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Protein structure comparison

Molecular insight into Aspergillus oryzae β-mannanase interacting with mannotriose revealed by molecular dynamic simulation study

Uttam Kumar Jana, Gagandeep Singh, Hemant Soni, Brett Pletschke, Naveen Kango

published 16 Sep 2022

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The PCI domains are “winged” HEAT domains

Eleanor Elise Paul, Assen Marintchev

published 12 Sep 2022

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Structural insights into the RNA interaction with Yam bean Mosaic virus (coat protein) from Pachyrhizus erosus using bioinformatics approach

Varsha Acharya, R. Arutselvan, Kalidas Pati, Ajaya Kumar Rout, Budheswar Dehury, V. B. S. Chauhan, M. Nedunchezhiyan

published 22 Jul 2022

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AlphaFold2 and RoseTTAFold predict posttranslational modifications. Chromophore formation in GFP-like proteins

Sophia M. Hartley, Kelly A. Tiernan, Gjina Ahmetaj, Adriana Cretu, Yan Zhuang, Marc Zimmer

published 16 Jun 2022

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idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R

William M. McFadden, Judith L. Yanowitz

published 18 Apr 2022

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Quantitative analysis of visual codewords of a protein distance matrix

Jure Pražnikar, Nuwan Tharanga Attygalle

published 04 Feb 2022

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Computational and structural based approach to identify malignant nonsynonymous single nucleotide polymorphisms associated with CDK4 gene

Rahatul Islam, Mashiur Rahaman, Hammadul Hoque, Nazmul Hasan, Shamsul H. Prodhan, Asfia Ruhama, Nurnabi Azad Jewel

published 04 Nov 2021

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Comprehensive mutagenesis to identify amino acid residues contributing to the difference in thermostability between two originally thermostable ancestral proteins

Satoshi Akanuma, Minako Yamaguchi, Akihiko Yamagishi

published 21 Oct 2021

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Predicting aptamer sequences that interact with target proteins using an aptamer-protein interaction classifier and a Monte Carlo tree search approach

Gwangho Lee, Gun Hyuk Jang, Ho Young Kang, Giltae Song

published 25 Jun 2021

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Selective transport of fluorescent proteins into the phage nucleus

Katrina T. Nguyen, Joseph Sugie, Kanika Khanna, MacKennon E. Egan, Erica A. Birkholz, Jina Lee, Christopher Beierschmitt, Elizabeth Villa, Joe Pogliano

published 10 Jun 2021

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Refining pairwise sequence alignments of membrane proteins by the incorporation of anchors

René Staritzbichler, Edoardo Sarti, Emily Yaklich, Antoniya Aleksandrova, Marcus Stamm, Kamil Khafizov, Lucy R. Forrest

published 30 Apr 2021

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Naegleria fowleri: Protein structures to facilitate drug discovery for the deadly, pathogenic free-living amoeba

Logan Tillery, Kayleigh Barrett, Jenna Goldstein, Jared W. Lassner, Bram Osterhout, Nathan L. Tran, Lily Xu, Ryan M. Young, Justin Craig, Ian Chun, David M. Dranow, Jan Abendroth, Silvia L. Delker, Douglas R. Davies, Stephen J. Mayclin, Brandy Calhoun, Madison J. Bolejack, Bart Staker, Sandhya Subramanian, Isabelle Phan, Donald D. Lorimer, Peter J. Myler, Thomas E. Edwards, Dennis E. Kyle, Christopher A. Rice, James C. Morris, James W. Leahy, Roman Manetsch, Lynn K. Barrett, Craig L. Smith, Wesley C. Van Voorhis

published 24 Mar 2021

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Alignment of virus-host protein-protein interaction networks by integer linear programming: SARS-CoV-2

Mercè Llabrés, Gabriel Valiente

published 07 Dec 2020

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