Výsledky vyhledávání - "Shoshana J, Wodak"

Akademický článek

Insight into membraneless organelles and their associated proteins: Drivers, Clients and Regulators

Autor: Fernando Orti, Alvaro M. Navarro, Andres Rabinovich, Shoshana J. Wodak, Cristina Marino-Buslje

Publikováno v: Computational and Structural Biotechnology Journal, Vol 19, Iss , Pp 3964-3977 (2021)

In recent years, attention has been devoted to proteins forming immiscible liquid phases within the liquid intracellular medium, commonly referred to as membraneless organelles (MLO). These organelles enable the spatiotemporal associations of cellula

Externí odkaz: https://doaj.org/article/3cdc81ebd20344788b0f4835fb0055cb

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Akademický článek

Interplay of buried histidine protonation and protein stability in prion misfolding

Autor: Anatoly Malevanets, P. Andrew Chong, D. Flemming Hansen, Paul Rizk, Yulong Sun, Hong Lin, Ranjith Muhandiram, Avi Chakrabartty, Lewis E. Kay, Julie D. Forman-Kay, Shoshana J. Wodak

Publikováno v: Scientific Reports, Vol 7, Iss 1, Pp 1-14 (2017)

Abstract Misofolding of mammalian prion proteins (PrP) is believed to be the cause of a group of rare and fatal neurodegenerative diseases. Despite intense scrutiny however, the mechanism of the misfolding reaction remains unclear. We perform nuclear

Externí odkaz: https://doaj.org/article/2cc9aa29f07a4e49a4b2965ad45484b5

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Akademický článek

Intercellular network structure and regulatory motifs in the human hematopoietic system

Autor: Wenlian Qiao, Weijia Wang, Elisa Laurenti, Andrei L Turinsky, Shoshana J Wodak, Gary D Bader, John E Dick, Peter W Zandstra

Publikováno v: Molecular Systems Biology, Vol 10, Iss 7, Pp 1-18 (2014)

Abstract The hematopoietic system is a distributed tissue that consists of functionally distinct cell types continuously produced through hematopoietic stem cell (HSC) differentiation. Combining genomic and phenotypic data with high‐content experim

Externí odkaz: https://doaj.org/article/691d206a2b564fdf948695529598fe7f

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Akademický článek

Human-Chromatin-Related Protein Interactions Identify a Demethylase Complex Required for Chromosome Segregation

Publikováno v: Cell Reports, Vol 8, Iss 1, Pp 297-310 (2014)

Chromatin regulation is driven by multicomponent protein complexes, which form functional modules. Deciphering the components of these modules and their interactions is central to understanding the molecular pathways these proteins are regulating, th

Externí odkaz: https://doaj.org/article/1fec600c0aea446f95652573d57c6bfd

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The impact of structural bioinformatics tools and resources on SARS-CoV-2 research and therapeutic strategies

Autor: Mihaly Varadi, Vincent Zoete, Sameer Velankar, Neeladri Sen, Antoine Daina, Shoshana J. Wodak, Christine A. Orengo, Vaishali P Waman

Publikováno v: Briefings in Bioinformatics

SARS-CoV-2 is the causative agent of COVID-19, the ongoing global pandemic. It has posed a worldwide challenge to human health as no effective treatment is currently available to combat the disease. Its severity has led to unprecedented collaborative

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a4c71b328701cb7a96dbde6a36dd3e6c
https://doi.org/10.1093/bib/bbaa362

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Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment

Autor: Xiaoqin Zou, Théo Mauri, Hang Shi, Shaowen Zhu, Justas Dapkūnas, Yuanfei Sun, Didier Barradas-Bautista, Raphael A. G. Chaleil, Ragul Gowthaman, Sohee Kwon, Xianjin Xu, Zuzana Jandova, Genki Terashi, Ryota Ashizawa, Petras J. Kundrotas, Shuang Zhang, Tunde Aderinwale, Jian Liu, Sandor Vajda, Paul A. Bates, Jianlin Cheng, Daisuke Kihara, Luis A. Rodríguez-Lumbreras, Carlos A. Del Carpio Muñoz, Liming Qiu, Guillaume Brysbaert, Jorge Roel-Touris, Česlovas Venclovas, Tereza Clarence, Rui Yin, Amar Singh, Patryk A. Wesołowski, Rafał Ślusarz, Adam Liwo, Guangbo Yang, Agnieszka S. Karczyńska, Yoshiki Harada, Sergei Kotelnikov, Yuya Hanazono, Charlotte W. van Noort, Marc F. Lensink, Jonghun Won, Adam K. Sieradzan, Israel Desta, Xufeng Lu, Charles Christoffer, Anna Antoniak, Taeyong Park, Sheng-You Huang, Tsukasa Nakamura, Brian G. Pierce, Usman Ghani, Yang Shen, Luigi Cavallo, Chaok Seok, Hao Li, Nurul Nadzirin, Ghazaleh Taherzadeh, Jacob Verburgt, Rodrigo V. Honorato, Artur Giełdoń, Jeffrey J. Gray, Dima Kozakov, Ming Liu, Shan Chang, Eiichiro Ichiishi, Manon Réau, Rui Duan, Francesco Ambrosetti, Johnathan D. Guest, Juan Fernández-Recio, Alexandre M. J. J. Bonvin, Ilya A. Vakser, Farhan Quadir, Yumeng Yan, Ren Kong, Sameer Velankar, Sergei Grudinin, Mateusz Kogut, Mikhail Ignatov, Yasuomi Kiyota, Hyeonuk Woo, Shoshana J. Wodak, Ameya Harmalkar, Shinpei Kobayashi, Panagiotis I. Koukos, Zhen Cao, Kliment Olechnovič, Cezary Czaplewski, Xiao Wang, Agnieszka G. Lipska, Kathryn A. Porter, Peicong Lin, Emilia A. Lubecka, Nasser Hashemi, Bin Liu, Mayuko Takeda-Shitaka, Karolina Zięba, Dzmitry Padhorny, Zhuyezi Sun, Daipayan Sarkar, Romina Oliva, Andrey Alekseenko, Siri Camee van Keulen, Mireia Rosell, Raj S. Roy, Brian Jiménez-García, Jinsol Yang, Martyna Maszota-Zieleniak

Publikováno v: Proteins: Structure, Function and Bioinformatics, 89(12), 1800. Wiley-Liss Inc.
Proteins-Structure, Function and Bioinformatics
Proteins-Structure, Function and Bioinformatics, Wiley, 2021, ⟨10.1002/prot.26222⟩
Digital.CSIC. Repositorio Institucional del CSIC
instname
Proteins
Proteins-Structure, Function and Bioinformatics, 2021, 89 (12), pp.1800-1823. ⟨10.1002/prot.26222⟩

We present the results for CAPRI Round 50, the fourth joint CASP-CAPRI protein assembly prediction challenge. The Round comprised a total of twelve targets, including six dimers, three trimers, and three higher-order oligomers. Four of these were eas

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8f1657fc608b7d209e1b9345caf8b2fb
https://dspace.library.uu.nl/handle/1874/417637

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Akademický článek

Lead Generation and Optimization Based on Protein-Ligand Complementarity

Autor: Koji Ogata, Tetsu Isomura, Shinji Kawata, Hiroshi Yamashita, Hideo Kubodera, Shoshana J. Wodak

Publikováno v: Molecules, Vol 15, Iss 6, Pp 4382-4400 (2010)

This work proposes a computational procedure for structure-based lead generation and optimization, which relies on the complementarity of the protein-ligand interactions. This procedure takes as input the known structure of a protein-ligand complex.

Externí odkaz: https://doaj.org/article/c19c53be679045bd837cb83f8bb62abb

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