Footprint traversal by adenosine-triphosphate-dependent chromatin remodeler motor.
Adenosine-triphosphate (ATP)-dependent chromatin remodeling enzymes (CREs) are biomolecular motors in eukaryotic cells. These are driven by a chemical fuel, namely, ATP. CREs actively participate in many cellular processes that require accessibility of specific segments of DNA which are packaged as chromatin. The basic unit of chromatin is a nucleosome where 146 bp ∼ 50 nm of a double-stranded DNA (dsDNA) is wrapped around a spool formed by histone proteins. The helical path of histone-DNA contact on a nucleosome is also called "footprint." We investigate the mechanism of footprint traversal by a CRE that translocates along the dsDNA. Our two-state model of a CRE captures effectively two distinct chemical (or conformational) states in the mechanochemical cycle of each ATP-dependent CRE. We calculate the mean time of traversal. Our predictions on the ATP dependence of the mean traversal time can be tested by carrying out in vitro experiments on mononucleosomes.
Department of Physics, Indian Institute of Technology, Kanpur 208016, India.
Ashok
A
Garai
Jesrael
J
Mani
Debashish
D
Chowdhury
D000255:Adenosine Triphosphate / Q000737:chemistry*; D002843:Chromatin / Q000737:chemistry*; D003198:Computer Simulation; D004247:DNA / Q000737:chemistry*; D008956:Models, Chemical; D008958:Models, Molecular; D020409:Molecular Motor Proteins / Q000737:chemistry*; D009038:Motion
D002843:Chromatin; D020409:Molecular Motor Proteins; D000255:Adenosine Triphosphate; D004247:DNA