NDLI: Unfolding and melting of DNA (RNA) hairpins: the concept of structure-specific 2D dynamic landscapes.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Lin, Milo M. Meinhold, Lars Shorokhov, Dmitry Zewail, Ahmed H.
Description	Country affiliation: United States Author Affiliation: Lin MM ( Physical Biology Center for Ultrafast Science and Technology, California Institute of Technology, Pasadena, CA 91125, USA.)
Abstract	A 2D free-energy landscape model is presented to describe the (un)folding transition of DNA/RNA hairpins, together with molecular dynamics simulations and experimental findings. The dependence of the (un)folding transition on the stem sequence and the loop length is shown in the enthalpic and entropic contributions to the free energy. Intermediate structures are well defined by the two coordinates of the landscape during (un)zipping. Both the free-energy landscape model and the extensive molecular dynamics simulations totaling over 10 mus predict the existence of temperature-dependent kinetic intermediate states during hairpin (un)zipping and provide the theoretical description of recent ultrafast temperature-jump studies which indicate that hairpin (un)zipping is, in general, not a two-state process. The model allows for lucid prediction of the collapsed state(s) in simple 2D space and we term it the kinetic intermediate structure (KIS) model.
File Format	HTM / HTML
ISSN	14639076
e-ISSN	14639084
DOI	10.1039/b804675c
Journal	Physical Chemistry Chemical Physics
Issue Number	29
Volume Number	10
Language	English
Publisher	Royal Society of Chemistry
Publisher Date	2008-08-07
Publisher Place	Great Britain (UK)
Access Restriction	Open
Subject Keyword	Discipline Physics Discipline Biophysics Discipline Chemistry Chemistry Metabolism Benchmarking Genetics Kinetics Models, Molecular Nucleic Acid Conformation Nucleic Acid Denaturation Thermodynamics Research Support, N.i.h., Extramural Research Support, Non-u.s. Gov't Research Support, U.s. Gov't, Non-p.h.s.
Content Type	Text
Resource Type	Article
Subject	Physics and Astronomy Physical and Theoretical Chemistry

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins.

Molecular-crowding effects on single-molecule RNA folding/unfolding thermodynamics and kinetics.

Study of force induced melting of dsDNA as a function of length and conformation.

DNA folding and melting observed in real time redefine the energy landscape.

Extreme conformational diversity in human telomeric DNA.

Unfolding and Melting of DNA (RNA) Hairpins: The Concept of Structure-Specific 2D Dynamic Landscapes

Single-Molecule FRET Studies of HIV TAR–DNA Hairpin Unfolding Dynamics

Localization of denaturation bubbles in random DNA sequences.

Single Molecule Conformational Memory Extraction: P5ab RNA Hairpin

Unfolding and melting of DNA (RNA) hairpins: the concept of structure-specific 2D dynamic landscapes.

Similar Documents

Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins.

Molecular-crowding effects on single-molecule RNA folding/unfolding thermodynamics and kinetics.

Study of force induced melting of dsDNA as a function of length and conformation.

DNA folding and melting observed in real time redefine the energy landscape.

Extreme conformational diversity in human telomeric DNA.

Unfolding and Melting of DNA (RNA) Hairpins: The Concept of Structure-Specific 2D Dynamic Landscapes

Single-Molecule FRET Studies of HIV TAR–DNA Hairpin Unfolding Dynamics

Localization of denaturation bubbles in random DNA sequences.

Single Molecule Conformational Memory Extraction: P5ab RNA Hairpin

Unfolding and melting of DNA (RNA) hairpins: the concept of structure-specific 2D dynamic landscapes.