Biochemistry

The N -Terminal Carbamate is Key to High Cellular and Antiviral Potency for Boceprevir-Based SARS-CoV-2 Main Protease Inhibitors

1. Yugendar R. Alugubelli
2. Zhi Zachary Geng
3. Kai S. Yang
4. Namir Shaabani
5. Kaustav Khatua
6. Xinyu R. Ma
7. Erol C. Vatansever
8. Chia-Chuan Cho
9. Yuying Ma
10. Lauren Blankenship
11. Ge Yu
12. Banumathi Sankaran
13. Pingwei Li
14. Robert Allen
15. Henry Ji
16. Shiqing Xu
17. Wenshe Ray Liu

Reviewed by ScreenIT

The P3 O - Tert -Butyl-Threonine is Key to High Cellular and Antiviral Potency for Aldehyde-Based SARS-CoV-2 Main Protease Inhibitors

1. Yuying Ma
2. Kai S. Yang
3. Zhi Zachary Geng
4. Yugendar R. Alugubelli
5. Namir Shaabani
6. Erol C. Vatansever
7. Xinyu R. Ma
8. Chia-Chuan Cho
9. Kaustav Khatua
10. Lauren Blankenship
11. Ge Yu
12. Banumathi Sankaran
13. Pingwei Li
14. Robert Allen
15. Henry Ji
16. Shiqing Xu
17. Wenshe Ray Liu

Reviewed by ScreenIT

SARS-CoV-2 Omicron Variant: ACE2 Binding, Cryo-EM Structure of Spike Protein-ACE2 Complex and Antibody Evasion

1. Dhiraj Mannar
2. James W. Saville
3. Xing Zhu
4. Shanti S. Srivastava
5. Alison M. Berezuk
6. Katharine S. Tuttle
7. Citlali Marquez
8. Inna Sekirov
9. Sriram Subramaniam

Reviewed by ScreenIT

Pentosan polysulfate inhibits attachment and infection by SARS-CoV-2 in vitro : insights into structural requirements for binding

1. Sabrina Bertini
2. Anna Alekseeva
3. Stefano Elli
4. Isabel Pagani
5. Serena Zanzoni
6. Giorgio Eisele
7. Ravi Krishnan
8. Klaus P Maag
9. Christian Reiter
10. Dominik Lenhart
11. Rudolf Gruber
12. Edwin A Yates
13. Elisa Vicenzi
14. Annamaria Naggi
15. Antonella Bisio
16. Marco Guerrini

Reviewed by ScreenIT

SARS-CoV-2 variants of concern: spike protein mutational analysis and epitope for broad neutralization

1. Dhiraj Mannar
2. James W. Saville
3. Zehua Sun
4. Xing Zhu
5. Michelle M. Marti
6. Shanti S. Srivastava
7. Alison M. Berezuk
8. Steven Zhou
9. Katharine S. Tuttle
10. Michele D. Sobolewski
11. Andrew Kim
12. Benjamin R. Treat
13. Priscila Mayrelle Da Silva Castanha
14. Jana L. Jacobs
15. Simon M. Barratt-Boyes
16. John W. Mellors
17. Dimiter S. Dimitrov
18. Wei Li
19. Sriram Subramaniam

Reviewed by ScreenIT

Amyloidogenesis of SARS-CoV-2 Spike Protein

1. Sofie Nyström
2. Per Hammarström

Reviewed by ScreenIT

Structural and functional insights of the human peroxisomal ABC transporter ALDP

1. Yutian Jia
2. Yanming Zhang
3. Wenhao Wang
4. Jianlin Lei
5. Zhengxin Ying
6. Guanghui Yang

• Curated by eLife

  Evaluation Summary:

  This paper will be of interest to the lipid metabolism and transporter communities. Fatty acids that are too long to be transported into mitochondria are instead transported into peroxisomes for their break down i.e., beta-oxidation. The authors have determined the cryo-EM structure of human ABC transporter ABCD1 (ALDP), which translocates very-long-chain fatty acids (VLCFA) conjugated to coenzyme A across peroxisomal membranes, in complex with its substrate. While the work is well done, it is unclear what new mechanistic insights are gained from the ALDP structure. Also, the proposed conformational differences based on AlphaFold models should be taken with caution.

  (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

Protein Posttranslational Signatures Identified in COVID-19 Patient Plasma

1. Pavan Vedula
2. Hsin-Yao Tang
3. David W. Speicher
4. Anna Kashina
5. The UPenn COVID Processing Unit

Reviewed by ScreenIT

Structure of the human ATM kinase and mechanism of Nbs1 binding

1. Christopher Warren
2. Nikola P Pavletich

• Curated by eLife

  Evaluation summary

  This manuscript is of broad interest to the DNA-repair and structural biology field. The paper describes new insights into the interaction between ATM and Nsb1, proteins central to repairing DNA double-strand breaks in humans. Overall, the structural cryo-electron microscopy data is solid and the data well analyzed and presented with key claims directly related to and supporting previous known findings.

  (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

Systematic investigation of the link between enzyme catalysis and cold adaptation

1. Catherine Stark
2. Teanna Bautista-Leung
3. Joanna Siegfried
4. Daniel Herschlag

• Curated by eLife

  Evaluation Summary:

  Are enzymes found in organisms that optimally grow at colder temperatures are more active than the same enzymes found in organisms that optimally grow at warmer temperatures? Here, an assessment of the catalytic constants for approximately 2200 enzymes (obtained from the BRENDA database) showed no correlation between the relative catalytic activity and the optimum growth temperature. Further support for this conclusion was obtained from the measurement of the catalytic constant from a selection of ketosteroid isomerases from organisms that optimally grow between 15 and 46 degrees centigrade. These are interesting results, although the significance with respect to earlier studies has not been clearly explained.

  (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