Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG
A double-helical B-DNA dodecamer has been analyzed by single crystal x-ray diffraction methods and refined independently in four variants: sequence CGCGAATTCGCG at 20 degrees C and at 16 K, and CGCGAATTBrCGCG in 60% methylpentanediol at 20 and at 7 degrees C. The first three forms show a 14-19 degre...
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| Veröffentlicht in: | The Journal of biological chemistry 1982-12, Vol.257 (24), p.14686-14707 |
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| container_end_page | 14707 |
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| container_issue | 24 |
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| container_title | The Journal of biological chemistry |
| container_volume | 257 |
| creator | Fratini, A V Kopka, M L Drew, H R Dickerson, R E |
| description | A double-helical B-DNA dodecamer has been analyzed by single crystal x-ray diffraction methods and refined independently in four variants: sequence CGCGAATTCGCG at 20 degrees C and at 16 K, and CGCGAATTBrCGCG in 60% methylpentanediol at 20 and at 7 degrees C. The first three forms show a 14-19 degrees bend in overall helix axis, but the fourth is straight and unbent. Detailed comparisons of the various forms have led to a better understanding of helix geometry and bending. Structural principles can be understood best if organized under four headings: 1) intrinsic geometry of the sugar rings, 2) stacking and relative motion of base pairs, 3) geometry of the connecting phosphate backbone, and 4) mechanics of bending in B-DNA. The observed bending is neither completely localized nor smooth and continuous, but an intermediate compromise that can be termed "annealed kinking." |
| doi_str_mv | 10.1016/S0021-9258(18)33335-0 |
| format | Article |
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The first three forms show a 14-19 degrees bend in overall helix axis, but the fourth is straight and unbent. Detailed comparisons of the various forms have led to a better understanding of helix geometry and bending. Structural principles can be understood best if organized under four headings: 1) intrinsic geometry of the sugar rings, 2) stacking and relative motion of base pairs, 3) geometry of the connecting phosphate backbone, and 4) mechanics of bending in B-DNA. 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The first three forms show a 14-19 degrees bend in overall helix axis, but the fourth is straight and unbent. Detailed comparisons of the various forms have led to a better understanding of helix geometry and bending. Structural principles can be understood best if organized under four headings: 1) intrinsic geometry of the sugar rings, 2) stacking and relative motion of base pairs, 3) geometry of the connecting phosphate backbone, and 4) mechanics of bending in B-DNA. The observed bending is neither completely localized nor smooth and continuous, but an intermediate compromise that can be termed "annealed kinking."</description><subject>DNA</subject><subject>Models, Molecular</subject><subject>Nucleic Acid Conformation</subject><subject>Oligodeoxyribonucleotides</subject><subject>Oligonucleotides</subject><subject>X-Ray Diffraction</subject><issn>0021-9258</issn><issn>1083-351X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1982</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkEtPGzEQgK0KBCn0JyD5UKH2sHTstb1eLiiEEqgQldpU4mZ57dnE1T5SO-Hx77shEVfmMGNpvpmxPkJOGJwxYOrbbwDOspJL_YXpr_kQMoMPZMRA51ku2cMeGb0hh-RjSn9hCFGyA3JQsEIoxUfkxy98xJhC1SCtsPOhm1PbebrAJjzTOfYtruILDR219DK7uh9T33t0tsV4TifTyXQ8ns0u4-Z1TPZr2yT8tKtH5M_199nkJrv7Ob2djO8yJzisskqwUhQSoRSAVvshO2GFgMpX1teFqmwtuHa5VaIsNcic51hLsF5LBRbyI3K63buM_b81ppVpQ3LYNLbDfp2MBp6zQokBlFvQxT6liLVZxtDa-GIYmI1D8-rQbAQZps2rQ7M5cLI7sK5a9G9TO2lD__O2vwjzxVOIaKrQuwW2hsvCcGGYUFoN2MUWw0HGY8BokgvYOfTDiFsZ34d3PvIf9VGJuQ</recordid><startdate>19821225</startdate><enddate>19821225</enddate><creator>Fratini, A V</creator><creator>Kopka, M L</creator><creator>Drew, H R</creator><creator>Dickerson, R E</creator><general>Elsevier Inc</general><general>American Society for Biochemistry and Molecular Biology</general><scope>6I.</scope><scope>AAFTH</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>19821225</creationdate><title>Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG</title><author>Fratini, A V ; Kopka, M L ; Drew, H R ; Dickerson, R E</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c420t-b419475e0940ea8d40ec4a440bdbadf76baf428c3a6499805323ef50ad8560a03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1982</creationdate><topic>DNA</topic><topic>Models, Molecular</topic><topic>Nucleic Acid Conformation</topic><topic>Oligodeoxyribonucleotides</topic><topic>Oligonucleotides</topic><topic>X-Ray Diffraction</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Fratini, A V</creatorcontrib><creatorcontrib>Kopka, M L</creatorcontrib><creatorcontrib>Drew, H R</creatorcontrib><creatorcontrib>Dickerson, R E</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>The Journal of biological chemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Fratini, A V</au><au>Kopka, M L</au><au>Drew, H R</au><au>Dickerson, R E</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG</atitle><jtitle>The Journal of biological chemistry</jtitle><addtitle>J Biol Chem</addtitle><date>1982-12-25</date><risdate>1982</risdate><volume>257</volume><issue>24</issue><spage>14686</spage><epage>14707</epage><pages>14686-14707</pages><issn>0021-9258</issn><eissn>1083-351X</eissn><abstract>A double-helical B-DNA dodecamer has been analyzed by single crystal x-ray diffraction methods and refined independently in four variants: sequence CGCGAATTCGCG at 20 degrees C and at 16 K, and CGCGAATTBrCGCG in 60% methylpentanediol at 20 and at 7 degrees C. 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| identifier | ISSN: 0021-9258 |
| ispartof | The Journal of biological chemistry, 1982-12, Vol.257 (24), p.14686-14707 |
| issn | 0021-9258 1083-351X |
| language | eng |
| recordid | cdi_proquest_miscellaneous_80231764 |
| source | MEDLINE; EZB Free E-Journals; Alma/SFX Local Collection |
| subjects | DNA Models, Molecular Nucleic Acid Conformation Oligodeoxyribonucleotides Oligonucleotides X-Ray Diffraction |
| title | Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG |
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