In vivo evidence of alternative loop geometries in DNA-protein complexes Export

@article{citeulike:3814947, abstract = {The in vivo free energy of looping double-stranded DNA by the lac repressor has a remarkable behavior whose origins are not fully understood. In addition to the intrinsic periodicity of the DNA double helix, the in vivo free energy has an oscillatory component of about half the helical period and oscillates asymmetrically with an amplitude significantly smaller than predicted by current theories. Here, we show that the in vivo behavior is accurately accounted for by the simultaneous presence of two distinct conformations of looped DNA. Our analysis reveals that these two conformations have different optimal free energies and phases and that they behave distinctly in the presence of key architectural proteins.}, archivePrefix = {arXiv}, author = {Saiz, Leonor and Vilar, Jose M. G.}, citeulike-article-id = {3814947}, citeulike-linkout-0 = {http://arxiv.org/abs/q-bio/0602012}, citeulike-linkout-1 = {http://arxiv.org/pdf/q-bio/0602012}, day = {10}, eprint = {q-bio/0602012}, keywords = {dna-protein, energy, free, th\_ibg}, month = {Feb}, posted-at = {2008-12-20 21:07:30}, priority = {2}, title = {In vivo evidence of alternative loop geometries in DNA-protein complexes}, url = {http://arxiv.org/abs/q-bio/0602012}, year = {2006} }

TY - JOUR ID - citeulike:3814947 L3 - citeulike-article-id:3814947 N2 - The in vivo free energy of looping double-stranded DNA by the lac repressor has a remarkable behavior whose origins are not fully understood. In addition to the intrinsic periodicity of the DNA double helix, the in vivo free energy has an oscillatory component of about half the helical period and oscillates asymmetrically with an amplitude significantly smaller than predicted by current theories. Here, we show that the in vivo behavior is accurately accounted for by the simultaneous presence of two distinct conformations of looped DNA. Our analysis reveals that these two conformations have different optimal free energies and phases and that they behave distinctly in the presence of key architectural proteins. TI - In vivo evidence of alternative loop geometries in DNA-protein complexes KW - dna-protein KW - energy KW - free KW - th_ibg AU - Saiz, Leonor AU - Vilar, Jose PY - 2006/Feb/10/ UR - http://arxiv.org/abs/q-bio/0602012 ER -