71 citations · 335 across the 13 of their papers we have counts for
11 papers · 1 filter
What do we know about DNA mechanics so far?
Abhishek Aggarwal, Supriyo Naskar, Anil Kumar Sahoo +3
The DNA molecule, apart from carrying the genetic information, plays a crucial role in a variety of biological processes and find applications in drug design, nanotechnology and na…
Ionic liquids make DNA rigid
Ashok Garai, Debostuti Ghoshdastidar, Sanjib Senapati +1
Persistence length of dsDNA is known to decrease with increase in ionic concentration of the solution. In contrast to this, here we show that persistence length of dsDNA increases…
Overstretching of B-DNA with various pulling protocols: Appearance of structural polymorphism and S-DNA
Ashok Garai, Santosh Mogurampelly, Saientan Bag +1
We report a structural polymorphism of the S-DNA when a canonical B-DNA is stretched under different pulling protocols and provide a fundamental molecular understanding of the DNA…
Footprint traversal by ATP-dependent chromatin remodeler motor
Ashok Garai, Jesrael Mani, Debashish Chowdhury
ATP-dependent chromatin remodeling enzymes (CRE) are bio-molecular motors in eukaryotic cells. These are driven by a chemical fuel, namely, adenosine triphosphate (ATP). CREs activ…
Stochastic kinetics of a single headed motor protein: dwell time distribution of KIF1A
Ashok Garai, Debashish Chowdhury
KIF1A, a processive single headed kinesin superfamily motor, hydrolyzes Adenosine triphosphate (ATP) to move along a filamentous track called microtubule. The stochastic movement o…
Stochastic kinetics of ribosomes: single motor properties and collective behavior
Ashok Garai, Debanjan Chowdhury, Debashish Chowdhury +1
Synthesis of protein molecules in a cell are carried out by ribosomes. A ribosome can be regarded as a molecular motor which utilizes the input chemical energy to move on a messeng…
Fluctuations in protein synthesis from a single RNA template: stochastic kinetics of ribosomes
Ashok Garai, Debashish Chowdhury, T. V. Ramakrishnan
Proteins are polymerized by cyclic machines called ribosome which use their messenger RNA (mRNA) track also as the corresponding template and the process is called translation. We…
Intra-cellular traffic: bio-molecular motors on filamentary tracks
Debashish Chowdhury, Aakash Basu, Ashok Garai +4
Molecular motors are macromolecular complexes which use some form of input energy to perform mechanical work. The filamentary tracks, on which these motors move, are made of either…
Traffic of single-headed motor proteins KIF1A: effects of lane changing
Debashish Chowdhury, Ashok Garai, Jian-Sheng Wang
KIF1A kinesins are single-headed motor proteins which move on cylindrical nano-tubes called microtubules (MT). A normal MT consists of 13 protofilaments on which the equispaced mot…
A two-state model for helicase translocation and unwinding of nucleic acids
Ashok Garai, Debashish Chowdhury, M. D. Betterton
Helicases are molecular motors that unwind double-stranded nucleic acids (dsNA), such as DNA and RNA). Typically a helicase translocates along one of the NA single strands while un…
Intra-cellular transport by single-headed kinesin KIF1A: effects of single-motor mechano-chemistry and steric interactions
Philip Greulich, Ashok Garai, Katsuhiro Nishinari +2
In eukaryotic cells, many motor proteins can move simultaneously on a single microtubule track. This leads to interesting collective phenomena like jamming. Recently we reported ({…