Short linear interaction motifs as specificity determinants in the ubiquitin system – discovery, mechanisms and therapeutic opportunities | UBIMOTIF | Project | Results | H2020 | CORDIS

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On the Effects of Disordered Tails, Supertertiary Structure and Quinary Interactions on the Folding and Function of Protein Domains

Autores: Francesca Malagrinò, Valeria Pennacchietti, Daniele Santorelli, Livia Pagano, Caterina Nardella, Awa Diop, Angelo Toto, Stefano Gianni
Publicado en: Biomolecules, 2022, ISSN 2218-273X
Editor: MDPI
DOI: 10.3390/biom12020209

Folding and Binding Mechanisms of the SH2 Domain from Crkl

Autores: Caterina Nardella, Angelo Toto, Daniele Santorelli, Livia Pagano, Awa Diop, Valeria Pennacchietti, Paola Pietrangeli, Lucia Marcocci, Francesca Malagrinò, Stefano Gianni
Publicado en: Biomolecules, 2022, ISSN 2218-273X
Editor: MDPI
DOI: 10.3390/biom12081014

The human GID complex engages two independent modules for substrate recruitment

Autores: Mohamed, Weaam I.; Park, Sophia L.; Rabl, Julius; id_orcid0000-0001-6375-852X; Leitner, Alexander; Boehringer, Daniel; Peter, Matthias; peter, matthias
Publicado en: EMBO Reports, 22 (11), Edición 1, 2021, ISSN 1469-221X
Editor: Nature Publishing Group
DOI: 10.3929/ethz-b-000511960

Unveiling induced folding of intrinsically disordered proteins – Protein engineering, frustration and emerging themes

Autores: Francesca Malagrinò, Awa Diop, Livia Pagano, Caterina Nardella, Angelo Toto, Stefano Gianni
Publicado en: Current Opinion in Structural Biology, 2022, ISSN 1879-033X
Editor: Elsevier
DOI: 10.1016/j.sbi.2021.11.004

Who Binds Better? Let Alphafold2 Decide!

Autores: Julia K. Varga, Ora Schueler-Furman
Publicado en: Angewandte Chemie, 2023, ISSN 1521-3773
Editor: Wiley-VCH GmbH
DOI: 10.1002/anie.202303526

Exploring the effect of tethered domains on the folding of Grb2 protein

Autores: Livia Pagano, Valeria Pennacchietti, Awa Diop, Daniele Santorelli, Paola Pietrangeli, Lucia Marcocci, Caterina Nardella, Francesca Malagrino, Angelo Toto, Stefano Gianni
Publicado en: Archives of Biochemistry and Biophysics, 2022, ISSN 0003-9861
Editor: Academic Press
DOI: 10.1016/j.abb.2022.109444

xProtCAS: A Toolkit for Extracting Conserved Accessible Surfaces from Protein Structures

Autores: Hazem M. Kotb, Norman E. Davey
Publicado en: Biomolecules, 2023, ISSN 2218-273X
Editor: MDPI
DOI: 10.3390/biom13060906

Matching protein surface structural patches for high-resolution blind peptide docking

Autores: Alisa Khramushin, Ziv Ben-Aharon, Tomer Tsaban, Julia K. Varga, Orly Avraham, Ora Schueler-Furman
Publicado en: PNAS, 2022, ISSN 1091-6490
Editor: National Academy of Sciences
DOI: 10.1073/pnas.2121153119

Structure-Based Prediction of KDAC6 Substrates Validated by Enzymatic Assay Reveals Determinants of Promiscuity and Detects New Potential Substrates

Autores: Julia Varga; Kelsey Diffley; Katherine R. Welker Leng; Carol A. Fierke; Ora Schueler-Furman
Publicado en: Scientific Reports, 2022, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-022-05681-2

SH2 Domains: Folding, Binding and Therapeutical Approaches

Autores: Awa Diop, Daniele Santorelli, Francesca Malagrinò, Caterina Nardella, Valeria Pennacchietti, Livia Pagano, Lucia Marcocci, Paola Pietrangeli, Stefano Gianni, Angelo Toto
Publicado en: International Journal of Molecular Sciences, 2022, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms232415944

Harnessing protein folding neural networks for peptide–protein docking

Autores: Tsaban, Tomer; Varga, Julia K.; Avraham, Orly; Ben-Aharon, Ziv; Khramushin, Alisa; Schueler-Furman, Ora
Publicado en: Nature Communications, Edición 1, 2022, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-021-27838-9

Biophysical Characterization of the Binding Mechanism between the MATH Domain of SPOP and Its Physiological Partners

Autores: Awa Diop, Paola Pietrangeli, Caterina Nardella, Valeria Pennacchietti, Livia Pagano, Angelo Toto, Mariana Di Felice, Sara Di Matteo, Lucia Marcocci, Francesca Malagrinò, Stefano Gianni
Publicado en: International Journal of Molecular Sciences, 2023, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms241210138

Characterization of early and late transition states of the folding pathway of a SH2 domain

Autores: Angelo Toto; Francesca Malagrinò; Caterina Nardella; Valeria Pennacchietti; Livia Pagano; Daniele Santorelli; Awa Diop; Stefano Gianni
Publicado en: Protein Science, 2022, ISSN 1469-896X
Editor: Wiley
DOI: 10.1002/pro.4332

A Mass Spectrometry-Based Strategy for Mapping Modification Sites for the Ubiquitin-Like Modifier NEDD8

Autores: Oliveira, C.A.B., Isaakova, E., Beli, P., Xirodimas, D.P.
Publicado en: The Ubiquitin Code. Methods in Molecular Biology, vol 2602., 2022, ISBN 978-1-0716-2859-1
Editor: Humana
DOI: 10.1007/978-1-0716-2859-1_10

Short linear interaction motifs as specificity determinants in the ubiquitin system – discovery, mechanisms and therapeutic opportunities

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