ALADIN Causes Selective Failure of Nuclear Protein Import And
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Comparison of the Effect of Mutant and Wild-Type P53 on Global Gene Expression
[CANCER RESEARCH 64, 8199–8207, November 15, 2004] Comparison of the Effect of Mutant and Wild-Type p53 on Global Gene Expression Thomas J. O’Farrell, Paritosh Ghosh, Nobuaki Dobashi, Carl Y. Sasaki, and Dan L. Longo Laboratory of Immunology, Gerontology Research Center, National Institute on Aging, NIH, Baltimore, Maryland ABSTRACT compared with wild-type (WT) p53 (9). Generally, mutation of resi- dues directly contacting DNA results in a complete loss of DNA The mechanisms for “gain-of-function” phenotypes produced by mu- binding with little loss in folding of the domain, whereas mutation of tant p53s such as enhanced proliferation, resistance to transforming structural residues results in a Ͼ50% loss of folding and DNA binding growth factor-–mediated growth suppression, and increased tumorigen- esis are not known. One theory is that these phenotypes are caused by (9). However, considering that the NH2- and COOH-terminal domains novel transcriptional regulatory events acquired by mutant p53s. Another of p53 are distinct from the compact DNA-binding domain and explanation is that these effects are a result of an imbalance of functions considerably less ordered, the mutations in the DNA-binding domain caused by the retention of some of the wild-type transcriptional regulatory are less likely to affect the integrity and function of these domains. events in the context of a loss of other counterbalancing activities. An Because p53 is found mutated in approximately 50% of all cancers, analysis of the ability of DNA-binding domain mutants A138P and R175H, p53 mutants have been rather extensively studied for their ability to ؋ 3 and wild-type p53 to regulate the expression levels of 6.9 10 genes confer “gain-of-function” phenotypes on cells. -
Plugged Into the Ku-DNA Hub: the NHEJ Network Philippe Frit, Virginie Ropars, Mauro Modesti, Jean-Baptiste Charbonnier, Patrick Calsou
Plugged into the Ku-DNA hub: The NHEJ network Philippe Frit, Virginie Ropars, Mauro Modesti, Jean-Baptiste Charbonnier, Patrick Calsou To cite this version: Philippe Frit, Virginie Ropars, Mauro Modesti, Jean-Baptiste Charbonnier, Patrick Calsou. Plugged into the Ku-DNA hub: The NHEJ network. Progress in Biophysics and Molecular Biology, Elsevier, 2019, 147, pp.62-76. 10.1016/j.pbiomolbio.2019.03.001. hal-02144114 HAL Id: hal-02144114 https://hal.archives-ouvertes.fr/hal-02144114 Submitted on 29 May 2019 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Progress in Biophysics and Molecular Biology xxx (xxxx) xxx Contents lists available at ScienceDirect Progress in Biophysics and Molecular Biology journal homepage: www.elsevier.com/locate/pbiomolbio Plugged into the Ku-DNA hub: The NHEJ network * Philippe Frit a, b, Virginie Ropars c, Mauro Modesti d, e, Jean Baptiste Charbonnier c, , ** Patrick Calsou a, b, a Institut de Pharmacologie et Biologie Structurale, IPBS, Universite de Toulouse, CNRS, UPS, Toulouse, France b Equipe Labellisee Ligue Contre -
Repair of Double-Strand Breaks by End Joining
Downloaded from http://cshperspectives.cshlp.org/ on September 28, 2021 - Published by Cold Spring Harbor Laboratory Press Repair of Double-Strand Breaks by End Joining Kishore K. Chiruvella1,4, Zhuobin Liang1,2,4, and Thomas E. Wilson1,3 1Department of Pathology, University of Michigan, Ann Arbor, Michigan 48109 2Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, Michigan 48109 3Department of Human Genetics, University of Michigan, Ann Arbor, Michigan 48109 Correspondence: [email protected] Nonhomologous end joining (NHEJ) refers to a set of genome maintenance pathways in which two DNA double-strand break (DSB) ends are (re)joined by apposition, processing, and ligation without the use of extended homology to guide repair. Canonical NHEJ (c-NHEJ) is a well-defined pathway with clear roles in protecting the integrity of chromo- somes when DSBs arise. Recent advances have revealed much about the identity, structure, and function of c-NHEJ proteins, but many questions exist regarding their concerted action in the context of chromatin. Alternative NHEJ (alt-NHEJ) refers to more recently described mechanism(s) that repair DSBs in less-efficient backup reactions. There is great interest in defining alt-NHEJ more precisely, including its regulation relative to c-NHEJ, in light of evidence that alt-NHEJ can execute chromosome rearrangements. Progress toward these goals is reviewed. NA double-strand breaks (DSBs) are seri- the context of influences on the relative utiliza- Dous lesions that threaten a loss of chromo- tion of different DSB repair pathways. somal content. Repair of DSBs is particularly Nonhomologous end joining (NHEJ) is de- challenging because, unlike all other lesions, fined as repair in which two DSB ends are joined the DNA substrate is inherently bimolecular. -
Nuclear Non-Chromatin Proteinaceous Structures: Their Role in the Organization and Function of the Interphase Nucleus
J. Cell Set. 44, 395-435 (1980) 295 Printed in Great Britain © Company of BiologitU Limited igSo NUCLEAR NON-CHROMATIN PROTEINACEOUS STRUCTURES: THEIR ROLE IN THE ORGANIZATION AND FUNCTION OF THE INTERPHASE NUCLEUS PAUL S. AGUTTER* AND JONATHAN C. W. RICHARDSONf • Department of Biological Sciences, Napier College, Colinton Road, Edinburgh EH10 5DT, Scotland and f Department of Physiology and Pharmacology, University of St Andrews, Bute Medical Buildings, St Andrews, Fife, Scotland REVIEW ARTICLE: CONTENTS I. INTRODUCTION page 39s (1) Historical background 395 (2) Nomenclature 397 II. NUCLEAR PROTEIN MATRIX AND NUCLEAR GHOSTS 397 (1) Isolation 397 (2) Composition 398 (3) Ultrastructure 401 (4) Enzyme activities associated with the nuclear protein matrix 405 (5) Contractility of the nuclear protein matrix 405 (6) Functions associated with the nucleai protein matrix 408 III. SUBFRACTIONS OF THE NUCLEAR PROTEIN MATRIX 411 (A) The pore-lamina 411 (1) Isolation 411 (2) Composition 413 (3) Ultrastructure 414 (4) The molecular organization of the pore-lamina 417 (B) Other subfractions 419 IV. COMPOSITIONAL AND FUNCTIONAL DIFFERENCES BETWEEN THE PORE-LAMINA AND THE REMAINDER OF THE NUCLEAR PROTEIN MATRIX 42O V. PROSPECTS FOR FURTHER RESEARCH 422 (1) The role of the nuclear protein matrix in nucleo-cytoplasmic RNA transport 422 (2) Relevance of a knowledge of factors affecting the stability of the intra- nuclear regions of the matrix to the further development of methods for isolation of the nuclear envelope 423 (3) Fate of the nuclear matrix during mitosis 423 I. INTRODUCTION (1) Historical background Since 1949 there have been several accounts of a 'honeycomb layer' or 'nuclear cortex' in the nuclei of lower eukaryotes (Callan, Randall & Tomlin, 1949; Callan & Tomlin, 1950; Harris & James, 1952; Pappas, 1956; Beams, Tahmisian, Devine & 26-2 396 P. -
Dynamic Force-Induced Direct Dissociation of Protein Complexes in a Nuclear Body in Living Cells
ARTICLE Received 13 Jan 2012 | Accepted 26 Apr 2012 | Published 29 May 2012 DOI: 10.1038/ncomms1873 Dynamic force-induced direct dissociation of protein complexes in a nuclear body in living cells Yeh-Chuin Poh1, Sergey P. Shevtsov2, Farhan Chowdhury1, Douglas C. Wu1, Sungsoo Na3, Miroslav Dundr2 & Ning Wang1 Despite past progress in understanding mechanisms of cellular mechanotransduction, it is unclear whether a local surface force can directly alter nuclear functions without intermediate biochemical cascades. Here we show that a local dynamic force via integrins results in direct displacements of coilin and SMN proteins in Cajal bodies and direct dissociation of coilin-SMN associated complexes. Spontaneous movements of coilin increase more than those of SMN in the same Cajal body after dynamic force application. Fluorescence resonance energy transfer changes of coilin-SMN depend on force magnitude, an intact F-actin, cytoskeletal tension, Lamin A/C, or substrate rigidity. Other protein pairs in Cajal bodies exhibit different magnitudes of fluorescence resonance energy transfer. Dynamic cyclic force induces tiny phase lags between various protein pairs in Cajal bodies, suggesting viscoelastic interactions between them. These findings demonstrate that dynamic force-induced direct structural changes of protein complexes in Cajal bodies may represent a unique mechanism of mechanotransduction that impacts on nuclear functions involved in gene expression. 1 Department of Mechanical Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, Champaign, Illinois 61801, USA. 2 Department of Cell Biology, Rosalind Franklin University of Medicine and Science, North Chicago, Illinois 60064, USA. 3 Department of Biomedical Engineering, Indiana University-Purdue University Indianapolis, Indiana 46202, USA. -
Proteomic Analysis of the Mammalian Nuclear Pore Complex
JCBArticle Proteomic analysis of the mammalian nuclear pore complex Janet M. Cronshaw,1 Andrew N. Krutchinsky,2 Wenzhu Zhang,2 Brian T. Chait,2 and Michael J. Matunis1 1Department of Biochemistry and Molecular Biology, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD 21205 2Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, Rockefeller University, New York, NY 10021 s the sole site of nucleocytoplasmic transport, the these proteins were classified as nucleoporins, and a further nuclear pore complex (NPC) has a vital cellular 18 were classified as NPC-associated proteins. Among the 29 Arole. Nonetheless, much remains to be learned about nucleoporins were six previously undiscovered nucleoporins many fundamental aspects of NPC function. To further and a novel family of WD repeat nucleoporins. One of understand the structure and function of the mammalian these WD repeat nucleoporins is ALADIN, the gene mutated NPC, we have completed a proteomic analysis to identify in triple-A (or Allgrove) syndrome. Our analysis defines the and classify all of its protein components. We used mass proteome of the mammalian NPC for the first time and spectrometry to identify all proteins present in a biochemically paves the way for a more detailed characterization of NPC purified NPC fraction. Based on previous characterization, structure and function. sequence homology, and subcellular localization, 29 of Introduction Nucleocytoplasmic transport is mediated by nuclear pore A proteomic analysis revealed that the yeast NPC is com- complexes (NPCs)* (Allen et al., 2000) which span the nuclear posed of 29 nucleoporins (Rout et al., 2000). To date, 24 envelope (NE) lumen, inserting into pores formed by the nucleoporins have been identified in mammals, with up to 25 fusion of inner and outer nuclear membranes. -
Protein Signature of Human Skin Broblasts Allows the Study of The
Protein signature of human skin broblasts allows the study of the molecular etiology of rare neurological diseases Andreas Hentschel Leibniz-Institut fur Analytische Wissenschaften - ISAS eV Artur Czech Leibniz-Institut fur Analytische Wissenschaften - ISAS eV Ute Münchberg Leibniz-Institut fur Analytische Wissenschaften - ISAS eV Erik Freier Leibniz-Institut fur Analytische Wissenschaften - ISAS eV Ulrike Schara-Schmidt Universitat Duisburg-Essen Medizinische Fakultat Albert Sickmann Leibniz-Institut fur Analytische Wissenschaften - ISAS eV Jens Reimann Universitatsklinikum Bonn Andreas Roos ( [email protected] ) Leibniz-Institut fur Analytische Wissenschaften - ISAS eV https://orcid.org/0000-0003-2050-2115 Research Keywords: Allgrove syndrome, Aladin, AAAS, triple-A syndrome, Myopodin/Synaptopodin-2, Ataxin-2 Posted Date: December 16th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-48014/v2 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Version of Record: A version of this preprint was published on February 9th, 2021. See the published version at https://doi.org/10.1186/s13023-020-01669-1. Page 1/29 Abstract Background: The elucidation of pathomechanisms leading to the manifestation of rare (genetically caused) neurological diseases including neuromuscular diseases (NMD) represents an important step toward the understanding of the genesis of the respective disease and might help to dene starting points for (new) therapeutic intervention concepts. However, these “discovery studies” are often limited by the availability of human biomaterial. Moreover, given that results of next-generation-sequencing approaches frequently result in the identication of ambiguous variants, testing of their pathogenicity is crucial but also depending on patient-derived material. -