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COVID answers in Scientific Journals all over the world


255 Results       Page 1

 [1] 
Elsevier: Biophysical Journal
  original article Date Title Authors   All Authors
1 [GO] 2024―Feb―08 A search for anti-SARS-CoV-2 compounds for the treatment of COVID-19 infection using chemical similarity analysis Siwar Khasawneh, Roshan Paudel
2 [GO] 2024―Feb―08 Cardiac pathophysiology of COVID-19 mediated by ryanodine receptor type 2 Ca2+ leak Laith Bahlouli, Steven Reiken, Haikel Dridi, Andrew R. Marks
3 [GO] 2024―Feb―08 Comprehensive analysis of spike protein mutations in coronavirus subvariants reveals newly emerging change in mode of entry and establishment of infection in hosts Asmaa Awan, Roshan Paudel
4 [GO] 2024―Feb―08 SARS-CoV-2 nsp3 C-terminal region: Conserved beyond coronavirus with potential role in DMV pore formation Yulia Pustovalova, Alexandra Pozhidaeva, Jeffrey C. Hoch
5 [GO] 2024―Feb―08 SARS-CoV-2 binding to terminal sialic acid of gangliosides embedded in lipid membranes Geetanjali Negi
6 [GO] 2024―Feb―08 EPR spectroscopic characterization of the topology of SARS-CoV-2 envelope protein Andrew K. Morris, Gary A. Lorigan
7 [GO] 2024―Feb―08 CIS-mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function Lukas Pekarek, Matthias Zimmer, Anne-Sophie Gribling-Burrer, Patrick Bohn, Redmond P. Smyth, Neva Caliskan
8 [GO] 2024―Feb―08 Mitochondrial network physiology disruption during SARS-CoV-2 infection in human lung organoids Gillian McMahon, Zichen Wang, Hiroyuki Hakozaki, Paul Marchando, Cyna R. Shirazinejad, Yuichiro Iwamoto, et al. (+4)
9 [GO] 2024―Feb―08 The role of heparin in spike SARS-CoV-2 infection: From a model for heparan sulfates to a starting structure for antivirals Giulia Paiardi, Maria Milanesi, Matheus Ferraz, Liv Zimmermann, Chiara Urbinati, Pasqua Oreste, et al. (+4)
10 [GO] 2024―Feb―08 Synthesis and characterization of SARS-CoV-2 membrane protein Sara Anbir, Yuanzhong Zhang, Thomas E. Kuhlman, Michael E. Colvin, Ajay Gopinathan, Umar Mohideen, et al. (+4)
11 [GO] 2024―Feb―08 The role of ATP hydrolysis and product release in the translocation mechanism of SARS-CoV-2 nsp13 Priti Roy, Monsurat M. Lawal, Martin McCullagh
12 [GO] 2024―Feb―08 Expanding our knowledge of the SARS-CoV-2 polyproteins: Structural and biochemical insights into the viral processing Ruchi Yadav, Valentine V. Courouble, Sanjay K. Dey, Jerry Joe E.K. Harrison, Jennifer Timm, Jesse B. Hopkins, et al. (+5)
13 [GO] 2024―Feb―08 Structural insights into cross-reactive antibodies recognizing the N-terminal and receptor binding domains of the SARS-CoV-2 spike glycoprotein Adonis Rubio, Morgan Abernathy, Yu Erica Lee, Teresia Chen, Christopher O. Barnes
14 [GO] 2024―Feb―08 Novel SARS-CoV-2 VLP system and structural characterization by cryogenic electron tomography reveals orf3A and orf7A accessory proteins as critical for assembly Juliana Abramovich
15 [GO] 2024―Feb―08 Optimization and applications of a compact stem-loop DNA aptamer targeting SARS-CoV-2 nucleocapsid protein Morgan Esler, Christopher Belica, Arad Moghadasi, Ke Shi, Mackenzie Wyllie, Daniel A. Harki, et al. (+2)
16 [GO] 2024―Feb―08 Structural restraints in the SARS-CoV-2 spike tail control its intra-cellular trafficking to virion assembly and immune presentation sites Syed Saif Hasan, Debajit Dey, Suruchi Singh, Enya Qing, Yanan He, Yihong Chen, et al. (+9)
17 [GO] 2024―Feb―08 Common cold coronavirus (CoV229E) infections alters 3D genomic architecture Ankush Singhal, Cullen Roth, Sofiya Micheva-Viteva, Vrinda Venu, Christina Steadman, Shawns Starkenburg, Karissa Y. Sanbonmatsu
18 [GO] 2024―Feb―08 Adsorption of pulmonary surfactants on the spike proteins of SARS-CoV-2 and its variants Kolattukudy P. Santo, Ryan Jaworski, Alexander Neimark
19 [GO] 2024―Feb―08 The effect of lipid and protein flexibility on membrane deformations caused by the SARS-CoV-2 E protein Jesse W. Sandberg, Grace H. Brannigan
20 [GO] 2024―Feb―08 Flipped over u: Structural basis for dsRNA cleavage by the SARS-CoV-2 endoribonuclease Meredith N. Frazier, Monica Pillon, Lucas Dillard, Juno Krahn, Isha Wilson, Jason Williams, et al. (+5)
21 [GO] 2024―Feb―08 The SARS-CoV-2 envelope protein channel displays weak selectivity and heterogeneous oligomerization Vicente M. Aguilella, Maria Queralt-Martin, Wahyu Surya, Ernesto Tavares Neto, Andrea Sanchis, Antonio Alcaraz, Jaume Torres
22 [GO] 2024―Feb―08 Investigating how the anionic lipid, BMP, plays a crucial role in the initation of SARS-CoV-2 fusion Daniel Birtles
23 [GO] 2024―Feb―08 Reversal of the fusion catalytic role of SARS-CoV-2 fusion peptide by restricting the N terminus: Implications to tackle viral infection Avijit Sardar, Tapas Bera, Santosh K. Samal, Samit Guha, Pradip K. Tarafdar
24 [GO] 2024―Feb―08 An efficient protocol for accurately triaging molecules in the development of a SARS-CoV-2 main protease inhibitor Alexander M. Payne, Benjamin Kaminow, John D. Chodera
25 [GO] 2024―Feb―08 Revealing membrane factors that control SARS-CoV-2 membrane fusion and entry kinetics Marcos Cervantes, Tobin Hess, Peter Kasson
26 [GO] 2024―Feb―08 Molecular dynamics simulations of the SARS-CoV-2 membrane protein and its implications for viral assembly Joseph McTiernan, Ajay Gopinathan, Michael E. Colvin
27 [GO] 2024―Feb―08 Interactions of SARS-CoV-2 nsp7 or nsp8 with nsp12 causes severe constriction of RNA entry channel: Implications for novel RdRp inhibitor drug discovery Deepa Singh, Tushar Kushwaha, Rajkumar Kulandaisamy, Vikas Kumar, Kamal Baswal, Saras H. Tiwari, et al. (+3)
28 [GO] 2024―Feb―08 DNA folding by SARS-CoV-2 nucleocapsid protein Jonathan Xing, Youna J. Choi, Ashley Carter
29 [GO] 2024―Feb―08 Single-molecule spectroscopy of the SARS-CoV-2 nucleocapsid protein Jasmine Cubuk, J. Jeremias Incicco, Melissa D. Stuchell-Brereton, Kathleen B. Hall, Andrea Soranno
30 [GO] 2024―Feb―08 Phosphorylation regulates the function of the SARS-COV-2 nucleocapsid protein Bruna Favetta, Huan Wang, Mayur Barai, Bineet Sharma, Cesar Ramirez, Gabriela Tirado-Mansilla, et al. (+4)
31 [GO] 2024―Feb―08 Impact of crowding on conformations and interactions of the SARS-CoV-2 nucleocapsid protein and RNA Madison Stringer, Jasmine Cubuk, Jeremias Incicco, Debjit Roy, Kathleen B. Hall, Melissa D. Stuchell-Brereton, Andrea Soranno
32 [GO] 2024―Feb―08 The evolving biophysics and antigenicity of the SARS-CoV-2 Omicron spike receptor binding domain Jared Lindenberger, Chan Soo Park, Salam Sammour, Xiao Huang, Katarzyna Janowska, Priyamvada Acharya
33 [GO] 2024―Feb―08 Computational investigations of SARS-CoV-2 proofreading exoribonuclease (ExoN) suggest strategies for antiviral design Eleonora Gianti
34 [GO] 2024―Feb―08 Localization of viral RNA and proteins in the SARS-CoV-2 replication organelles revealed by super-resolution microscopy Leonid Andronov, Mengting Han, Yanyu Zhu, Anish R. Roy, Andrew E.S. Barentine, Lei S. Qi, William E. Moerner
35 [GO] 2024―Feb―08 Harnessing molecular simulations to design stabilized SARS-CoV-2 S2 antigens Lorenzo Casalino, Xandra Nuqui, Ling Zhou, Mohamed Shehata, Albert Wang, Alexandra L. Tse, et al. (+9)
36 [GO] 2024―Feb―08 Real-time visualization of intermolecular interactions between SARS-CoV-2 spike protein and NTD-binding antibody using high-speed atomic force microscopy Pangmiaomiao Zhang, Chia-Wei Chou, Ilya J. Finkelstein, Yi-Chih Lin
37 [GO] 2024―Feb―08 An implicit dye sampling technique for the study of conformational dynamics of SARS-CoV-2 spike protein variants Joseph Williamson, Maolin Lu, Mahmoud Moradi
38 [GO] 2024―Feb―08 Structures and stability of SARS-CoV-2 spike S2 subunit mutants targeting inter-subunit interactions Ruth J. Parsons, Alexandria Calloway, Ellie Zhang, Bhishem Thakur, Katarzyna Janowska, Priyamvada Acharya
39 [GO] 2024―Feb―08 Biophysical principles predict fitness of SARS-CoV-2 variants Dianzhuo Wang, Marian Huot, Vaibhav Mohanty, Eugene Shakhnovich
40 [GO] 2024―Feb―08 Role of the proton-activated chloride channel in SARS-CoV-2 viral entry Nicholas R.M. Koylass, Henry Yi Cheng, Kevin Chen, Zhaozhu Qiu
41 [GO] 2024―Feb―08 Host microRNA interactions with the SARS-COV-2 viral genome 3′-untranslated region Caleb J. Frye, Caylee Cunningham, Mihaela-Rita Mihailescu
42 [GO] 2024―Feb―08 Investigating spike S2 subunit hairpin proteins of the SARS-CoV-2 virus Noel Chau, Rob Wolfe, Gavin Engweiler, David P. Weliky
43 [GO] 2024―Feb―08 Cooperativity and induced oligomerization control the interaction of SARS-CoV-2 with its cellular receptor and patient-derived antibodies Roi Asor, Anna Olerinyova, Sean A. Burnap, Manish S. Kushwah, Mario Hensen, Snežana Vasiljevic, et al. (+9)
44 [GO] 2024―Feb―08 Capturing the biomechanics of SARS-COV-2/antibody complexes by GōMartini simulation Luis F. Cofas-Vargas, Adolfo Poma
45 [GO] 2024―Jan―17 Targeting protein-protein interaction interfaces with anti-viral N protein inhibitor in SARS-CoV-2 Jhen-Yi Hong, Shih-Chao Lin, Kylene Kehn-Hall, Kai-Min Zhang, Shun-Yuan Luo, Hung-Yi Wu, et al. (+2)
46 [GO] 2023―Oct―28 Biophysical evolution of the receptor binding domains of SARS-CoVs Vaibhav Upadhyay, Sudipta Panja, Alexandra Lucas, Casey Patrick, Krishna M.G. Mallela
47 [GO] 2023―Sep―16 Structure adaptation in Omicron SARS-CoV-2/hACE2: Biophysical origins of evolutionary driving forces Ya-Wen Hsiao, David J. Bray, Tseden Taddese, Guadalupe Jiménez-Serratos, Jason Crain
48 [GO] 2023―Mar―24 Loading dynamics of one SARS-CoV-2-derived peptide into MHC-II revealed by kinetic models Kaiyuan Song, Honglin Xu, Lin-Tai Da
49 [GO] 2023―Feb―15 Conformational Ensemble of the NSP1 CTD in SARS-Cov2: Perspectives from the Free Energy Landscape Pallab Dutta, Abhay Kshirsagar, Parth Bibekar, Neelanjana Sengupta
50 [GO] 2023―Feb―10 Molecular mechanisms of cardiac complications associated with COVID-19 Steven R. Reiken, Haikel Dridi, Leah Sittenfeld, Yang Liu, Andrew R. Marks
51 [GO] 2023―Feb―10 SARS-CoV-2 spike protein-induced inflammation underlies proarrhythmia in COVID-19 Louisa Mezache, Gerard Nuovo, David Suster, Esmerina Tili, Hamdy Awad, Przemyslaw Radwanski, Rengasayee Veeraraghavan
52 [GO] 2023―Feb―10 Three-dimensional chromatin ensemble reconstruction via stochastic embedding reveals a missing link from COVID-19 infection to anosmia Igor N. Berezovsky
53 [GO] 2023―Feb―10 Comparison of three mathematical models for COVID-19 prediction Pelayo Martınez Fernandez, Zulima Fernandez-Muniz, Ana Cernea, Juan Luis Fernandez-Martınez, Andrzej Kloczkowski
54 [GO] 2023―Feb―10 Elucidating coronavirus fusion mechanisms Tobin Hess, Marcos Cervantes, Anjali Sengar, Peter Kasson
55 [GO] 2023―Feb―10 Polymer modelling accurately predicts three-dimensional chromosome reorganization with a seasonal coronavirus infection Ankush Singhal, Cullen Roth, Sofiya Micheva-Viteva, Anna Lappala, Jeannie T. Lee, Shawn R. Starkenburg, Karissa Y. Sanbonmatsu
56 [GO] 2023―Feb―10 Multicolor super-resolution imaging to study human coronavirus RNA during cellular infection Anish R. Roy, Jiarui Wang, Mengting Han, Haifeng Wang, Leonhard Möckl, Leiping Zeng, et al. (+2)
57 [GO] 2023―Feb―10 Natural effectors for conformational control of coronavirus spike proteins Daniel Asarnow, David Veesler
58 [GO] 2023―Feb―10 Analysis of the conserved and mutated amino acid sequences in the spike protein enhances the understanding of phylognetic relationship among coronavirus variants from the wild type Asmaa Awan, Roshan Paudel
59 [GO] 2023―Feb―10 Integration of smFRET and molecular dynamics to characterize conformational dynamics of the spike protein of wild-type SARS-CoV-2 and its variants Joseph Williamson, Maolin Lu, Mahmoud Moradi
60 [GO] 2023―Feb―10 Ascertaining mesoscopic parameters for SARS-CoV-2 assembly from all atom and coarse-grained simulations of the associated membrane protein Joseph McTiernan, Ajay Gopinathan, Michael E. Colvin
61 [GO] 2023―Feb―10 Understanding the mechanisms of increased pathogenicity and virulence of SARS-CoV-2 Delta and Omicron variants Mandira Dutta, Gregory A. Voth
62 [GO] 2023―Feb―10 Comparing elastic and molecular models of membrane bending local to SARS-CoV-2 envelope protein for mechanistic understanding Jesse W. Sandberg, Grace H. Brannigan
63 [GO] 2023―Feb―10 Ion channels activity of SARS-CoV-2 envelope protein through calcium influx assay using large unilamellar vesicles Hyejin Jeong
64 [GO] 2023―Feb―10 Identification and characterization of E266Q mutation in Nsp15 endoribonuclease from SARS-CoV-2 Epsilon variant Manashi Sonowal, Nirupa Nagaratnam, Rebecca J. Jernigan, Dhenugen Logeswaran, Raimund Fromme, Julian J.-L. Chen, Petra Fromme
65 [GO] 2023―Feb―10 The SARS-CoV-2 fusion domain preferentially initiates fusion in the late endosome Daniel Birtles, Jinwoo Lee
66 [GO] 2023―Feb―10 Single-molecule assay for highly sensitive SARS-CoV-2 gene detection based on CRISPR-Cas12a Sangmin Ji, Hye Ran Koh
67 [GO] 2023―Feb―10 Structure of SARS-CoV-2 M protein in lipid nanodiscs Kimberly A. Dolan, Mandira Dutta, David Kern, Abhay Kotecha, Gregory A. Voth, Steve Brohawn
68 [GO] 2023―Feb―10 Computational fragment screening of dimeric SARS-CoV-2 main protease Rashad L. Reid, Vincent Voelz
69 [GO] 2023―Feb―10 The conformational space of the SARS-CoV-2 main protease active site loops is determined by ligand binding and interprotomer allostery Ethan Lee, Sarah Rauscher
70 [GO] 2023―Feb―10 A genetically encoded BRET-based SARS-CoV-2 main protease activity sensor Anupriya M. Geethakumari, Wesam S. Ahmed, Saad Rasool, Asma Fatima, S. M. Nasir Uddin, Mustapha Aouida, Kabir H. Biswas
71 [GO] 2023―Feb―10 Dynamics of the SARS-CoV-2 main protease binding site Advaith S. Harith, Sacha Mallalieu, Amelia A. Fuller, Michelle E. McCully
72 [GO] 2023―Feb―10 Inhibition of the SARS-CoV-2 main protease by a thiadiazolidinone derivative Katarina Jovic, Logan Brown, Harish Vashisth, Krisztina Varga
73 [GO] 2023―Feb―10 Small molecule co-solvents enhance activity of SARS-CoV-2 main protease through a dielectric effect Marquise G. Crosby
74 [GO] 2023―Feb―10 Drug discovery targeting SARS-CoV-2 membrane fusion Kailu Yang, Chuchu Wang, Alex J.B. Kreutzberger, Ravi Ojha, Suvi Kuivanen, Sergio Couoh-Cardel, et al. (+9)
75 [GO] 2023―Feb―10 Identifying and sampling conformational states of SARS-CoV-2 mpro for flexible receptor docking Matthew S. Smith, Michael Grabe, Brian Shoichet
76 [GO] 2023―Feb―10 Studies on antiviral resistant SARS-CoV-2 Mpro mutants Morgan A. Esler, Arad Moghadasi, Reuben S. Harris, Hideki Aihara
77 [GO] 2023―Feb―10 SARS-CoV-2 Nsp3 oligomerization is a driver for molecular pore formation Yulia Pustovalova, Alexandra Pozhidaeva, Jeffrey C. Hoch
78 [GO] 2023―Feb―10 Dual functions of the SARS-CoV-2 nucleocapsid domains mediate RNA binding and phase separation Aidan B. Estelle, Zhen Yu, Patrick Allen, Elisar J. Barbar
79 [GO] 2023―Feb―10 Measuring DNA folding by the SARS-CoV-2 nucleocapsid protein Jake J. Kim, Youna N. Choi, Ashley R. Carter
80 [GO] 2023―Feb―10 Single-molecule spectroscopy of the SARS-CoV-2 nucleocapsid protein Jasmine Cubuk, Jeremias Incicco, Jhullian J. Alston, Kathleen B. Hall, Melissa D. Stuchell-Brereton, Andrea Soranno
81 [GO] 2023―Feb―10 Structure and function of SARS-CoV-2 nucleocapsid protein measured using optical tweezers, confocal fluorescence, and AFM Michael Morse, Jana Sefcikova, Micah J. McCauley, Ioulia F. Rouzina, Penny J. Beuning, Mark C. Williams
82 [GO] 2023―Feb―10 Combining simulations and single-molecule fluorescence spectroscopy to understand SARS-CoV-2 nucleocapsid protein RNA interaction Jhullian J. Alston, Jasmine Cubuk, Jeremias Incicco, Melissa D. Stuchell-Brereton, Kathleen B. Hall, Alex S. Holehouse, Andrea Soranno
83 [GO] 2023―Feb―10 Phase separation underlies interactions of the SARS-CoV-2 nucleocapsid protein with nucleoli Priyanka Dogra, Hazheen Shirnekhi, Mylene C. Ferrolino, Michele Tolbert, Cheon-Gil Park, Richard W. Kriwacki
84 [GO] 2023―Feb―10 The unique q493r mutation drives interfacial interactions in the SARS-CoV-2 Omicron variant S1-RBD: ACE2-complex Angelin M. Philip
85 [GO] 2023―Feb―10 Mechanism of assembly of an elongation-competent SARS-CoV-2 replication transcription complex Misha Klein, Subhas C. Bera, Thomas K. Anderson, Bing Wang, Flavia S. Papini, Jamie J. Arnold, et al. (+5)
86 [GO] 2023―Feb―10 Structural and thermodynamic consequences of the G31U and U5C mutations in the SARS-CoV-2 s2m Adam H. Kensinger, Joseph A. Makowski, Kendy A. Pellegrene, Caylee L. Cunningham, Caleb J. Frye, Patrick E. Lackey, et al. (+2)
87 [GO] 2023―Feb―10 Delta variant versus ancestral SARS-CoV-2 s2m dynamics and relative entropy Joseph A. Makowski, Adam H. Kensinger, Kendy A. Pellegrene, Caylee Cunningham, Caleb J. Frye, Patrick E. Lackey, et al. (+2)
88 [GO] 2023―Feb―10 The molecular basis for dysfunctional bacterial lipopolysaccharide-mediated immune receptor activation by SARS-CoV-2 spike Firdaus Samsudin, Venkata Raghuvamsi Palur, Ganna Petruk, Manoj Puthia, Jitka Petrlova, Paul MacAry, et al. (+3)
89 [GO] 2023―Feb―10 Post-translational modifications optimize the ability of SARS-CoV-2 spike for effective interaction with host cell receptors Tianle Chen, Karan Kapoor, Emad Tajkhorshid
90 [GO] 2023―Feb―10 SARS-CoV-2 spike opening dynamics and energetics reveal the individual roles of glycans and their collective impact Yui Tik Pang, Atanu Acharya, Diane L. Lynch, Anna Pavlova, James C. Gumbart
91 [GO] 2023―Feb―10 Single-molecule studies of RNA aptamers binding to SARS-CoV-2 spike proteins expressed on virus-like particles Brett Israels, Aleksandra Bednarz, Julian Valero Molero, Laia Civit Pitarch, Daniel Dupont, Mette Malle, et al. (+2)
92 [GO] 2023―Feb―10 Stabilized SARS-CoV-2 spike S2 immunogens designed using insights from enhanced sampling molecular dynamics simulations Xandra Nuqui, Lorenzo Casalino, Mohamed Shehata, Anupam A. Ojha, Fiona L. Kearns, Mia Rosenfeld, et al. (+2)
93 [GO] 2023―Feb―10 Design of immunogens for eliciting antibody responses that may protect against SARS-CoV-2 variants Eric Wang, Arup K. Chakraborty
94 [GO] 2023―Feb―10 Timeline of changes in spike conformational dynamics in emergent SARS-CoV-2 variants reveal progressive stabilization of trimer stalk and enhanced NTD dynamics Ganesh S. Anand, Sean Braet, Theresa Buckley, Varun Venkatakrishnan, Kim-Marie Dam, Pamela J. Bjorkman
95 [GO] 2023―Feb―10 Viral-host RNA-RNA interactions in SARS-CoV-2: Study of miR-34a-5p binding interactions within the genome 3'-untranslated region Caleb J. Frye, Caylee Cunningham, Adam H. Kensinger, Joseph A. Makowski, Jeffrey D. Evanseck, Mihaela-Rita Mihailescu
96 [GO] 2023―Jan―16 Interactions of SARS-CoV-2 and MERS-CoV Fusion Peptides Measured Using Single Molecule Force Methods Cindy Qiu, Gary R. Whittaker, Samuel H. Gellman, Susan Daniel, Nicholas L. Abbott
97 [GO] 2022―Nov―17 Structural Effects of Spike Protein D614G Mutation in SARS-CoV-2 Hisham M. Dokainish, Yuji Sugita
98 [GO] 2022―Aug―28 Circulating cell clusters aggravate the hemorheological abnormalities in COVID-19 Elahe Javadi, He Li, Ander Dorken Gallastegi, Galit H. Frydman, Safa Jamali, George Em Karniadakis
99 [GO] 2022―May―20 Finite element modeling of alpha-helices and tropocollagen molecules with reference to the spike of SARS-CoV-2 Tomasz Wierzbicki, Yuanli Bai
100 [GO] 2022―Apr―07 Role of spatial patterning of N-protein interactions in SARS-CoV-2 genome packaging Ian Seim, Christine A. Roden, Amy S. Gladfelter
101 [GO] 2022―Apr―02 Modeling insights into SARS-CoV-2 respiratory tract infections prior to immune protection Alexander Chen, Timothy Wessler, Katherine Daftari, Kameryn Hinton, Richard C. Boucher, Raymond Pickles, et al. (+3)
102 [GO] 2022―Feb―11 Developing drugs against essential proteins of SARS-CoV-2 for the treatment of COVID-19 Teena Bajaj
103 [GO] 2022―Feb―11 Predictive mathematical models of the growth of the COVID-19 pandemic Juan Luis Fernández-Martínez, Zulima Fernández-Muñiz, Ana Cernea, Andrzej Kloczkowski
104 [GO] 2022―Feb―11 A year in the life of SARS-CoV-2 Mpro: molecular modeling and analysis of clinically observed Mpro variants from the first year of the COVID-19 pandemic Elizabeth M. Diessner, Gemma R. Takahashi, Thomas J. Cross, Carter T. Butts, Rachel W. Martin
105 [GO] 2022―Feb―11 Catalytic function and substrate specificity of alpha and beta coronavirus papain-like proteases: targeting human NL63, SARS-CoV and SARS-CoV-2 (Covid-19) with designed inhibitors Mackenzie E. Chapman, Courtney M. Daczkowski, Arun K. Ghosh, Andrew D. Mesecar
106 [GO] 2022―Feb―11 Quantitative analysis of hypericin interaction with SARS-CoV 2 and with a model membrane Matteo Mariangeli, Eleonora Uriati, Chantal Usai, Andrea Mussini, Samira Jadavi, Silvia Dante, et al. (+7)
107 [GO] 2022―Feb―11 Structural dynamic changes in the SARS-CoV and SARS-CoV-2 S spike assemblies upon ACE2 activation Chengbo Chen, James B. Munro, Kelly K. Lee
108 [GO] 2022―Feb―11 Structural and dynamical impact of the two-nucleotide difference in sequence between SARS-CoV and SARS-CoV-2 s2m using molecular dynamics Adam H. Kensinger, Kendy A. Pellegrene, Joseph A. Makowski, Caylee L. Cunningham, Caleb J. Frye, Mihaela-Rita Mihailescu, Jeffrey D. Evanseck
109 [GO] 2022―Feb―11 Characterizing the roles of chemo-mechanical couplings in the differential behavior of SARS-CoV-1 and SARS-CoV-2 spike glycoprotein Ugochi H. Isu, Vivek Govind Kumar, Mortaza Derakhshani-Molayousefi, Adithya Polasa, Mahmoud Moradi
110 [GO] 2022―Feb―11 Automated refinement protocol to improve the quality of protein structures deposited in the protein data bank, applied to SARS-Cov-2 Joseph Farrell, Esmael J. Haddadian
111 [GO] 2022―Feb―11 Stem-loop II motif (s2m) structural and dynamical differences between SARS-CoV-2 and b.1.617.2 (Delta) variant Joseph A. Makowski, Adam H. Kensinger, Kendy A. Pellegrene, Caylee Cunningham, Caleb J. Frye, Morgan Shine, et al. (+4)
112 [GO] 2022―Feb―11 The discovery of antivirals and novel targets for SARS-CoV-2 and EV-A71 Christina Haddad, Blanton S. Tolbert, Amanda E. Hargrove, Gary Brewer, Mei-Ling Li
113 [GO] 2022―Feb―11 Structural dynamics of prefusion spike protein of SARS-CoV-2 and its variants Mortaza Derakhshani-Molayousefi, Ugochi Isu, Mahmoud Moradi
114 [GO] 2022―Feb―11 SARS-CoV-2 antibodies specific to the mesa and inner side of spike protein receptor binding domain maintain high affinities for both D614G and b.1.351 variants Kan Li, Richard H.C. Huntwork, Gillian Q. Horn, Elizabeth Feeney, Kathryn M. Hastie, Haoyang Li, et al. (+9)
115 [GO] 2022―Feb―11 Characterization of the S2M G15U mutation associated with the SARS-CoV-2 delta variant Caylee L. Cunningham, Caleb J. Frye, Joshua A. Imperatore, Kendy A. Pellegrene, Adam H. Kensinger, Joseph A. Makowski, et al. (+4)
116 [GO] 2022―Feb―11 Changes in the receptor-binding interface may cause immune evasion by the SARS-CoV-2 delta variant b.1.617.2 Prabin Baral, Nisha Bhattarai, Md Lokman Hossen, Vitalii Stebliankin, Bernard S. Gerstman, Giri Narasimhan, Prem P. Chapagain
117 [GO] 2022―Feb―11 Impact of mutations near the SARS-CoV-2 furin-cleavage site on viral infectivity Kien Nguyen, Srirupa Chakraborty, Pedro D. Manrique, Bette Korber, S. Gnanakaran
118 [GO] 2022―Feb―11 The spike-ACE2 interaction underlying SARS-CoV-2 infection and inhibition is enhanced by intermolecular cross linking Roi Asor, Anna Olerinyova, Manish S. Kushwah, Fabian Soltermann, Lucas Powell Rudden, SnezÌŒana Vasiljevic, et al. (+7)
119 [GO] 2022―Feb―11 Computational investigation of glycosaminoglycan cofactors in SARS-CoV-2 infection dynamics Mia A. Rosenfeld, Fiona L. Kearns, Sang Hoon Kim, Lorenzo Casalino, Micah Papanikolas, Carlos Simmerling, et al. (+2)
120 [GO] 2022―Feb―11 Developing inhibitors of the SARS-CoV-2 main protease Christian Seitz, Vedran Markota, Terra Sztain-Pedone, Morgan Esler, Arad Moghadasi, Samantha Kennelly, et al. (+6)
121 [GO] 2022―Feb―11 Dimethyl sulfoxide (DMSO) affects activity of SARS-CoV-2 main protease Marquise G. Crosby, Gemma R. Takahashi, Rachel W. Martin, Elizabeth Diessner, Brenna Norton-Baker, Carter T. Butts
122 [GO] 2022―Feb―11 Comprehensive virtual screening of 4.8k flavonoids reveals novel insights into the allosteric inhibition of SARS-CoV-2 MPRO Ana Paula Vargas Ruiz, Gabriel Jiménez Avalos, Nicolás E. Delgado, Gustavo Olivos Ramírez, Patricia Sheen, Miguel Quiliano, Mirko Zimic
123 [GO] 2022―Feb―11 Binding and compaction function of structural domains of SARS-CoV-2 nucleocapsid (N) protein on a single stranded nucleic acid substrate Michael Morse, Jana Sefcikova, Ioulia Rouzina, Penny J. Beuning, Mark C. Williams
124 [GO] 2022―Feb―11 Characterizing nucleic acid interactions with the N-Terminal binding domain of the SARS-CoV-2 nucleocapsid protein Jasmine Cubuk, Juan J. Incicco, Melissa D. Stuchell-Brereton, Kathleen B. Hall, Andrea Soranno
125 [GO] 2022―Feb―11 SARS-CoV-2 nucleocapsid protein forms condensates with viral genomic RNA Amanda Jack, Luke Ferro, Michael J. Trnka, Eddie Wehri, Amrut Nadgir, Xammy Nguyenla, et al. (+5)
126 [GO] 2022―Feb―11 Investigating SARS-CoV-2 ORF7a and BST-2 heterodimerization by molecular dynamics simulations Min-Kang Hsieh, Jeffery B. Klauda
127 [GO] 2022―Feb―11 Comparing structural ensembles with DiffNets helps explain the activation mechanism of the SARS-CoV-2 protein NSP16 Michael D. Ward
128 [GO] 2022―Feb―11 Cryo-electron tomography of in vivo reconstituted SARS-CoV-2 replication/transcription organelles Cosmo Z. Buffalo, James H. Hurley
129 [GO] 2022―Feb―11 Single molecule activity assay for SARS-CoV-2 RNA dependent RNA polymerase SangYoon Chung, Yazan Alhadid, Maya Segal, Jookyung Lee, Sergei Borukhov, Shimon Weiss
130 [GO] 2022―Feb―11 Probing remdesivir nucleotide analogue insertion to SARS-CoV-2 RNA dependent RNA polymerase in viral replication Moises E. Romero, Chunhong Long, Daniel La Rocco, Anusha M. Keerthi, Dajun Xu, Jin Yu
131 [GO] 2022―Feb―11 Molecular mechanism for conformational activation of SARS-CoV-2 RNA polymerase by nucleoside triphosphate Wen Ma, J. Andrew McCammon
132 [GO] 2022―Feb―11 SARS-CoV-2 S1 spike protein peptides inhibit alpha 7 nAChRs and are counteracted by a PAM at alpha 7 Joseph Farley, Jonathan B. Anderson
133 [GO] 2022―Feb―11 Decreased interfacial dynamics caused by the N501Y mutation in the SARS-Cov-2 s1 spike:ACE2 complex Wesam S. Ahmed, Angelin M. Philip, Kabir H. Biswas
134 [GO] 2022―Feb―11 A high throughput method for ensemble antibody affinity measurements for SARS-CoV-2 samples Gabrielle Kosoy, Abdul Karim, Phuong Nguyen, Mark Sangster, David Topham, Benjamin Miller
135 [GO] 2022―Feb―11 Probing key interactions between SARS-CoV-2 spike and heparan sulfate Fiona L. Kearns, Mia Rosenfeld, Sang Hoon Kim, Lorenzo Casalino, Micah Papanikolas, Carlos Simmerling, et al. (+2)
136 [GO] 2022―Feb―11 SARS-CoV-2 spike binding to ACE2 is stronger and longer ranged with glycans Yihan Huang, Bradley Harris, Shiaki Minami, Seongwon Jung, Priya Shah, Somen Nandi, et al. (+2)
137 [GO] 2022―Feb―11 Conformational changes in SARS-CoV-2 spike from the delta variant enhances viral transmissibility Varun Venkatakrishnan, Sean Braet, Theresa Buckley, Ganesh S. Anand
138 [GO] 2022―Feb―11 Computational studies of the dynamics of SARS-CoV-2 spike, membrane, and nucleocapsid proteins Mandira Dutta, Gregory A. Voth
139 [GO] 2022―Feb―11 Concerted hinge motions in SARS-CoV-2 spike modulated by glycan-glycan and glycan-lipid interactions Karan Kapoor, Tianle Chen, Emad Tajkhorshid
140 [GO] 2022―Feb―11 Ensemble-based, glycan-dependent epitope analysis of SARS-CoV-2 spike protein Tianle Chen, Karan Kapoor, Emad Tajkhorshid
141 [GO] 2022―Feb―11 Computationally engineered ACE2 decoy binds with nanomolar affinity with the SARS-CoV-2 spike protein Mohammad S. Islam, Brandon Havranek, Erik Procko, Kui Chan
142 [GO] 2022―Feb―11 The roles of glycans in the SARS-CoV-2 spike protein Lorenzo Casalino, Rommie E. Amaro
143 [GO] 2022―Feb―11 Unraveling SARS-CoV-2 spike protein activation pathway reveals unprecedented cryptic pockets Hisham M. Dokainish, Suyong Re, Takaharu Mori, Chigusa Kobayashi, Jaewoon Jung, Yuji Sugita
144 [GO] 2022―Feb―11 Machine learning reveals the critical interactions for SARS-CoV-2 spike protein binding to ACE2 Anna Pavlova, Zijian Zhang, Atanu Acharya, Diane L. Lynch, Yui Tik Pang, Zhongyu Mou, et al. (+3)
145 [GO] 2022―Feb―11 Elucidating the distinct structural features of the SARS-CoV-2 spike protein fusion domain Daniel Birtles
146 [GO] 2022―Feb―11 Host cell membrane capture by the SARS-CoV-2 spike protein fusion intermediate Rui Su, Jin Zeng, Ben O'Shaughnessy
147 [GO] 2022―Feb―11 Impact of SARS-CoV-2 spike protein on α7 nicotinic acetylcholine receptor in cells Tommy S. Tillman, Yan Xu, Pei Tang
148 [GO] 2022―Feb―11 The SARS-CoV-2 spike protein reversibly samples an open-trimer conformation exposing novel epitopes Sophie R. Shoemaker, Shawn M. Costello, Helen T. Hobbs, Annalee W. Nguyen, Ching-Lin Hsieh, Jennifer A. Maynard, et al. (+3)
149 [GO] 2022―Feb―11 Intricacies of the SARS-CoV-2 spike transmembrane trimer organization Elena T. Aliper, Nikolay A. Krylov, Anton A. Polyansky, Roman G. Efremov
150 [GO] 2022―Feb―11 Whole-cell quantitative imaging of structural changes induced by SARS-CoV-2 using soft X-ray tomography Jian-Hua Chen, Valentina Loconte, Mirko Cortese, Axel Ekman, Mark A. Le Gros, Ralf Bartenschlager, et al. (+2)
151 [GO] 2022―Feb―11 AI-Driven prediction of binding trends of SARS-CoV-2 variants from atomistic simulations Sara Capponi, Shangying Wang, Erik Navarro, Simone Bianco
152 [GO] 2022―Feb―11 Differential interactions between human ACE2 and spike RBD of SARS-CoV-2 variants of concern Seonghan Kim, Yi Liu, Zewei Lei, Jeffrey Dicker, Yiwei Cao, Xiaohui Zhang, Wonpil Im
153 [GO] 2022―Feb―11 SARS-Cov-2 variants of concern decelerate the dynamics of spike open conformation as an evolutionary strategy Ziwei Yang, Yang Han, Shilei Ding, Andrés Finzi, Walther Mothes, Maolin Lu
154 [GO] 2022―Feb―11 Structure, dynamics and nanomechanics of wild-type and alpha-variant SARS-CoV-2 virions Dorottya Mudra, Balint Kiss, Zoltán Kis, Bernadett Pályi, Miklós Kellermayer
155 [GO] 2022―Feb―11 Development of a SARS-CoV-2 virus-like particle that performs as a direct cell entry reporter Elena Mekhedov, Matthias Garten, Glen Humphrey, Jennifer D. Petersen, Adriana E. Golding, Hang Waters, Joshua Zimmerberg
156 [GO] 2022―Feb―11 Preparation of SARS-CoV-2 VLP to study viral assembly, egress, and entry Jennifer D. Petersen, Glen Humphrey, Elena Mekhedov, Hang Waters, Joshua Zimmerberg
157 [GO] 2022―Feb―11 Expression of SARS-CoV-2-ORF3a protein induces cardiomyocyte damage Iuliia A. Polina, Yugene Guo, Michael W. Cypress, Elena G. Tolkacheva, Bong Sook Jhun, Jin O-Uchi
158 [GO] 2022―Feb―11 Viral-host RNA-RNA interactions in SARS-CoV-2: study of MIR-760-3p interactions with the genome 3'-untranslated region Caleb J. Frye, Caylee L. Cunningham, Kendy A. Pellegrene, Adam H. Kensinger, Joseph A. Makowski, Jeffrey D. Evanseck, Mihaela-Rita Mihailescu
159 [GO] 2022―Feb―11 A tethered ligand assay to probe SARS-CoV-2:ACE2 interactions Magnus S. Bauer, Sophia Gruber, Adina Hausch, Lukas F. Milles, Thomas Nicolaus, Leonard C. Schendel, et al. (+6)
160 [GO] 2022―Feb―11 Developing lectins as inhibitors of SARS-CoV2 Alex J. Guseman, Linda Murphy, Sham Nambulli, Fatema Bhinderwhala, Paul Duprex, Angela M. Gronenborn
161 [GO] 2021―Dec―18 Importance of Negatively Charged Residues in the Membrane Ordering Activity of SARS-CoV-1 and -2 Fusion Peptides Alex L. Lai, Jack H. Freed
162 [GO] 2021―Dec―07 SARS-Cov-2 Spike binding to ACE2 is stronger and longer ranged due to glycan interaction Yihan Huang, Bradley S. Harris, Shiaki A. Minami, Seongwon Jung, Priya S. Shah, Somen Nandi, et al. (+2)
163 [GO] 2021―Nov―10 Modeling Coronavirus Spike Protein Dynamics: Implications for Immunogenicity and Immune Escape G. Kunkel, M. Madani, S.J. White, P.H. Verardi, A. Tarakanova
164 [GO] 2021―Oct―28 More pandemic reflections H. Jane Dyson
165 [GO] 2021―Jul―31 “Bucket brigade” using lysine residues in RNA-dependent RNA polymerase of SARS-CoV-2 Shoichi Tanimoto, Satoru G. Itoh, Hisashi Okumura
166 [GO] 2021―Jul―14 Biophysicists’ continued outstanding response to COVID-19 Tamar Schlick, Eric J. Sundberg, Susan J. Schroeder, M. Madan Babu
167 [GO] 2021―Jun―30 Role of spatial patterning of N-protein interactions in SARS-CoV-2 genome packaging Ian Seim, Christine A. Roden, Amy S. Gladfelter
168 [GO] 2021―Jun―29 Regulation of epithelial sodium channel activity by SARS-CoV-1 and SARS-CoV-2 proteins Stephen N. Grant, Henry A. Lester
169 [GO] 2021―Jun―29 Transient complexes of the Nsp7, Nsp8 and Nsp12 in SARS-CoV-2 replication transcription complex Mateusz Wilamowski, Michal Hammel, Wellington Leite, Qiu Zhang, Youngchang Kim, Kevin Weiss, et al. (+11)
170 [GO] 2021―Jun―29 Dynamics of the SARS-CoV-2 nucleoprotein N-terminal domain triggers RNA duplex destabilization Ícaro P. Caruso, Karoline Sanches, Andrea T. Da Poian, Anderson S. Pinheiro, Fabio C.L. Almeida
171 [GO] 2021―Jun―02 Physical phenotype of blood cells is altered in COVID-19 Markéta Kubánková, Bettina Hohberger, Jakob Hoffmanns, Julia Fürst, Martin Herrmann, Jochen Guck, Martin Kräter
172 [GO] 2021―Jun―02 Neuropilin-1 Assists SARS-CoV-2 Infection by Stimulating the Separation of Spike Protein Domains S1 and S2 Li Zhen-lu, Buck Matthias
173 [GO] 2021―Jun―02 Enhanced Sampling Protocol to Elucidate Fusion Peptide Opening of SARS-CoV-2 Spike Protein Jacob M. Remington, Kyle T. McKay, Jonathon B. Ferrell, Severin T. Schneebeli, Jianing Li
174 [GO] 2021―May―11 Computational optimization of the SARS-CoV-2 receptor-binding-motif affinity for human ACE2 Savvas Polydorides, Georgios Archontis
175 [GO] 2021―Mar―29 Multivalent binding of the partially disordered SARS-CoV-2 nucleocapsid phosphoprotein dimer to RNA Heather M. Forsythe, Joaquin Rodriguez Galvan, Zhen Yu, Seth Pinckney, Patrick Reardon, Richard B. Cooley, et al. (+4)
176 [GO] 2021―Mar―29 SARS-CoV2 Nsp16 activation mechanism and a cryptic pocket with pan-coronavirus antiviral potential Neha Vithani, Michael D. Ward, Maxwell I. Zimmerman, Borna Novak, Jonathan H. Borowsky, Sukrit Singh, Gregory R. Bowman
177 [GO] 2021―Mar―09 Exploring dynamics and network analysis of spike glycoprotein of SARS-COV-2 Mahdi Ghorbani, Bernard R. Brooks, Jeffery B. Klauda
178 [GO] 2021―Mar―04 Biophysicists' outstanding response to Covid-19 Tamar Schlick, Eric J. Sundberg, Susan J. Schroeder, M. Madan Babu
179 [GO] 2021―Mar―04 Principles and Practice for SARS-CoV-2 Decontamination of N95 Masks with UV-C Thomas Huber, Olivia Goldman, Alexander E. Epstein, Gianna Stella, Thomas P. Sakmar
180 [GO] 2021―Mar―04 Binding Mode of SARS-CoV2 Fusion Peptide to Human Cellular Membrane Defne Gorgun, Muyun Lihan, Karan Kapoor, Emad Tajkhorshid
181 [GO] 2021―Feb―23 Ca2+-dependent mechanism of membrane insertion and destabilization by the SARS-CoV-2 fusion peptide George Khelashvili, Ambrose Plante, Milka Doktorova, Harel Weinstein
182 [GO] 2021―Feb―18 A potential interaction between the SARS-CoV-2 spike protein and nicotinic acetylcholine receptors A. Sofia F. Oliveira, Amaurys Avila Ibarra, Isabel Bermudez, Lorenzo Casalino, Zied Gaieb, Deborah K. Shoemark, et al. (+4)
183 [GO] 2021―Feb―17 Biomechanical Characterization of SARS-CoV-2 Spike RBD and Human ACE2 Protein-Protein Interaction Wenpeng Cao, Chuqiao Dong, Seonghan Kim, Decheng Hou, Wanbo Tai, Lanying Du, et al. (+2)
184 [GO] 2021―Feb―12 Hydrating the Respiratory Tract: An Alternative Explanation Why Masks Lower Severity of COVID-19 Joseph M. Courtney, Ad Bax
185 [GO] 2021―Feb―12 Vitamin D and Its Derivatives as Promising Drugs Against COVID-19 - A Computational Study Yuwei Song, Shariq Qayyum, Radomir Slominski, Chander Raman, Andrzej Slominski, Yuhua Song
186 [GO] 2021―Feb―12 Rationally Designed Chimeric Antibodies for COVID-19 and Future Coronavirus Variants Ching-chung Hsueh, Steven S. Plotkin
187 [GO] 2021―Feb―12 COVID-19 Drugs Chloroquine and Hydroxychloroquine, but Not Azithromycin and Remdesivir, Block hERG Potassium Channels Mark Szendrey, Jun Guo, Wentao Li, Tonghua Yang, Shetuan Zhang
188 [GO] 2021―Feb―12 Investigational Treatments for COVID-19 May Increase Ventricular Arrhythmia Risk through Drug Interactions Meera Varshneya, Itziar Irurzun-Arana, Chiara Campana, Rafael Dariolli, Amy Gutierrez, Taylor K. Pullinger, Eric A. Sobie
189 [GO] 2021―Feb―12 Introductory Models of the Covid-19 Pandemic in the United States Peter H. Nelson
190 [GO] 2021―Feb―12 Identification of FDA Approved Antiviral Drugs for COVID-19 Treatment using Unbiased Virtual Screening Rory Greer, Yuwei Song, Michael J. Patton, Matthew Might, Kevin Harrod, Chad M. Petit, Yuhua Song
191 [GO] 2021―Feb―12 Coronavirus Envelope Protein: Lipid Sensitivity and Membrane Bending Jesse Sandberg, Grace H. Brannigan
192 [GO] 2021―Feb―12 Coronavirus Pathogenicity is Determined by Stability of the Spike Protein Open Conformation Josiah Bones, Ben Corry
193 [GO] 2021―Feb―12 Modeling and Manipulating Antibody Response Against Influenza and Coronavirus Spike Proteins and Exploring their Role in Directing Spike Evolution Assaf Amitai, Maya Sangesland, Daniel Lingwood, Arup K. Chakraborty
194 [GO] 2021―Feb―12 Anti-Frameshifting Ligand Active against SARS Coronavirus-2 is Resistant to Natural Mutations of the Frameshift-Stimulatory Pseudoknot Krishna Neupane, Sneha Munshi, Meng Zhao, Dustin Ritchie, Sandaru M. Ileperuma, Michael T. Woodside
195 [GO] 2021―Feb―12 Differential Dynamic Behavior of Prefusion Spike Glycoproteins of Sars Coronaviruses 1 and 2 Mahmoud Moradi, Vivek Govind Kumar, Dylan S. Ogden, Ugochi Isu, James Losey
196 [GO] 2021―Feb―12 Distinct Differences in the Interactions of Receptor Binding Domains of SARS-CoV-2 and SARS-CoV with Human ACE2 Atanu Acharya, Anna Pavlova, Christophe J. Chipot, James C. Gumbart
197 [GO] 2021―Feb―12 An Integrative MD Simulation and Network Analysis Approach to Study Glycosylation of Spike in SARS-CoV-2 Mahdi Ghorbani, Bernard R. Brooks, Jeffery B. Klauda
198 [GO] 2021―Feb―12 Combining Computational Modeling with Library Screening to Adapt SARS-CoV-Neutralizing Antibody 80R to SARS-CoV-2 Michael S. Kent, Maxwell Stefan, Kenneth Sale, Corey Hudson, Daniella Martinez, Miranda Juarros, et al. (+5)
199 [GO] 2021―Feb―12 Modeling Protein-Lipid Interactions during Viral Assembly of SARS-CoV-2 Viviana Monje-Galvan, Alexander Pak, Gregory A. Voth
200 [GO] 2021―Feb―12 Adaptive Evolution of Peptide Inhibitors for Mutating SARS-CoV-2 Parth Chaturvedi, Yanxiao Han, Petr Král, Lela Vukovic
201 [GO] 2021―Feb―12 Quantitative Fluorescence Microscopy on SARS-CoV-2 Rayna M. Addabbo, John Kohler, Isaac Angert, Yan Chen, Heather Hanson, Louis M. Mansky, Joachim D. Mueller
202 [GO] 2021―Feb―12 The Effect of Glycans Steric Potentials on Virus Infectivity- the SARS-Cov-2 Case Giuseppe Battaglia
203 [GO] 2021―Feb―12 Characterization of SARS-CoV-2 Conserved Elements’ Structures and their RNA-RNA Interactions Caylee Cunningham, Joshua Imperatore, Ella Milback, Morgan Shine, Kendy A. Pellegrene, Patrick Lackey, et al. (+2)
204 [GO] 2021―Feb―12 Structural Dynamics of SARS-CoV-2 Frameshift Signal Studied by Single-Molecule Force Spectroscopy Reveal Topologically Distinct Conformers Krishna P. Neupane, Meng Zhao, Noel Q. Hoffer, Aaron Lyons, Sneha Munshi, Dustin Ritchie, Michael T. Woodside
205 [GO] 2021―Feb―12 High-Coverage Nucleic Acid Probes for Distinguishing SARS-COV-2 from Influenza Samantha J. Courtney, Zachary R. Stromberg, James Theiler, Brian T. Foley, Jason D. Gans, Karina Yusim, Jessica Z. Kubicek-Sutherland
206 [GO] 2021―Feb―12 The Design of a Destabilizer Peptide to Disrupt SARS-CoV-2 Fusion with Its Targeted Cell Membrane Motamed Qadan
207 [GO] 2021―Feb―12 SARS-CoV-2 Glycosylated Spike Activation Mechanism - Simulations of the Full Unbiased Pathway Terra Sztain-Pedone, Surl-Hee Ahn, Anthony Bogetti, Lorenzo Casalino, Zied Gaieb, James A. McCammon, et al. (+2)
208 [GO] 2021―Feb―12 Inhibitor Binding Influences the Protonation State of Histidines in SARS-CoV-2 Main Protease Anna Pavlova, Diane L. Lynch, Micholas Dean Smith, Jeremy D. Smith, James C. Gumbart
209 [GO] 2021―Feb―12 The Effect of Point Mutations on Structure and Dynamics of SARS-CoV-2 Main Protease Mutants Elizabeth M. Diessner, Zixiao Zong, Thomas J. Cross, Gemma R. Takahashi, Marquise G. Crosby, Vesta Farahmad, et al. (+3)
210 [GO] 2021―Feb―12 Force-Dependent Stimulation of RNA Unwinding by SARS-CoV-2 NSP13 Helicase Keith J. Mickolajczyk, Patrick M. Shelton, Michael Grasso, Xiaocong Cao, Sara E. Warrington, Amol Aher, et al. (+2)
211 [GO] 2021―Feb―12 DNA Folding by the SARS-CoV-2 Nucleocapsid Protein Youna N. Choi, Ryan B. McMillan, Ashley R. Carter
212 [GO] 2021―Feb―12 Investigating SARS-CoV-2 Orf7B Homodimerization by Molecular Dynamics Simulations Min-Kang Hsieh, Jeffery B. Klauda
213 [GO] 2021―Feb―12 Dynamics and Binding Strength of the Spike Protein of Sars-Cov-2 Probed by High-Speed Atomic Force Microscopy Fidan Sumbul, Claire Valotteau, Ignacio Fernandez, Analisa Meola, Eduard Baquero, Dorota Kostrz, et al. (+4)
214 [GO] 2021―Feb―12 Automated Computational Technique to Improve the Quality of SARS-CoV-2 Proteins Joseph P. Farrell, Esmael J. Haddadian
215 [GO] 2021―Feb―12 Using Tactics to Find Druggable Pockets in SARS-CoV-2 Proteins Daniel J. Evans, Remy A. Yovanno, Sanim Rahman, Afif Bandak, Albert Y. Lau
216 [GO] 2021―Feb―12 Prediction and Analysis of Multiple Sites and Inhibitors of SARS-CoV-2 Proteins Suhasini M. Iyengar, Kelton Barnsley, Hoang Yen Vu, Ryan Dilworth, Jana Sefcikova, Penny Beuning, Mary Jo Ondrechen
217 [GO] 2021―Feb―12 Characterizing Binding Kinetics and Thermodynamics of Computer-Designed Nanobodies Targeting SARS-CoV-2 RBD Matheus Ferraz, Roberto Lins
218 [GO] 2021―Feb―12 Exploring the Role of Glycans in the Interaction of SARS-CoV-2 RBD and Human Receptor ACE2 Kien Nguyen, Srirupa Chakraborty, Rachael A. Mansbach, Pedro D. Manrique, Bette Korber, Sandrasegaram Gnanakaran
219 [GO] 2021―Feb―12 The Effect of Mutations on Binding Interactions Between the SARS-CoV-2 Receptor Binding Domain and Neutralizing Antibodies Jonathan E. Barnes, Peik K. Lund-Andersen, Jagdish S. Patel, F. Marty Ytreberg
220 [GO] 2021―Feb―12 Modeling the Structure of the Frameshift-Stimulatory Pseudoknot in SARS-CoV-2 Reveals Multiple Possible Conformers Sara Ibrahim Omar, Meng Zhao, Rohith Vedhthaanth Sekar, Sahar Arbabimoghadam, Jack A. Tuszynski, Michael T. Woodside
221 [GO] 2021―Feb―12 Energetics of Opening for the Glycosylated and Unglycosylated Forms of the SARS-CoV-2 S-Protein Trimer Yui Tik Pang, Atanu Acharya, Diane L. Lynch, James C. Gumbart
222 [GO] 2021―Feb―12 Enhanced Sampling of the SARS-CoV-2 s2m Element Adam H. Kensinger, Kendy A. Pellegrene, Joshua Imperatore, Matthew N. Srnec, Mihaela-Rita Mihailescu, Jeffrey D. Evanseck
223 [GO] 2021―Feb―12 Condensed Liquid Phase 3D Structure of SARS-CoV-2 s2m Guided by NMR Spectroscopy Kendy A. Pellegrene, Joshua A. Imperatore, Caylee L. Cunningham, Adam H. Kensinger, Petru Mihailescu, Matthew N. Srnec, et al. (+2)
224 [GO] 2021―Feb―12 SARS-CoV-2 Simulations go Exascale to Capture Spike Opening and Reveal Cryptic Pockets Across the Proteome Maxwell I. Zimmerman, Gregory Bowman
225 [GO] 2021―Feb―12 Essential Dynamics that Drive Sars-Cov-2 Spike Conformational Changes Srirupa Chakraborty, Rachael A. Mansbach, Kien Nguyen, Pedro D. Manrique, Sandrasegaram Gnanakaran
226 [GO] 2021―Feb―12 Identifying Hotspots in Binding of SARS-CoV-2 Spike Glycoprotein and Human ACE2 Jenny Mendis, Ekrem Kaya, Tugba G. Kucukkal
227 [GO] 2021―Feb―12 Inhibition of SARS-CoV-2 Spike Protein Function by Amphiphilic Block Copolymers Michelle X. Ling, Michelle Nguyen, Kyle McCollum, Raphael C. Lee
228 [GO] 2021―Feb―12 Refinement of the Transmembrane Domain in Constructing the Membrane-Embedded SARS-COV-2 Spike Protein Model Tianle Chen, Karan Kapoor, Emad Tajkhorshid
229 [GO] 2021―Feb―12 The Influence of Glycosylation on the Interaction of the Sars-Cov-2 Spike Protein Receptor Binding Domain with Therapeutic Candidates. Bradley Harris, Yihan Huang, Giovanni Lara, Shiaki Minami, Matthew Kenaston, Seongwon Jung, et al. (+5)
230 [GO] 2021―Feb―12 The Extended Intermediate of the SARS-CoV-2 Spike Protein uses Extreme Reach and Flexibility to Capture Host Cell Membranes Rui Su, Jin Zeng, Sathish Thiyagarajan, Ben O'Shaughnessy
231 [GO] 2021―Feb―12 Mapping Binding Interfaces and Allosteric Changes in the SARS-Cov-2 Spike Protein using Hydrogen/Deuterium Exchange Mass Spectrometry Shawn M. Costello, Helen T. Hobbs, Sophie R. Shoemaker, Abigail E. Powell, Shion A. Lim, James A. Wells, et al. (+3)
232 [GO] 2021―Feb―12 The SARS-CoV-2 Spike Variant D614G Favors an Open Conformational State Rachael A. Mansbach, Srirupa Chakraborty, Kien Nguyen, David C. Montefiori, Bette Korber, Gnana Gnanakaran
233 [GO] 2021―Feb―12 Real-Time Conformational Dynamics of SARS-CoV-2 Spikes on Virus Particles Maolin Lu, Pradeep D. Uchil, Wenwei Li, Daniel S. Terry, Jason Gorman, Baoshang Zhang, et al. (+9)
234 [GO] 2021―Feb―12 Predicting the Ability of SARS-CoV-2 to Utilize the ACE2 Receptor for Cell Entry in North American Rodents Peik K. Lund-Andersen, Jeremy R. Ellis, James T. Van Leuven, Jagdish Patel
235 [GO] 2021―Feb―12 Understanding Activation and Inhibition of SARS-CoV-2 Viral Entry with Single-Virus Microscopy Anjali Sengar, Giorgio Morbioli, Peter Kasson
236 [GO] 2021―Feb―12 Topography, Spike Dynamics and Nanomechanics of Individual Native SARS-CoV-2 Virions Balint Kiss, Zoltán Kis, Bernadett Pályi, Miklós S. Kellermayer
237 [GO] 2021―Feb―12 Adaptive Evolution of SARS-CoV-2: A Perspective from Dynamics Ismail C. Kazan, S. Banu Ozkan
238 [GO] 2021―Feb―12 Conserved Elements in the 3'-UTR of SARS-CoV-2: Involvement in Genomic Dimerization and Interactions with Cellular Micrornas Joshua A. Imperatore, Caylee L. Cunningham, Caleb J. Frye, Kendy A. Pellegrene, Jeffrey D. Evanseck, Mihaela-Rita Mihailescu
239 [GO] 2021―Feb―12 Mechanism and Pathways of Inhibitor Binding to the Human ACE2 Receptor for SARS-CoV1/2 Apurba Bhattarai, Shristi Pawnikar, Yinglong Miao
240 [GO] 2021―Feb―12 Factors that Affect the Binding of the N-Terminal Helix of Human ACE2 to Spike Protein of SARS-CoV2 Anirban Das, Vicky Vishvakarma, Ankur Gupta, Simli Dey, Arpan Dey, U. Sandra, et al. (+5)
241 [GO] 2021―Feb―12 Elucidating the Mechanism of Membrane Destabilization by the Preferred Modes of Insertion of the Sars-Cov2 Fusion Peptide George Khelashvili, Harel Weinstein
242 [GO] 2021―Feb―12 Binding Mode of SARS-CoV2 Fusion Peptide to Human Cellular Membranes Defne Gorgun, Muyun Lihan, Karan Kapoor, Emad Tajkhorshid
243 [GO] 2021―Feb―12 Hepatitis C Virus Protease Inhibitors Suppress Virus Replication and Act Synergistically with the SARS-CoV2 Polymerase Inhibitor Remdesivir Khushboo Bafna, Kris White, Balasubramanian Harish, Catherine A. Royer, Adolfo Garcia-Sastre, Robert M. Krug, Gaetano T. Montelione
244 [GO] 2021―Feb―03 Bow to the Enemy: How Flexibility of Host Protein Receptors Can Favor SARS-CoV-2 Stefano A. Serapian, Giorgio Colombo
245 [GO] 2021―Feb―03 Graph, Pseudoknot, and SARS-Cov-2 Genomic RNA - a Biophysical Synthesis Shi-Jie Chen
246 [GO] 2021―Jan―26 A Multiscale Coarse-grained Model of the SARS-CoV-2 Virion John E. Straub
247 [GO] 2021―Jan―21 Elucidation of Interactions Regulating Conformational Stability and Dynamics of SARS-CoV-2 S-Protein Takaharu Mori, Jaewoon Jung, Chigusa Kobayashi, Hisham M. Dokainish, Suyong Re, Yuji Sugita
248 [GO] 2021―Jan―17 Improving SARS-CoV-2 Structures: Peer Review by Early Coordinate Release Tristan I. Croll, Christopher J. Williams, Vincent B. Chen, David C. Richardson, Jane S. Richardson
249 [GO] 2020―Dec―25 The molecular mechanism of domain-swapping of the C-terminal domain of the SARS coronavirus main protease Vishram L. Terse, Shachi Gosavi
250 [GO] 2020―Dec―17 Force-dependent stimulation of RNA unwinding by SARS-CoV-2 nsp13 helicase Keith J. Mickolajczyk, Patrick M.M. Shelton, Michael Grasso, Xiaocong Cao, Sara E. Warrington, Amol Aher, et al. (+2)
251 [GO] 2020―Nov―28 Thermal Inactivation Scaling Applied for SARS-CoV-2 Shahar Seifer, Michael Elbaum
252 [GO] 2020―Nov―28 A Multiscale Coarse-grained Model of the SARS-CoV-2 Virion Alvin Yu, Alexander J. Pak, Peng He, Viviana Monje-Galvan, Lorenzo Casalino, Zied Gaieb, et al. (+3)
253 [GO] 2020―Nov―13 The flexibility of ACE2 in the context of SARS-CoV-2 infection Emilia P. Barros, Lorenzo Casalino, Zied Gaieb, Abigail C. Dommer, Yuzhang Wang, Lucy Fallon, et al. (+4)
254 [GO] 2020―Oct―21 Structure-Altering Mutations of the SARS-CoV-2 Frame Shifting RNA Element Tamar Schlick, Qiyao Zhu, Swati Jain, Shuting Yan
255 [GO] 2020―Aug―08 Reflections on the Pandemic H. Jane Dyson
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255 Results       Page 1



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