Correlation between binding rate constants and individual information of E. coli Fis binding sites.
Correlation between binding rate constants and individual information of E. coli Fis binding sites.
复制标题
结合速率常数与大肠杆菌FIS结合位点的个体信息之间的相关性。
DOI：
10.1093/nar/gkm471
复制
发表时间：
2007
影响因子：
14.9
通讯作者：
Schneider, Thomas D.
中科院分区：
文献类型：
--
作者：
Shultzaberger, Ryan K.;Roberts, Lindsey R.;Lyakhov, Ilya G.;Sidorov, Igor A.;Stephen, Andrew G.;Fisher, Robert J.;Schneider, Thomas D.
Individual protein binding sites on DNA can be measured in bits of information. This information is related to the free energy of binding by the second law of thermodynamics, but binding kinetics appear to be inaccessible from sequence information since the relative contributions of the on- and off-rates to the binding constant, and hence the free energy, are unknown. However, the on-rate could be independent of the sequence since a protein is likely to bind once it is near a site. To test this, we used surface plasmon resonance and electromobility shift assays to determine the kinetics for binding of the Fis protein to a range of naturally occurring binding sites. We observed that the logarithm of the off-rate is indeed proportional to the individual information of the binding sites, as predicted. However, the on-rate is also related to the information, but to a lesser degree. We suggest that the on-rate is mostly determined by DNA bending, which in turn is determined by the sequence information. Finally, we observed a break in the binding curve around zero bits of information. The break is expected from information theory because it represents the coding demarcation between specific and nonspecific binding.
登录
查看更多内容
影响因子：
3.2
作者：
BALL, CA;OSUNA, R;JOHNSON, RC
通讯作者：
JOHNSON, RC
影响因子：
2.9
作者：
Merickel, SK;Sanders, ER;Johnson, RC
通讯作者：
Johnson, RC
影响因子：
14.9
作者：
Mirny, LA;Gelfand, MS
通讯作者：
Gelfand, MS
影响因子：
5.6
作者：
BERG, OG;VONHIPPEL, PH
通讯作者：
VONHIPPEL, PH
影响因子：
14.9
作者：
BARRICK, D;VILLANUEBA, K;STORMO, GD
通讯作者：
STORMO, GD