Author

A. Kapanidis

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 4 Biochemistry· 1 Cell Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Assay:fluorescence / live-cell microscopy· 3 Research Focus:cell signaling & trafficking· 2 Research Focus:chromatin & epigenetic regulation· 2 Approach:microscopy & imaging analysis· 2 Organism:bacteria (other)· 1 Organism:E. coli· 1 Research Focus:protein folding & dynamics· 1

Frequent Co-Authors

A. MAZUMDER· 4 shared A. Barth· 1 shared A. Hartmann· 1 shared A. M. Malinen· 1 shared A. Sefer· 1 shared A. Wang· 1 shared B. Ambrose· 1 shared C. A. M. Seidel· 1 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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4 shared papersBiophysics

A. MAZUMDER

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

The displacement of the σ70 finger in initial transcription is highly heterogeneous and promoter-dependent

A. Wang, A. MAZUMDER, A. Kapanidis

This study uses smFRET to show that σ70 finger displacement during transcription initiation is heterogeneous and promoter-dependent, affecting gene regulation in bacteria.

bioRxiv · Jun 10, 2023 · PreprintBiophysics

Reliability and accuracy of single-molecule FRET studies for characterization of structural dynamics and distances in proteins

G. Agam, C. Gebhardt, M. Popara, R. Maechtel, J. Folz, B. Ambrose, N. Chamachi, S. Y. Chung, T. D. Craggs, M. de Boer, D. Grohmann, T. Ha, A. Hartmann, J. Hendrix, V. Hirschfeld, , T. Cordes

This study evaluates the reliability and accuracy of single-molecule FRET for measuring protein structural dynamics and distances, finding high precision and accuracy with specific uncertainty limits.

bioRxiv · Aug 3, 2022Biophysics

Bleaching-resistant, near-continuous single-molecule fluorescence and FRET based on fluorogenic and transient DNA binding

M. Kummerlin, A. Mazumder, A. Kapanidis

This paper introduces a method to extend single-molecule fluorescence observation times by using fluorogenic DNA binding, enabling near-continuous monitoring for over an hour.

bioRxiv · Apr 19, 2022Biophysics

Transcription initiation at a consensus bacterial promoter proceeds via a "bind-unwind-load-and-lock" mechanism

A. Mazumder, R. H. Ebright, A. Kapanidis

This study reveals the mechanism of promoter unwinding during transcription initiation in bacteria using single-molecule techniques, identifying a 'bind-unwind-load-and-lock' process.

bioRxiv · Mar 28, 2021Biochemistry

Transient non-specific DNA binding dominates the target search of bacterial DNA-binding proteins

M. Stracy, J. schweizer, D. Sherratt, A. kapanidis, S. Uphoff, C. Lesterlin

This study shows that bacterial DNA-binding proteins spend most of their search time bound to DNA, with frequent short-lived interactions slowing their movement through the nucleoid.

bioRxiv · Aug 13, 2020Cell Biology

The RNA polymerase clamp interconverts dynamically among three states and is stabilized in a partly closed state by ppGpp

D. Duchi, A. Mazumder, A. M. Malinen, R. Ebright, A. Kapanidis

This study uses single-molecule FRET to show RNA polymerase clamp interconverts among three states, with ppGpp stabilizing the partly closed state during transcription.

bioRxiv · Mar 8, 2018Biophysics