ArticleBiophysical journal2007
Fretting about FRET: correlation between kappa and R.
Article in Biophysical journal, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Integrating Molecular Dynamics Simulations and Single-molecule FRET Spectroscopy: From Computational FRET Estimation to Experimental Data Interpretation.The journal of physical chemistry. B · 2026Review
- Characterization of Ligand Binding in Human Serum Albumin from Atomistic Energy Transfer Simulations.Small methods · 2025Article
- Interactions of Neurodegenerative Disease Positron Emission Tomography Imaging Probe Candidates with the C-Terminus of α-Synuclein Fibrils.Chembiochem : a European journal of chemical biology · 2025Article
- Paths to stability - actin regulation of adherens junction mechanics.Journal of cell science · 2025Review
- Different mCherry isoforms show distinct photophysical properties in FRET tandem constructs.Frontiers in bioengineering and biotechnology · 2025Article
- Determination of FRET orientation factor between artificial fluorophore and photosynthetic light-harvesting 2 complex (LH2).Scientific reports · 2022Article
- Loop-closure kinetics reveal a stable, right-handed DNA intermediate in Cre recombination.Nucleic acids research · 2020Article
- Theory of FRET "Spectroscopic Ruler" for Short Distances: Application to Polyproline.The journal of physical chemistry. B · 2018Article
- Challenging FRET-based E-Cadherin force measurements in Drosophila.Scientific reports · 2017Article
- Computational refinement of spectroscopic FRET measurements.Data in brief · 2017Article
- Article
- Green tea polyphenol epigallocatechin-O-gallate induces cell death by acid sphingomyelinase activation in chronic myeloid leukemia cells.Oncology reports · 2015Article
- Contribution of fluorophore dynamics and solvation to resonant energy transfer in protein-DNA complexes: a molecular-dynamics study.Biophysical journal · 2014Article
- Estimating the distance separating fluorescent protein FRET pairs.Methods (San Diego, Calif.) · 2014Article
- Flexibility of the bacterial chaperone trigger factor in microsecond-timescale molecular dynamics simulations.Biophysical journal · 2013Article
- A toolkit and benchmark study for FRET-restrained high-precision structural modeling.Nature methods · 2012Article
- Simple estimation of Förster Resonance Energy Transfer (FRET) orientation factor distribution in membranes.International journal of molecular sciences · 2012Article
- Real-time fluorescent image analysis of DNA spot hybridization kinetics to assess microarray spot heterogeneity.Analytical chemistry · 2012Article
- Functional domain motions in proteins on the ~1-100 ns timescale: comparison of neutron spin-echo spectroscopy of phosphoglycerate kinase with molecular-dynamics simulation.Biophysical journal · 2012Article
- Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Molecular dynamics simulations were used to examine the structural dynamics of two fluorescent probes attached to a typical protein, hen egg-white lysozyme (HEWL). The donor probe (D) was attached via a succinimide group, consistent with the commonly-used maleimide conjugation chemistry, and the acceptor probe (A) was bound into the protein as occurs naturally for HEWL and the dye Eosin Y. The <kappa(2)> is found to deviate significantly from the theoretical value and high correlation between the orientation factor kappa and the distance R is observed. The correlation is quantified using several possible fixed A orientations and correlation as high as 0.80 is found between kappa and R and as high as 0.68 between kappa(2) and R. The presence of this correlation highlights the fact that essentially all fluorescence-detected resonance energy transfer studies have assumed that kappa and R are independent--an assumption that is clearly not justified in the system studied here. The correlation results in the quantities <kappa(2)R(-)(6)> and <kappa(2)> < R(-)(6)> differing by a factor of 1.6. The observed correlation between kappa and R is caused by the succinimide linkage between the D and HEWL, which is found to be relatively inflexible.
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