Breakdown of Filamentous Myofibrils by the UPS–Step by Step

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Breakdown of Filamentous Myofibrils by the UPS–Step by Step biomolecules Review Breakdown of Filamentous Myofibrils by the UPS–Step by Step Dina Aweida and Shenhav Cohen * Faculty of Biology, Technion Institute of Technology, Haifa 32000, Israel; [email protected] * Correspondence: [email protected]; Tel.: +972-4-8294214 Abstract: Protein degradation maintains cellular integrity by regulating virtually all biological pro- cesses, whereas impaired proteolysis perturbs protein quality control, and often leads to human disease. Two major proteolytic systems are responsible for protein breakdown in all cells: autophagy, which facilitates the loss of organelles, protein aggregates, and cell surface proteins; and the ubiquitin- proteasome system (UPS), which promotes degradation of mainly soluble proteins. Recent findings indicate that more complex protein structures, such as filamentous assemblies, which are not acces- sible to the catalytic core of the proteasome in vitro, can be efficiently degraded by this proteolytic machinery in systemic catabolic states in vivo. Mechanisms that loosen the filamentous structure seem to be activated first, hence increasing the accessibility of protein constituents to the UPS. In this review, we will discuss the mechanisms underlying the disassembly and loss of the intricate insoluble filamentous myofibrils, which are responsible for muscle contraction, and whose degradation by the UPS causes weakness and disability in aging and disease. Several lines of evidence indicate that myofibril breakdown occurs in a strictly ordered and controlled manner, and the function of AAA-ATPases is crucial for their disassembly and loss. Keywords: ubiquitin; proteasome; autophagy; muscle atrophy; intermediate filaments; myofibrils; AAA-ATPases 1. Introduction Citation: Aweida, D.; Cohen, S. Proteolysis promotes tissue homeostasis by controlling protein abundance in response Breakdown of Filamentous Myofibrils to extracellular and intracellular cues, and by preventing accumulation of misfolded or by the UPS–Step by Step. Biomolecules damaged proteins [1]. Conversely, unbalanced protein breakdown can lead to tissue 2021, 11, 110. https://doi.org/ wasting, accumulation of abnormal proteins, and disease (e.g., neurodegenerative diseases 10.3390/biom11010110 such as Alzheimer’s, Parkinson’s, and Huntington disease [2]). The major proteolytic Received: 18 December 2020 system responsible for degradation of soluble proteins is the ubiquitin-proteasome system Accepted: 13 January 2021 (UPS) [3], while autophagy generally facilitates the loss of organelles, and cell surface or Published: 15 January 2021 aggregated proteins. The vast majority of soluble proteins destined for degradation by the proteasome are initially tagged by the covalent attachment of ubiquitin moieties [4,5]. In Publisher’s Note: MDPI stays neu- addition, intricate filamentous structures, such as the myofibrillar apparatus in striated tral with regard to jurisdictional clai- muscles, are also ubiquitinated and efficiently degraded by the UPS in vivo, although ms in published maps and institutio- they seem resistant to this proteolytic machinery in vitro [6]. The mechanism for myofibril nal affiliations. breakdown has long been a mystery, and recent evidence indicates that a tightly regulated solubilization process is required for efficient degradation. The loss of this fundamental contractile machinery involves an initial degradation of the cytoskeletal networks and structural and regulatory proteins that stabilize the myofibril. Here, we summarize the Copyright: © 2021 by the authors. Li- mechanisms for myofibril breakdown, providing an insightful view on the role of the UPS censee MDPI, Basel, Switzerland. in promoting an ordered degradation of complex filamentous structures. This article is an open access article distributed under the terms and con- 2. Myofibrils are an Intricate Filamentous Structure ditions of the Creative Commons At- tribution (CC BY) license (https:// Skeletal muscles support the skeleton and promote motion by contraction. They are creativecommons.org/licenses/by/ composed of a bundle of long multinuclear cells, whose volume is mainly occupied by a 4.0/). precisely aligned filament system of myofibrils that is responsible for force production [7]. Biomolecules 2021, 11, 110. https://doi.org/10.3390/biom11010110 https://www.mdpi.com/journal/biomolecules Biomolecules 2021, 11, x FOR PEER REVIEW 2 of 14 2. Myofibrils are an Intricate Filamentous Structure Biomolecules 2021, 11, 110 Skeletal muscles support the skeleton and promote motion by contraction. They2 ofare 13 composed of a bundle of long multinuclear cells, whose volume is mainly occupied by a precisely aligned filament system of myofibrils that is responsible for force production [7]. This contractile machinery is organized in repeated units of sarcomeres, which are delim- itedThis by contractile Z-bands, machinery and mainly is organized contain myosin in repeated in thick, units and of sarcomeres, actin in thin, which filaments are delimited (Figure 1).by The Z-bands, Myosin and molecule mainly contain is composed myosin of in two thick, heavy and chains actin in (MyHC), thin, filaments and two (Figure pairs1 of). Thereg- ulatoryMyosin (MyLC2) molecule and is composed essential of(MyLC1) two heavy light chains chains, (MyHC), and is divided and two into pairs three of regulatory main re- gions:(MyLC2) (1) andthe N-terminal essential (MyLC1) head domain, light chains, which and contains is divided the motor into three domain main that regions: binds (1) actin the andN-terminal hydrolyzes head ATP domain, to generate which contains force; (2) the the motor C-terminal domain α that-helical binds tail actin domain, and hydrolyzes that con- α stitutesATP to generatethe backbone force; of (2) the the thick C-terminal filaments;-helical and (3) tail the domain, neck domain, that constitutes which links the backbone the head andof the tail thick domains, filaments; and and represents (3) the neck the site domain, where which MyLCs links non-covalently the head and tail bind domains, MyHC and[8]. represents the site where MyLCs non-covalently bind MyHC [8]. Myosin thick filaments Myosin thick filaments are stabilized at the center of the sarcomere by additional struc- are stabilized at the center of the sarcomere by additional structural and regulatory proteins. tural and regulatory proteins. For example, MyLCs, and myosin-binding protein C For example, MyLCs, and myosin-binding protein C (MyBP-C), which binds the thick (MyBP-C), which binds the thick filament periodically, are required for myofibril stability filament periodically, are required for myofibril stability and normal contractility [9–11]. and normal contractility [9–11]. In addition, ubiquitin ligases, proteases (e.g., calpain-3), In addition, ubiquitin ligases, proteases (e.g., calpain-3), and kinases bind myosin and and kinases bind myosin and regulate its activity [12]. regulate its activity [12]. Figure 1. Schematic illustrationillustration ofof thethe myofibrillarmyofibrillar apparatus. apparatus. Myofibrils Myofibrils are are a a highly highly ordered ordered filament filament system, system, organized organized in repeatingin repeating units units of sarcomeres. of sarcomeres. The Z-bandsThe Z-bands are the are boundaries the bounda ofries the sarcomereof the sarcomere and the and sites th wheree sites the where actin thinthe actin filaments thin andfilaments desmin and intermediate desmin intermediate filaments are filaments bound. Myosinare bound. thick Myos filamentsin thick span filaments the center span of the the sarcomere, center of the and sarcomere, slide over actin and filamentsslide over toward actin filaments the Z-bands toward when the the Z-bands muscle contracts.when the Thesemuscle filaments contracts. are These stabilized filaments by additional are stabilized structural by additional proteins, suchstructural as α-actinin, proteins, which such cross-linksas α-actinin, actin which and cross-links desmin at theactin Z-bands. and desmin In addition, at the Z-bands. desmin intermediateIn addition, desmin filaments intermediate contribute filaments contribute to muscle architecture and contractile function by linking adjacent myofibrils laterally, and to the to muscle architecture and contractile function by linking adjacent myofibrils laterally, and to the muscle membrane and muscle membrane and cellular organelles. cellular organelles. The Z-bands constitute the anchoring site for actin thin filaments, filaments, as well as for two other filament filament systems in the myofibril, myofibril, titin and nebulin. The thin filaments filaments form a helical arrangement, and the protein tropomyosin lies in the α-helical grooves that are formedformed along the filaments. filaments. Aligned at intervals along along the actin filaments filaments is the protein complex, troponin (Tn),(Tn), whichwhich is is composed composed of of three three components components Tn-T, Tn-T, Tn-I, Tn-I, and and Tn-C, Tn-C, and and represents repre- sentsthe on-off the on-off switch switch of muscle of muscle contraction contraction [7]. Muscle [7]. Muscle contraction contraction is activated is activated by Ca2+ byinflux Ca2+ influxinto the into cytosol, the cytosol, which which in turn in binds turn binds Tn-C, Tn-C, causing causing displacement displacement of Tn-T of andTn-T Tn-I and from Tn-I fromtropomyosin, tropomyosin, and consequently and consequently leading leading to exposure to exposure of myosin of myosin binding binding sites on sites actin. on actin. Then, Then,myosin myosin heads heads bind
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