Biophysics

Plasticity in structure and assembly of SARS-CoV-2 nucleocapsid protein

1. Huaying Zhao
2. Ai Nguyen
3. Di Wu
4. Yan Li
5. Sergio A Hassan
6. Jiji Chen
7. Hari Shroff
8. Grzegorz Piszczek
9. Peter Schuck

Reviewed by ScreenIT

Co-aggregation and secondary nucleation in the life cycle of human prolactin/galanin functional amyloids

1. Debdeep Chatterjee
2. Reeba S Jacob
3. Soumik Ray
4. Ambuja Navalkar
5. Namrata Singh
6. Shinjinee Sengupta
7. Laxmikant Gadhe
8. Pradeep Kadu
9. Debalina Datta
10. Ajoy Paul
11. Sakunthala Arunima
12. Surabhi Mehra
13. Chinmai Pindi
14. Santosh Kumar
15. Praful Singru
16. Sanjib Senapati
17. Samir K Maji

• Curated by eLife

  Evaluation Summary:

  This study sheds light on the formation of Prolactin/Galanin functional amyloids and their storage in secretory granules of the anterior pituitary gland. This study sharpens our understanding of the regulation of hormonal release from the pituitary gland. It will be of interest to the fields of endocrinology, neurobiology and cancer.

  (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 #3 agreed to share their name with the authors.)

Reviewed by eLife

Bayesian machine learning analysis of single-molecule fluorescence colocalization images

1. Yerdos A Ordabayev
2. Larry J Friedman
3. Jeff Gelles
4. Douglas L Theobald

• Curated by eLife

  Evaluation Summary:

  This paper will be of interest to researchers who perform single-molecule fluorescence imaging experiments as well as those who want to include machine learning in their data analyses. The authors have developed a machine learning algorithm that addresses some of the data analysis challenges in the field of single-molecule fluorescence imaging. The methods are rigorously benchmarked using simulated data and tested using real data. There are some concerns whether Tapqir is general enough for use by the broader community of single-molecule fluorescence researchers.

  (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 #2 agreed to share their name with the authors.)

Reviewed by eLife

Mutations of Omicron Variant at the Interface of the Receptor Domain Motif and Human Angiotensin-Converting Enzyme-2

1. Puja Adhikari
2. Bahaa Jawad
3. Rudolf Podgornik
4. Wai-Yim Ching

Reviewed by ScreenIT

Mechanistic Origin of Different Binding Affinities of SARS-CoV and SARS-CoV-2 Spike RBDs to Human ACE2

1. Zhi-Bi Zhang
2. Yuan-Ling Xia
3. Jian-Xin Shen
4. Wen-Wen Du
5. Yun-Xin Fu
6. Shu-Qun Liu

Reviewed by ScreenIT

Sampling alternative conformational states of transporters and receptors with AlphaFold2

1. Diego del Alamo
2. Davide Sala
3. Hassane S Mchaourab
4. Jens Meiler

• Curated by eLife

  Evaluation Summary:

  In this work, del Alamo and colleagues illustrate the ability of recent Deep Learning techniques to predict diverse conformational states in proteins, as opposed to single static models reflecting individual states. Although they are limited to a small number of test cases of membrane proteins, the examples are of interest to members of the community, who are currently unable to reliably model the essential conformational changes required for function, at least until Deep Learning methods can be improved along these lines.

  (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

Unraveling the Enzymatic Mechanism of the SARS-CoV-2 RNA-Dependent-RNA-Polymerase. An Unusual Active Site Leading to High Replication Rates

1. Emmanuelle Bignon
2. Antonio Monari

Reviewed by ScreenIT

Toward Atomistic Models of Intact SARS-CoV-2 via Martini Coarse-Grained Molecular Dynamics Simulations

1. Dali Wang
2. Jiaxuan Li
3. Lei Wang
4. Yipeng Cao
5. Sai Li
6. Chen Song

Reviewed by ScreenIT

A genetically encoded BRET-based SARS-CoV-2 Mpro protease activity sensor

1. Anupriya M. Geethakumari
2. Wesam S. Ahmed
3. Saad Rasool
4. Asma Fatima
5. S. M. Nasir Uddin
6. Mustapha Aouida
7. Kabir H. Biswas

Reviewed by ScreenIT

Using Unassigned NMR Chemical Shifts to Model RNA Secondary Structure

1. Neel Moudgal
2. Grace Arhin
3. Aaron T. Frank

Reviewed by ScreenIT