Abstract:
:Directly measured forces between DNA helices in ordered arrays have been reduced to simple force coefficients and mathematical expressions for the interactions between pairs of molecules. The tabulated force parameters and mathematical expressions can be applied to parallel molecules or, by transformation, to skewed molecules of variable separation and mutual angle. This "toolbox" of intermolecular forces is intended for use in modelling molecular interactions, assembly, and conformation. The coefficients characterizing both the exponential hydration and the electrostatic interactions depend strongly on the univalent counterion species in solution, but are only weakly sensitive to anion type and temperature (from 5 to 50 degrees C). Interaction coefficients for the exponentially varying hydration force seen at spacings less than 10 to 15 A between surfaces are extracted directly from pressure versus interaxial distance curves. Electrostatic interactions are only observed at larger spacings and are always coupled with configurational fluctuation forces that result in observed exponential decay lengths that are twice the expected Debye-Huckel length. The extraction of electrostatic force parameters relies on a theoretical expression describing steric forces of molecules "colliding" through soft exponentially varying direct interactions.
journal_name
Biophys Jjournal_title
Biophysical journalauthors
Podgornik R,Rau DC,Parsegian VAdoi
10.1016/S0006-3495(94)80877-Xsubject
Has Abstractpub_date
1994-04-01 00:00:00pages
962-71issue
4eissn
0006-3495issn
1542-0086pii
S0006-3495(94)80877-Xjournal_volume
66pub_type
杂志文章abstract::Von Willebrand factor (VWF) is a multimeric plasma glycoprotein involved in both hemostasis and thrombosis. VWF conformational changes, especially unfolding of the A2 domain, may be required for efficient enzymatic cleavage in vivo. It has been shown that a single A2 domain unfolds at most probable unfolding forces of...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2009.12.4324
更新日期:2010-04-21 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2012.03.025
更新日期:2012-04-18 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(93)81044-0
更新日期:1993-07-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.107.104554
更新日期:2007-09-15 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(83)84366-5
更新日期:1983-04-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(96)79359-1
更新日期:1996-09-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2020.03.009
更新日期:2020-04-21 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2013.10.013
更新日期:2013-12-17 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.104.044453
更新日期:2004-11-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(93)81150-0
更新日期:1993-09-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(86)83526-3
更新日期:1986-11-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(02)73905-2
更新日期:2002-09-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(84)84145-4
更新日期:1984-01-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/s0006-3495(02)75287-9
更新日期:2002-11-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2012.01.021
更新日期:2012-02-22 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.104.046193
更新日期:2004-10-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/s0006-3495(75)85799-7
更新日期:1975-02-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(90)82444-9
更新日期:1990-10-01 00:00:00
abstract::Molecular dynamics simulations are presented for a Thermus aquaticus (Taq) DNA polymerase I complex (consisting of the protein, the primer-template DNA strands, and the incoming nucleotide) subjected to external forces. The results obtained with a force applied to the DNA template strand provide insights into the effe...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.103.039313
更新日期:2004-09-01 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2014.03.017
更新日期:2014-05-06 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2019.09.029
更新日期:2019-12-17 00:00:00
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journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(87)83296-4
更新日期:1987-12-01 00:00:00
abstract::It has been observed in numerical experiments that adding a cargo to a motor protein can regularize its gait. Here we explain these results via asymptotic analysis on a general stochastic motor protein model. This analysis permits a computation of various observables (e.g., the mean velocity) of the motor protein and ...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.108.130674
更新日期:2008-09-15 00:00:00
abstract::Receptor activity modifying proteins (RAMPs) are a family of single-pass transmembrane proteins that dimerize with G-protein-coupled receptors. They may alter the ligand recognition properties of the receptors (particularly for the calcitonin receptor-like receptor, CLR). Very little structural information is availabl...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.106.084582
更新日期:2006-07-15 00:00:00
abstract::Collagen fibrils form extracellular networks that regulate cell functions and provide mechanical strength to tissues. Collagen fibrillogenesis is an entropy-driven process promoted by warming and reversed by cooling. Here, we investigate the influence of noncovalent interactions mediated by the collagen triple helix o...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2013.05.035
更新日期:2013-07-02 00:00:00
abstract::Influenza A virus M2 protein is known to form acid-activated, proton-selective, amantadine-sensitive channels. We directly measured proton uptake in vesicles containing reconstituted M2 by monitoring external pH after addition of valinomycin to vesicles with 100-fold-diluted external [K(+)]. External pH typically incr...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1529/biophysj.107.109082
更新日期:2008-01-15 00:00:00
abstract::The calyx of Held is a giant nerve terminal that forms a glutamatergic synapse in the auditory pathway. Due to its large size, it offers a number of advantages for biophysical studies, including voltage-clamp of both pre- and postsynaptic compartments and the loading with indicator dyes and caged compounds. Three aspe...
journal_title:Biophysical journal
pub_type: 杂志文章,评审
doi:10.1016/j.bpj.2016.12.017
更新日期:2017-01-24 00:00:00
abstract::The bovine eye lens protein, alpha L crystallin, has been studied with photon correlation spectroscopy and statical light scattering in the concentration range up to 200 g/l in different solvent conditions. At higher concentration (c greater than 70 g/l) the scattering behavior is quite complicated, which results in n...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(85)83955-2
更新日期:1985-05-01 00:00:00
abstract::RNA junctions are common secondary structural elements present in a wide range of RNA species. They play crucial roles in directing the overall folding of RNA molecules as well as in a variety of biological functions. In particular, there has been great interest in the dynamics of RNA junctions, including conformation...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/j.bpj.2013.12.008
更新日期:2014-01-21 00:00:00
abstract::KATP channels assemble from four regulatory SUR1 and four pore-forming Kir6.2 subunits. At the single-channel current level, ATP-dependent gating transitions between the active burst and the inactive interburst conformations underlie inhibition of the KATP channel by intracellular ATP. Previously, we identified a slow...
journal_title:Biophysical journal
pub_type: 杂志文章
doi:10.1016/S0006-3495(04)74269-1
更新日期:2004-04-01 00:00:00