol. 2022. PMID: 36405710 Free PMC article. - Dissection of Structural Reorganization of Wheat 5B Chromosome Associated With Interspecies Recombination Suppression.
Salina E, Muterko A, Kiseleva A, Liu Z, Korol A. Salina E, et al. Front Plant Sci. 2022 May 4;13:884632. doi: 10.3389/fpls.2022.884632. eCollection 2022. Front Plant Sci. 2022. PMID: 36340334 Free PMC article. - Revisiting DNA Sequence-Dependent Deformability in High-Resolution Structures: Effects of Flanking Base Pairs on Dinucleotide Morphology and Global Chain Configuration.
Young RT, Czapla L, Wefers ZO, Cohen BM, Olson WK. Young RT, et al. Life (Basel). 2022 May 20;12(5):759. doi: 10.3390/life12050759. Life (Basel). 2022. PMID: 35629425 Free PMC article. - Organization of minicircle cassettes and guide RNA genes in Trypanosoma brucei.
Cooper S, Wadsworth ES, Schnaufer A, Savill NJ. Cooper S, et al. RNA. 2022 Jul;28(7):972-992. doi: 10.1261/rna.079022.121. Epub 2022 Apr 12. RNA. 2022. PMID: 35414587 Free PMC article.
References
- Proc Natl Acad Sci U S A. 1979 Apr;76(4):1585-8 - PubMed
- Proc Natl Acad Sci U S A. 1978 Jan;75(1):195-9 - PubMed
- Science. 1981 Jan 9;211(4478):171-6 - PubMed
- Proc Natl Acad Sci U S A. 1980 Jul;77(7):3816-20 - PubMed
- Plasmid. 1979 Jan;2(1):20-40 - PubMed
LinkOut - more resources
Full Text Sources
Other Literature Sources