Biophysics

Fast ATP-Dependent Subunit Rotation in Reconstituted F _o F ₁ -ATP Synthase Trapped in Solution

1. Thomas Heitkamp
2. Michael Börsch

• Curated by Biophysics Colab

  Endorsement statement (21 September 2021)

  The preprint by Heitkamp and Börsch describes visualization of the fast ATP-dependent subunit rotation in reconstituted FoF1-ATP synthase using single-molecule FRET techniques. Using a highly innovative method for trapping single molecules, the authors were able to see the static and dynamic disorder of enzymes in solution, not possible in previous studies. The work makes important contributions to both understanding the structural dynamics of FoF1-ATP synthase and the development of methodologies to study single-molecule dynamics of other proteins in solution.

  (This endorsement refers to version 5 of this preprint, which was peer reviewed by Biophysics Colab.)

Reviewed by Biophysics Colab

Dual domain recognition determines SARS-CoV-2 PLpro selectivity for human ISG15 and K48-linked di-ubiquitin

1. Pawel M. Wydorski
2. Jerzy Osipiuk
3. Benjamin T. Lanham
4. Christine Tesar
5. Michael Endres
6. Elizabeth Engle
7. Robert Jedrzejczak
8. Vishruth Mullapudi
9. Karolina Michalska
10. Krzysztof Fidelis
11. David Fushman
12. Andrzej Joachimiak
13. Lukasz A. Joachimiak

Reviewed by ScreenIT

Molecular architecture and dynamics of SARS-CoV-2 envelope by integrative modeling

1. Weria Pezeshkian
2. Fabian Grünewald
3. Oleksandr Narykov
4. Senbao Lu
5. Valeria Arkhipova
6. Alexey Solodovnikov
7. Tsjerk A. Wassenaar
8. Siewert J. Marrink
9. Dmitry Korkin

Reviewed by ScreenIT

Mitoxantrone dihydrochloride, an FDA approved drug, binds with SARS-CoV-2 NSP1 C-terminal

1. Prateek Kumar
2. Taniya Bhardwaj
3. Rajanish Giri

Reviewed by ScreenIT

Structure-activity relationships of B.1.617 and other SARS-CoV-2 spike variants

1. Tzu-Jing Yang
2. Pei-Yu Yu
3. Yuan-Chih Chang
4. Ning-En Chang
5. Yu-Xi Tsai
6. Kang-Hao Liang
7. Piotr Draczkowski
8. Bertina Lin
9. Yong-Sheng Wang
10. Yu-Chun Chien
11. Kay-Hooi Khoo
12. Han-Chung Wu
13. Shang-Te Danny Hsu

Reviewed by ScreenIT

Correlative all-optical quantification of mass density and mechanics of subcellular compartments with fluorescence specificity

1. Raimund Schlüßler
2. Kyoohyun Kim
3. Martin Nötzel
4. Anna Taubenberger
5. Shada Abuhattum
6. Timon Beck
7. Paul Müller
8. Shovamaye Maharana
9. Gheorghe Cojoc
10. Salvatore Girardo
11. Andreas Hermann
12. Simon Alberti
13. Jochen Guck

• Curated by eLife

  Evaluation Summary:

  In this interesting study, the authors combined Brillouin microscopy with Optical Diffraction Tomography and epi-fluorescence imaging to investigate physical properties of biological materials including nucleoplasm, cytoplasm, phase-separated organelles, and adipocytes. The results are largely convincing and offer interesting insights into the material properties of these subcellular structures.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

Reviewed by eLife

A mechanosensing mechanism controls plasma membrane shape homeostasis at the nanoscale

1. Xarxa Quiroga
2. Nikhil Walani
3. Andrea Disanza
4. Albert Chavero
5. Alexandra Mittens
6. Francesc Tebar
7. Xavier Trepat
8. Robert G Parton
9. María Isabel Geli
10. Giorgio Scita
11. Marino Arroyo
12. Anabel-Lise Le Roux
13. Pere Roca-Cusachs

• Curated by eLife

  Evaluation Summary:

  When a cell undergoes rapid shrinking, excess plasma membrane becomes available. The authors show that excess plasma membrane forms very small bleb-like evaginations that disappear after a few minutes. They show a new role for the I-BAR protein IRSp53 and Arp2/3-dependent actin polymerization which surprisingly leads to the flattening of the bud instead of its growth, as it is the case in filopodial protrusions. This manuscript will be of general interest to cell biologists working on membrane-cortex interactions.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #3 agreed to share their name with the authors.)

Reviewed by eLife

Mechanism of CFTR correction by type I folding correctors

1. Karol Fiedorczuk
2. Jue Chen

• Curated by Biophysics Colab

  Endorsement statement (27 April 2022)

  The preprint by Fiedorczuk and Chen presents structures of the cystic fibrosis transmembrane conductance regulator (CFTR) chloride channel in complex with type I correctors, a class of drug currently used to treat cystic fibrosis by targeting CFTR folding and stability. The strength of the paper lies in the consistency of the structural data with maturation and binding assays, as well as with much of the existing literature. Overall, the work represents a rigorous investigation of the mechanism of these drugs, and will be of interest to those who study cystic fibrosis, protein folding, and drug design.

  (This endorsement refers to version 1 of this preprint, which was peer reviewed by Biophysics Colab.)

Reviewed by Biophysics Colab

Single-molecule imaging with cell-derived nanovesicles reveals early binding dynamics at a cyclic nucleotide-gated ion channel

1. Vishal R. Patel
2. Arturo M. Salinas
3. Darong Qi
4. Shipra Gupta
5. David J. Sidote
6. Marcel P. Goldschen-Ohm

• Curated by Biophysics Colab

  Endorsement statement (30 August 2021)

  The preprint by Patel et al. describes the development of a single molecule approach for studying individual ligand binding events in membrane proteins within native lipid environments. The approach represents an elegant way to investigate the dynamics of ligand binding, and potential relationships with conformational changes, in molecules embedded within physiological membranes. The work makes an important contribution that will be of interest to scientists working on molecular mechanisms in ion channels and other membrane proteins.

  (This endorsement by Biophysics Colab refers to version 2 of this preprint, which has been revised in response to peer review of version 1.)

Reviewed by Biophysics Colab

Quantitative theory for the diffusive dynamics of liquid condensates

1. Lars Hubatsch
2. Louise M Jawerth
3. Celina Love
4. Jonathan Bauermann
5. TY Dora Tang
6. Stefano Bo
7. Anthony A Hyman
8. Christoph A Weber

• Curated by eLife

  Evaluation Summary:

  This paper will be of broad interest to chemists and biologists studying complex coacervate systems, including biomolecular condensates. Its model provides a new way of obtaining diffusion properties inside and outside the condensates without the necessity of nontrivial assumptions. The model's capability is well presented by applying to experimental data and through further investigating the model through simulations.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

Reviewed by eLife