Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA
We have recently shown that under superhelical stress and/or acid pH the homopurine-homopyrimidine tracts conforming to the mirror symmetry (H palindromes) form a novel DNA structure, the H form. According to our model, the H form includes (1) a triplex formed by half of the purine strand and by the...
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| Veröffentlicht in: | Nature (London) 1988-06, Vol.333 (6172), p.475-476 |
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| creator | VOLOSHIN, O. N MIRKIN, S. M LYAMICHEV, V. I BELOTSERKOVSKII, B. P FRANK-KAMENETSKII, M. D |
| description | We have recently shown that under superhelical stress and/or acid pH the homopurine-homopyrimidine tracts conforming to the mirror symmetry (H palindromes) form a novel DNA structure, the H form. According to our model, the H form includes (1) a triplex formed by half of the purine strand and by the homopyrimidine hairpin and (2) the unstructured other half of the purine strand. We used four specially designed sequences to demonstrate that, in accordance with our model, the mirror symmetry is essential for facile formation of the H form detected by two-dimensional gel electrophoresis. Here we report that, under conditions favouring the H-form extrusion, guanines of the 3' half of the purine strand are protected against alkylation by dimethylsulphate, whereas adenines of the 5' half of the purine strand react with diethyl pyrocarbonate. These data indicate that the 3' half of the homopurine strand is within the triplex whereas the 5' half is unstructured, in full agreement with our model. |
| doi_str_mv | 10.1038/333475a0 |
| format | Article |
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N ; MIRKIN, S. M ; LYAMICHEV, V. I ; BELOTSERKOVSKII, B. P ; FRANK-KAMENETSKII, M. D</creator><creatorcontrib>VOLOSHIN, O. N ; MIRKIN, S. M ; LYAMICHEV, V. I ; BELOTSERKOVSKII, B. P ; FRANK-KAMENETSKII, M. D</creatorcontrib><description>We have recently shown that under superhelical stress and/or acid pH the homopurine-homopyrimidine tracts conforming to the mirror symmetry (H palindromes) form a novel DNA structure, the H form. According to our model, the H form includes (1) a triplex formed by half of the purine strand and by the homopyrimidine hairpin and (2) the unstructured other half of the purine strand. We used four specially designed sequences to demonstrate that, in accordance with our model, the mirror symmetry is essential for facile formation of the H form detected by two-dimensional gel electrophoresis. Here we report that, under conditions favouring the H-form extrusion, guanines of the 3' half of the purine strand are protected against alkylation by dimethylsulphate, whereas adenines of the 5' half of the purine strand react with diethyl pyrocarbonate. These data indicate that the 3' half of the homopurine strand is within the triplex whereas the 5' half is unstructured, in full agreement with our model.</description><identifier>ISSN: 0028-0836</identifier><identifier>EISSN: 1476-4687</identifier><identifier>DOI: 10.1038/333475a0</identifier><identifier>PMID: 3374588</identifier><identifier>CODEN: NATUAS</identifier><language>eng</language><publisher>London: Nature Publishing</publisher><subject>Analytical, structural and metabolic biochemistry ; Biochemistry ; Biological and medical sciences ; Deoxyribonucleic acid ; Diethyl Pyrocarbonate ; DNA ; Dna, deoxyribonucleoproteins ; DNA, Superhelical ; Electrophoresis ; Fundamental and applied biological sciences. 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Here we report that, under conditions favouring the H-form extrusion, guanines of the 3' half of the purine strand are protected against alkylation by dimethylsulphate, whereas adenines of the 5' half of the purine strand react with diethyl pyrocarbonate. These data indicate that the 3' half of the homopurine strand is within the triplex whereas the 5' half is unstructured, in full agreement with our model.</description><subject>Analytical, structural and metabolic biochemistry</subject><subject>Biochemistry</subject><subject>Biological and medical sciences</subject><subject>Deoxyribonucleic acid</subject><subject>Diethyl Pyrocarbonate</subject><subject>DNA</subject><subject>Dna, deoxyribonucleoproteins</subject><subject>DNA, Superhelical</subject><subject>Electrophoresis</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetics</subject><subject>Hydrogen-Ion Concentration</subject><subject>Medical research</subject><subject>Nucleic Acid Conformation</subject><subject>Nucleic acids</subject><subject>Plasmids</subject><subject>Repetitive Sequences, Nucleic Acid</subject><subject>Sulfuric Acid Esters</subject><issn>0028-0836</issn><issn>1476-4687</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1988</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkT1PwzAQhi0EglKQ-ANIEUKIJXD-dsaqfEoVXWCOXMehRkkc7Gbov8eF0oGFG3xn3aP37HsROsNwg4GqW0opk1zDHhphJkXOhJL7aARAVA6KiiN0HOMHAHAs2SE6pFQyrtQIzadL2zqjm6wPfuG698zX2dK3vh-C62z-Xa6Da12VrlnrQvAhC7a3ehUz12Vx6G0w3jW2yu5eJifooNZNtKfbPEZvD_ev06d8Nn98nk5muWFErvJKGUMKqAVoKaA2rCqEBoIr0FwKziugmFuwfEGNkdoWStqi3hyiLjCjdIyufnTTsz8HG1dl66KxTaM764dYUg4FwbL4FyQYq7SN_xUxKwTjEhJ48Qf88EPo0m9LAowRLuhm7PUPZIKPMdi67NMSdViXGMqNZeWvZQk93-oNi9ZWO3DrUepfbvs6JqPqoDvj4g6TQpEU9Au2q5vT</recordid><startdate>19880602</startdate><enddate>19880602</enddate><creator>VOLOSHIN, O. 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N</au><au>MIRKIN, S. M</au><au>LYAMICHEV, V. I</au><au>BELOTSERKOVSKII, B. P</au><au>FRANK-KAMENETSKII, M. D</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA</atitle><jtitle>Nature (London)</jtitle><addtitle>Nature</addtitle><date>1988-06-02</date><risdate>1988</risdate><volume>333</volume><issue>6172</issue><spage>475</spage><epage>476</epage><pages>475-476</pages><issn>0028-0836</issn><eissn>1476-4687</eissn><coden>NATUAS</coden><abstract>We have recently shown that under superhelical stress and/or acid pH the homopurine-homopyrimidine tracts conforming to the mirror symmetry (H palindromes) form a novel DNA structure, the H form. According to our model, the H form includes (1) a triplex formed by half of the purine strand and by the homopyrimidine hairpin and (2) the unstructured other half of the purine strand. We used four specially designed sequences to demonstrate that, in accordance with our model, the mirror symmetry is essential for facile formation of the H form detected by two-dimensional gel electrophoresis. Here we report that, under conditions favouring the H-form extrusion, guanines of the 3' half of the purine strand are protected against alkylation by dimethylsulphate, whereas adenines of the 5' half of the purine strand react with diethyl pyrocarbonate. These data indicate that the 3' half of the homopurine strand is within the triplex whereas the 5' half is unstructured, in full agreement with our model.</abstract><cop>London</cop><pub>Nature Publishing</pub><pmid>3374588</pmid><doi>10.1038/333475a0</doi><tpages>2</tpages></addata></record> |
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| identifier | ISSN: 0028-0836 |
| ispartof | Nature (London), 1988-06, Vol.333 (6172), p.475-476 |
| issn | 0028-0836 1476-4687 |
| language | eng |
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| source | MEDLINE; Springer Nature - Complete Springer Journals; Nature |
| subjects | Analytical, structural and metabolic biochemistry Biochemistry Biological and medical sciences Deoxyribonucleic acid Diethyl Pyrocarbonate DNA Dna, deoxyribonucleoproteins DNA, Superhelical Electrophoresis Fundamental and applied biological sciences. Psychology Genetics Hydrogen-Ion Concentration Medical research Nucleic Acid Conformation Nucleic acids Plasmids Repetitive Sequences, Nucleic Acid Sulfuric Acid Esters |
| title | Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA |
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