Mediation of the A/B-DNA helix transition by G-tracts in the crystal structure of duplex CATGGGCCCATG Export

@article{citeulike:5906745, abstract = {The crystal structure of the DNA dodecamer duplex CATGGGCCCATG lies on a structural continuum along the transition between A- and B-DNA. The dodecamer possesses the normal vector plot and inclination values typical of B-DNA, but has the crystal packing, helical twist, groove width, sugar pucker, slide and x-displacement values typical of A-DNA. The structure shows highly ordered water structures, such as a double spine of water molecules against each side of the major groove, stabilizing the GC base pairs in an A-like conformation. The different hydration of GC and AT base pairs provides a physical basis for solvent-dependent facilitation of the A{leftrightarrow}B helix transition by GC base pairs. Crystal structures of CATGGGCCCATG and other A/B-DNA intermediates support a slide first, roll later' mechanism for the B[-\>]A helix transition. In the distribution of helical parameters in protein-DNA crystal structures, GpG base steps show A-like properties, reflecting their innate predisposition for the A conformation. 10.1093/nar/gkf515}, author = {Ng, Ho-Leung and Dickerson, Richard E.}, citeulike-article-id = {5906745}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/nar/gkf515}, citeulike-linkout-1 = {http://nar.oxfordjournals.org/content/30/18/4061.abstract}, citeulike-linkout-2 = {http://nar.oxfordjournals.org/content/30/18/4061.full.pdf}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/12235390}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=12235390}, day = {15}, doi = {10.1093/nar/gkf515}, journal = {Nucl. Acids Res.}, keywords = {dna-ab-exp, dna-forms}, month = {September}, number = {18}, pages = {4061--4067}, posted-at = {2009-10-07 18:12:24}, priority = {2}, title = {Mediation of the A/B-DNA helix transition by G-tracts in the crystal structure of duplex CATGGGCCCATG}, url = {http://dx.doi.org/10.1093/nar/gkf515}, volume = {30}, year = {2002} }

TY - JOUR ID - citeulike:5906745 L3 - citeulike-article-id:5906745 N2 - The crystal structure of the DNA dodecamer duplex CATGGGCCCATG lies on a structural continuum along the transition between A- and B-DNA. The dodecamer possesses the normal vector plot and inclination values typical of B-DNA, but has the crystal packing, helical twist, groove width, sugar pucker, slide and x-displacement values typical of A-DNA. The structure shows highly ordered water structures, such as a double spine of water molecules against each side of the major groove, stabilizing the GC base pairs in an A-like conformation. The different hydration of GC and AT base pairs provides a physical basis for solvent-dependent facilitation of the A{leftrightarrow}B helix transition by GC base pairs. Crystal structures of CATGGGCCCATG and other A/B-DNA intermediates support a slide first, roll later' mechanism for the B[->]A helix transition. In the distribution of helical parameters in protein-DNA crystal structures, GpG base steps show A-like properties, reflecting their innate predisposition for the A conformation. 10.1093/nar/gkf515 IS - 18 JF - Nucl. Acids Res. EP - 4067 TI - Mediation of the A/B-DNA helix transition by G-tracts in the crystal structure of duplex CATGGGCCCATG VL - 30 SP - 4061 KW - dna-ab-exp KW - dna-forms AU - Ng, Ho-Leung AU - Dickerson, Richard PY - 2002/09/15/ UR - http://dx.doi.org/10.1093/nar/gkf515 ER -