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      Structural basis for the dimerization of Gemin5 and its role in protein recruitment and translation control

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          Abstract

          Abstract In all organisms, a selected type of proteins accomplishes critical roles in cellular processes that govern gene expression. The multifunctional protein Gemin5 cooperates in translation control and ribosome binding, besides acting as the RNA-binding protein of the survival of motor neuron (SMN) complex. While these functions reside on distinct domains located at each end of the protein, the structure and function of the middle region remained unknown. Here, we solved the crystal structure of an extended tetratricopeptide (TPR)-like domain in human Gemin5 that self-assembles into a previously unknown canoe-shaped dimer. We further show that the dimerization module is functional in living cells driving the interaction between the viral-induced cleavage fragment p85 and the full-length Gemin5, which anchors splicing and translation members. Disruption of the dimerization surface by a point mutation in the TPR-like domain prevents this interaction and also abrogates translation enhancement induced by p85. The characterization of this unanticipated dimerization domain provides the structural basis for a role of the middle region of Gemin5 as a central hub for protein-protein interactions.

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          Most cited references40

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          TPR proteins: the versatile helix.

          Tetratrico peptide repeat (TPR) proteins have several interesting properties, including their folding characteristics, modular architecture and range of binding specificities. In the past five years, many 3D structures of TPR domains have been solved, revealing at a molecular level the versatility of this basic fold. Here, we discuss the structure of TPRs and highlight the diversity of arrangements and functions that are associated with these ubiquitous domains. Genomic analyses of the distribution of TPR domains are presented along with implications for protein engineering.
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            Dali: a network tool for protein structure comparison.

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              The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity

              During eukaryotic evolution, ribosomes have considerably increased in size forming a surface exposed ribosomal RNA (rRNA) shell of unknown function, which may create an interface for yet uncharacterized interacting proteins. To investigate such protein interactions, we establish a ribosome affinity purification method that unexpectedly identified hundreds of ribosome associated proteins (RAPs) from categories including metabolism, cell cycle, as well as RNA and protein modifying enzymes that functionally diversify mammalian ribosomes. By further characterizing RAPs, we discover the presence of ufmylation, a metazoan-specific posttranslational modification, on ribosomes and define its direct substrates. Moreover, we show that the metabolic enzyme, pyruvate kinase muscle (PKM), interacts with sub-pools of endoplasmic reticulum (ER)-associated ribosomes, exerting a non-canonical function as an RNA binding protein in the translation of ER-destined mRNAs. Therefore, RAPs interconnect one of life’s most ancient molecular machines with diverse cellular processes, providing an additional layer of regulatory potential to protein expression.
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                Author and article information

                Journal
                Nucleic Acids Res
                Nucleic Acids Res
                nar
                Nucleic Acids Research
                Oxford University Press
                0305-1048
                1362-4962
                24 January 2020
                04 December 2019
                04 December 2019
                : 48
                : 2
                : 788-801
                Affiliations
                [1 ] Centro de Biología Molecular Severo Ochoa , CSIC-UAM, Nicolás Cabrera 1, 28049 Madrid, Spain
                [2 ]Group 739, Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER)- Instituto de Salud Carlos III , Valencia, Spain
                Author notes
                To whom correspondence should be addressed. Tel: +34 911964619; Fax: +34 911964420; Email: emartinez@ 123456cbm.csic.es
                Correspondence may also be addressed to Santiago Ramón-Maiques. Email: santiago.ramon@ 123456cbm.csic.es

                The authors wish it to be known that, in their opinion, the first three authors should be regarded as joint First Authors.

                Author information
                http://orcid.org/0000-0001-7928-3338
                http://orcid.org/0000-0002-4328-8732
                http://orcid.org/0000-0002-1980-942X
                http://orcid.org/0000-0001-8782-726X
                http://orcid.org/0000-0001-9674-8088
                http://orcid.org/0000-0002-8432-5587
                Article
                gkz1126
                10.1093/nar/gkz1126
                6954437
                31799608
                12f3de9a-9e06-4ad6-9cd7-20400314c691
                © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@ 123456oup.com

                History
                : 18 November 2019
                : 12 November 2019
                : 24 June 2019
                Page count
                Pages: 14
                Funding
                Funded by: MINECO 10.13039/501100003329
                Award ID: BFU2016-80570-R
                Award ID: BFU2017-84492-R
                Award ID: RTI2018-098084-B-I00
                Award ID: AEI/FEDER
                Award ID: UE
                Funded by: Comunidad de Madrid 10.13039/100012818
                Award ID: B2017/BMD-3770
                Categories
                Molecular Biology

                Genetics
                Genetics

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