Sequence-dependent surface condensation of a pioneer transcription factor on DNA
Biomolecular condensates are dense assemblies of proteins that form distinct biochemical
compartments without being surrounded by a membrane. Some, such as P granules and …
compartments without being surrounded by a membrane. Some, such as P granules and …
Multicolor single-molecule FRET for DNA and RNA processes
Single-molecule fluorescence resonance energy transfer (smFRET) is a useful tool for
observing the dynamics of protein–nucleic acid interactions. Although most smFRET …
observing the dynamics of protein–nucleic acid interactions. Although most smFRET …
Speed–specificity trade-offs in the transcription factors search for their genomic binding sites
Transcription factors (TFs) regulate gene expression by binding DNA sequences recognized
by their DNA-binding domains (DBDs). DBD-recognized motifs are short and highly …
by their DNA-binding domains (DBDs). DBD-recognized motifs are short and highly …
Transient non-specific DNA binding dominates the target search of bacterial DNA-binding proteins
Despite their diverse biochemical characteristics and functions, all DNA-binding proteins
share the ability to accurately locate their target sites among the vast excess of non-target …
share the ability to accurately locate their target sites among the vast excess of non-target …
Sequence specificity in DNA binding is mainly governed by association
Sequence-specific binding of proteins to DNA is essential for accessing genetic information.
We derive a model that predicts an anticorrelation between the macroscopic association and …
We derive a model that predicts an anticorrelation between the macroscopic association and …
Single-molecule tracking of transcription protein dynamics in living cells: seeing is believing, but what are we seeing?
Highlights•Transcription is controlled by large numbers of factors. Mechanistic models
require quantitative approaches.•Single Molecule Tracking provides direct measurements of …
require quantitative approaches.•Single Molecule Tracking provides direct measurements of …
A helicase-tethered ORC flip enables bidirectional helicase loading
Replication origins are licensed by loading two Mcm2-7 helicases around DNA in a head-to-
head conformation poised to initiate bidirectional replication. This process requires origin …
head conformation poised to initiate bidirectional replication. This process requires origin …
Transcription factor dynamics
To predict transcription, one needs a mechanistic understanding of how the numerous
required transcription factors (TFs) explore the nuclear space to find their target genes …
required transcription factors (TFs) explore the nuclear space to find their target genes …
[HTML][HTML] A common framework for single-molecule localization using sequential structured illumination
Localization of single fluorescent molecules is key for physicochemical and biophysical
measurements, such as single-molecule tracking and super-resolution imaging by single …
measurements, such as single-molecule tracking and super-resolution imaging by single …
Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization
E Amselem, B Broadwater, T Hävermark… - Nature …, 2023 - nature.com
Reaching sub-millisecond 3D tracking of individual molecules in living cells would enable
direct measurements of diffusion-limited macromolecular interactions under physiological …
direct measurements of diffusion-limited macromolecular interactions under physiological …