Correction to: Long range Debye-Hückel correction for computation of grid-based electrostatic forces between biomacromolecules
The original publication of this article [1] contained an error
Citation: BMC Biophysics 2020 12:2
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The original publication of this article [1] contained an error
Citation: BMC Biophysics 2020 12:2
Bacterial sodium channels are important models for understanding ion permeation and selectivity. However, their homotetrameric structure limits their use as models for understanding the more complex eukaryotic...
Citation: BMC Biophysics 2019 12:1
Cellular environments are highly crowded with biological macromolecules resulting in frequent non-specific interactions. While the effect of such crowding on protein structure and dynamics has been studied ext...
Citation: BMC Biophysics 2018 11:8
Intracellular phase separation and aggregation of proteins with extended poly-glutamine (polyQ) stretches are hallmarks of various age-associated neurodegenerative diseases. Progress in our understanding of su...
Citation: BMC Biophysics 2018 11:7
Propensity of phenylalanine (Phe) for nonpolar environments drives its intercalation into phospholipid membranes, which has been implicated in metabolic and neurological disorders. The knowledge of Phe interca...
Citation: BMC Biophysics 2018 11:6
With the passing of Jörg Langowski 6 May 2017 in a sailplane accident, the scientific community was deprived of a strident and effective voice for DNA and chromatin molecular and computational biophysics, for ...
Citation: BMC Biophysics 2018 11:5
Applications of electric-field-induced permeabilization of cells range from cancer therapy to wastewater treatment. A unified understanding of the underlying mechanisms of membrane electropermeabilization, how...
Citation: BMC Biophysics 2018 11:4
Astrocytes were conceived for decades only as supporting cells of the brain. However, the observation of Ca2+ waves in astrocyte synctitia, their neurotransmitter receptor expression and gliotransmitter secret...
Citation: BMC Biophysics 2018 11:3
The pathways of thermal instability of amino acids have been unknown. New mass spectrometric data allow unequivocal quantitative identification of the decomposition products.
Citation: BMC Biophysics 2018 11:2
Cell based carriers are increasingly recognized as a good system for cargo delivery to cells. One of the reasons is their biocompatibility and low toxicity compared to artificial systems. Giant plasma membrane...
Citation: BMC Biophysics 2018 11:1
S100A5 is a calcium binding protein found in a small subset of amniote tissues. Little is known about the biological roles of S100A5, but it may be involved in inflammation and olfactory signaling. Previous wo...
Citation: BMC Biophysics 2017 10:8
Proteins with low sequence identity but almost identical tertiary structure and function have been valuable to uncover the relationship between sequence, tertiary structure, folding mechanism and functions. Tw...
Citation: BMC Biophysics 2017 10:7
Cellular biomechanics can be manipulated by strong electric fields, manifested by the field-induced membrane deformation and migration (galvanotaxis), which significantly impacts normal cellular physiology. Ar...
Citation: BMC Biophysics 2017 10:6
RAS protein interactions have predominantly been studied in the context of the RAF and PI3kinase oncogenic pathways. Structural modeling and X-ray crystallography have demonstrated that RAS isoforms bind to ca...
Citation: BMC Biophysics 2017 10(Suppl 1):5
The Cry toxins, or δ-endotoxins, are a diverse group of proteins produced by Bacillus thuringiensis. While DNA secondary structures are biologically relevant, it is unknown if such structures are formed in region...
Citation: BMC Biophysics 2017 10:4
Nanoparticles can be used as markers to track the position of biomolecules, such as single proteins, inside living cells. The activity of a protein can sometimes be inferred from changes in the mobility of the...
Citation: BMC Biophysics 2017 10:3
The Biomembrane Force Probe is an approachable experimental technique commonly used for single-molecule force spectroscopy and experiments on biological interfaces. The technique operates in the range of force...
Citation: BMC Biophysics 2017 10:2
Single-molecule microscopic experiments can measure the mechanical response of proteins to pulling forces applied externally along different directions (inducing different residue pairs in the proteins by unia...
Citation: BMC Biophysics 2017 10:1
Human lactoferrin is an iron-binding protein of the innate immune system consisting of two connected lobes, each with a binding site located in a cleft. The clefts in each lobe undergo a hinge movement from op...
Citation: BMC Biophysics 2016 9:7
The first step in many cellular signaling processes occurs at various types of receptors in the plasma membrane. Membrane cholesterol can alter these signaling pathways of living cells. However, the process in...
Citation: BMC Biophysics 2016 9:6
The viscoelastic properties of cells have been investigated by a variety of techniques. However, the experimental data reported in literature for viscoelastic moduli differ by up to three orders of magnitude. ...
Citation: BMC Biophysics 2016 9:5
Knowing the binding site of protein–protein complexes helps understand their function and shows possible regulation sites. The ultimate goal of protein–protein docking is the prediction of the three-dimensiona...
Citation: BMC Biophysics 2016 9:4
The editors of BMC Biophysics would like to thank all our reviewers who have contributed to the journal in Volume 8 (2015).
Citation: BMC Biophysics 2016 9:3
Transcription in Escherichia coli generates positive supercoiling in the DNA, which is relieved by the enzymatic activity of gyrase. Recently published experimental evidence suggests that transcription initiation...
Citation: BMC Biophysics 2016 9:2
The pathological hallmark of Parkinson’s disease is the deposition of cytoplasmic neuronal inclusions termed Lewy bodies. The major component of Lewy bodies is amyloid fibrils of α-synuclein. To investigate wh...
Citation: BMC Biophysics 2016 9:1
The possibility of validating biological macromolecules with locally disordered domains like RNA against solution properties is helpful to understand their function. In this work, we present a computational sc...
Citation: BMC Biophysics 2015 8:11
We study the relevance of diffusion for the dynamics of signaling pathways. Mathematical modeling of cellular diffusion leads to a coupled system of differential equations with Robin boundary conditions which ...
Citation: BMC Biophysics 2015 8:10
Single-molecule techniques have proven to be an excellent approach for quantitatively studying DNA-protein interactions at the single-molecule level. In magnetic tweezers, a force is applied to a biopolymer th...
Citation: BMC Biophysics 2015 8:9
The biophysical characteristics of cells determine their shape in isolation and when packed within tissues. Cells can form regular or irregular epithelial structures, round up and form clusters, or deform and ...
Citation: BMC Biophysics 2015 8:8
The calculation of diffusion-controlled ligand binding rates is important for understanding enzyme mechanisms as well as designing enzyme inhibitors.
Citation: BMC Biophysics 2015 8:7
Spin labels, which are chemically stable radicals attached at specific sites of a bio-molecule, enable investigations on structure and dynamics of proteins and nucleic acids using techniques such as site-direc...
Citation: BMC Biophysics 2015 8:6
Time-correlated Förster resonance energy transfer (FRET) probes molecular distances with greater accuracy than intensity-based calculation of FRET efficiency and provides a powerful tool to study biomolecular ...
Citation: BMC Biophysics 2015 8:5
The cell contains highly dynamic structures exploiting physical principles of self-organisation at the mesoscale (100 nm to 10 μm). Examples include non-membrane bound cytoplasmic bodies, cytoskeleton-based mo...
Citation: BMC Biophysics 2015 8:4
The editors of BMC Biophysics would like to thank all our reviewers who have contributed to the journal in Volume 7 (2014).
Citation: BMC Biophysics 2015 8:3
Cells exhibit distortion when exposed to a strong electric field, suggesting that the field imposes control over cellular biomechanics. Closed pure lipid bilayer membranes (vesicles) have been widely used for ...
Citation: BMC Biophysics 2015 8:2
The recent developments of far-field optical microscopy (single molecule imaging techniques) have overcome the diffraction barrier of light and improve image resolution by a factor of ten compared with convent...
Citation: BMC Biophysics 2015 8:1
The ion transport stoichiometry (q) of electrogenic transporters is an important determinant of their function. q can be determined by the reversal potential (Erev) if the transporter under study is the only elec...
Citation: BMC Biophysics 2014 7:14
The polyvalent acidic lipid phosphatidylinositol, 4,5-bisphosphate (PIP2) is important for many cellular functions. It has been suggested that different pools of PIP2 exist in the cytoplasmic leaflet of the plasm...
Citation: BMC Biophysics 2014 7:13
A ribosome can translate through both the single-stranded region and duplex region of messenger RNA (mRNA). Recent single molecule fluorescence energy transfer (smFRET) data showed that when the ribosome trans...
Citation: BMC Biophysics 2014 7:12
Particle-based reaction-diffusion algorithms facilitate the modeling of the diffusional motion of individual molecules and the reactions between them in cellular environments. A physically realistic model, dep...
Citation: BMC Biophysics 2014 7:11
Asymmetric cell division, whereby a parent cell generates two sibling cells with unequal content and thereby distinct fates, is central to cell differentiation, organism development and ageing. Unequal partiti...
Citation: BMC Biophysics 2014 7:10
Cells continuously undergo DNA damage from exogenous agents like irradiation or genotoxic chemicals or from endogenous radicals produced by normal cellular metabolic activities. DNA strand breaks are one of th...
Citation: BMC Biophysics 2014 7:9
THz experiments have been used to characterize the picosecond time scale fluctuations taking place in the model, globular protein crambin.
Citation: BMC Biophysics 2014 7:8
The complement protein C5a acts by primarily binding and activating the G-protein coupled C5a receptor C5aR (CD88), and is implicated in many inflammatory diseases. The cyclic hexapeptide PMX53 (sequence Ace-P...
Citation: BMC Biophysics 2014 7:5
A key challenge in interdisciplinary research is choosing the best approach from a large number of techniques derived from different disciplines and their interfaces.
Citation: BMC Biophysics 2014 7:6
Based on the dynamics of antigen recognition from T cell receptor complex and T cell activation, different function of T cells may present different morphology feature, at least at molecular level. Regulatory ...
Citation: BMC Biophysics 2014 7:7
Brownian dynamics (BD) simulations can be used to study very large molecular systems, such as models of the intracellular environment, using atomic-detail structures. Such simulations require strategies to con...
Citation: BMC Biophysics 2014 7:4
The diffusion-limited reaction rate of a uniform spherical reactant is generalized to anisotropic reactivity. Previous work has shown that the protein model of a uniform sphere is unsatisfactory in many cases....
Citation: BMC Biophysics 2014 7:3
Viroids are the smallest pathogens of plants. To date the structural and conformational details of the cleavage of Avocado sunblotch viroid (ASBVd) and the catalytic role of Mg2+ ions in efficient self-cleavage a...
Citation: BMC Biophysics 2014 7:2
The cell and tissue structural properties assessed with a conventional bright-field light microscope play a key role in cancer diagnosis, but they sometimes have limited accuracy in detecting early-stage cance...
Citation: BMC Biophysics 2014 7:1