+ Site Statistics
+ Search Articles
+ PDF Full Text Service
How our service works
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ Translate
+ Recently Requested

Short-range coherence of internal protein dynamics revealed by high-precision in silico study

Short-range coherence of internal protein dynamics revealed by high-precision in silico study

Journal of the American Chemical Society 131(41): 14610-1

Correlated internal dynamics of proteins, which is believed to be important for their function, is analyzed at unprecedented precision using explicit-solvent submicrosecond molecular dynamics simulations of ubiquitin and calbindin D(9k). Without exception, all of the mobile dihedral angle pairs in ubiquitin with sizable dynamics correlations (R(2) >or= 0.1) are at short-range distance. In rare cases, they involve sequentially remote dihedral angles that form sparse clusters, suggesting a structural-dynamic propagation mechanism via soft torsional couplings that act over short distances with a rapid loss of coherence over longer distances.

Please choose payment method:

(PDF emailed within 0-6 h: $19.90)

Accession: 055759648

Download citation: RISBibTeXText

PMID: 19780553

DOI: 10.1021/ja905340s

Related references

High protein concentrations retard short range lateral diffusion in molecular dynamics simulations of membranes. Biophysical Journal 55(2 PART 2): 574A, 1989

High-precision, high-accuracy ultralong-range swept-source optical coherence tomography using vertical cavity surface emitting laser light source. Optics Letters 38(5): 673-675, 2013

Functional frontoparietal connectivity during short-term memory as revealed by high-resolution EEG coherence analysis. Behavioral Neuroscience 118(4): 687-697, 2004

High precision, short range ultrasonic sensing by means of resonance mode-locking. Ultrasonics 33(6): 441-444, 1995

Short-range high-precision surveillance of nocturnal migration and tracking of single targets. Israel Journal of Zoology 41(3): 207-220, 1995

Magma dynamics of 2007 Stromboli effusive eruption as revealed by high precision location of seismic events. Journal of Volcanology and Geothermal Research 198.3-4, 2010

Possibilities of short-range prediction of strong earthquakes from data of high-precision tilt measurements. Izvestiya - Russian Academy of Sciences Physics of the Solid Earth, 2003

Short-time dynamics of lysozyme solutions with competing short-range attraction and long-range repulsion: Experiment and theory. Journal of Chemical Physics 148(6): 065101-065101, 2018

Short-time dynamics in dispersions with competing short-range attraction and long-range repulsion. Soft Matter 11(48): 9273-9280, 2016

How far in-silico computing meets real experiments. A study on the structure and dynamics of spin labeled vinculin tail protein by molecular dynamics simulations and EPR spectroscopy. Bmc Genomics 14 Suppl 2: S4-S4, 2013

Internal dynamics of human ubiquitin revealed by 13C-relaxation studies of randomly fractionally labeled protein. Biochemistry 35(19): 6116-6125, 1996

Short-range order and collective dynamics of poly(vinyl acetate): a combined study by neutron scattering and molecular dynamics simulations. Journal of Chemical Physics 129(22): 224903-224903, 2008

Theoretical study of Sutherland fluids with long-range, short-range, and highly short-range potential parameters. Journal of Chemical Physics 128(5): 054503-054503, 2008

High speed, wide velocity dynamic range Doppler optical coherence tomography (Part II): Imaging in vivo cardiac dynamics of Xenopus laevis. Optics Express 11(14): 1650-1658, 2003

Dynamics of periphyton nitrogen fixation in short-hydroperiod wetlands revealed by high-resolution seasonal sampling. Hydrobiologia 722(1): 263-277, 2014