HEPN RNases - an emerging class of functionally distinct RNA processing and degradation enzymes.

Abstract:

:HEPN (Higher Eukaryotes and Prokaryotes Nucleotide-binding) RNases are an emerging class of functionally diverse RNA processing and degradation enzymes. Members are defined by a small α-helical bundle encompassing a short consensus RNase motif. HEPN dimerization is a universal requirement for RNase activation as the conserved RNase motifs are precisely positioned at the dimer interface to form a composite catalytic center. While the core HEPN fold is conserved, the organization surrounding the HEPN dimer can support large structural deviations that contribute to their specialized functions. HEPN RNases are conserved throughout evolution and include bacterial HEPN RNases such as CRISPR-Cas and toxin-antitoxin associated nucleases, as well as eukaryotic HEPN RNases that adopt large multi-component machines. Here we summarize the canonical elements of the growing HEPN RNase family and identify molecular features that influence RNase function and regulation. We explore similarities and differences between members of the HEPN RNase family and describe the current mechanisms for HEPN RNase activation and inhibition.

authors

Pillon MC,Gordon J,Frazier MN,Stanley RE

doi

10.1080/10409238.2020.1856769

subject

Has Abstract

pub_date

2021-02-01 00:00:00

pages

88-108

issue

1

eissn

1040-9238

issn

1549-7798

journal_volume

56

pub_type

杂志文章
  • The physical biochemistry and molecular genetics of sulfate activation.

    abstract::This article is an overview of current research in the area of sulfate activation. Emphasis is placed on presenting unresolved issues in an appropriate context for critical evaluation by the reader. The energetics of sulfate activation is reevaluated in light of recent findings that demonstrate that the synthesis of a...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章

    doi:10.3109/10409239309085137

    authors: Leyh TS

    更新日期:1993-01-01 00:00:00

  • Enzymology of the acetyl-CoA pathway of CO2 fixation.

    abstract::We know of three routes that organisms have evolved to synthesize complex organic molecules from CO2: the Calvin cycle, the reverse tricarboxylic acid cycle, and the reductive acetyl-CoA pathway. This review describes the enzymatic steps involved in the acetyl-CoA pathway, also called the Wood pathway, which is the ma...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239109114070

    authors: Ragsdale SW

    更新日期:1991-01-01 00:00:00

  • Iron acquisition through the bacterial transferrin receptor.

    abstract::Transferrin is one of the sources of iron that is most readily available to colonizing and invading pathogens. In this review, we look at iron uptake by the bacterial transferrin receptor that is found in the families Neisseriaceae, Pasteurellaceae and Moraxellaceae. This bipartite receptor consists of the TonB-depend...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2017.1293606

    authors: Pogoutse AK,Moraes TF

    更新日期:2017-06-01 00:00:00

  • Cold denaturation of proteins.

    abstract::This article summarizes all experimental facts concerning the cold denaturation of single-domain, multi-domain, and multimeric globular proteins in aqueous solutions with and without urea and guanidine hydrochloride. The facts obtained by various experimental techniques are analyzed thermodynamically and it is shown t...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239009090612

    authors: Privalov PL

    更新日期:1990-01-01 00:00:00

  • Bacterial ribonucleases and their roles in RNA metabolism.

    abstract::Ribonucleases (RNases) are mediators in most reactions of RNA metabolism. In recent years, there has been a surge of new information about RNases and the roles they play in cell physiology. In this review, a detailed description of bacterial RNases is presented, focusing primarily on those from Escherichia coli and Ba...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2019.1651816

    authors: Bechhofer DH,Deutscher MP

    更新日期:2019-06-01 00:00:00

  • The role of RecQ helicases in non-homologous end-joining.

    abstract::DNA double-strand breaks are highly toxic DNA lesions that cause genomic instability, if not efficiently repaired. RecQ helicases are a family of highly conserved proteins that maintain genomic stability through their important roles in several DNA repair pathways, including DNA double-strand break repair. Double-stra...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2014.942450

    authors: Keijzers G,Maynard S,Shamanna RA,Rasmussen LJ,Croteau DL,Bohr VA

    更新日期:2014-11-01 00:00:00

  • Prebiotic chemistry and the origin of the RNA world.

    abstract::The demonstration that ribosomal peptide synthesis is a ribozyme-catalyzed reaction makes it almost certain that there was once an RNA World. The central problem for origin-of-life studies, therefore, is to understand how a protein-free RNA World became established on the primitive Earth. We first review the literatur...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409230490460765

    authors: Orgel LE

    更新日期:2004-03-01 00:00:00

  • How eukaryotic genes are transcribed.

    abstract::Regulation of eukaryotic gene expression is far more complex than one might have imagined 30 years ago. However, progress towards understanding gene regulatory mechanisms has been rapid and comprehensive, which has made the integration of detailed observations into broadly connected concepts a challenge. This review a...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409230902858785

    authors: Venters BJ,Pugh BF

    更新日期:2009-06-01 00:00:00

  • Specificity of reversible ADP-ribosylation and regulation of cellular processes.

    abstract::Proper and timely regulation of cellular processes is fundamental to the overall health and viability of organisms across all kingdoms of life. Thus, organisms have evolved multiple highly dynamic and complex biochemical signaling cascades in order to adapt and survive diverse challenges. One such method of conferring...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2017.1394265

    authors: Crawford K,Bonfiglio JJ,Mikoč A,Matic I,Ahel I

    更新日期:2018-02-01 00:00:00

  • Metabolic regulation via enzyme filamentation.

    abstract::Determining the mechanisms of enzymatic regulation is central to the study of cellular metabolism. Regulation of enzyme activity via polymerization-mediated strategies has been shown to be widespread, and plays a vital role in mediating cellular homeostasis. In this review, we begin with an overview of the filamentati...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2016.1172555

    authors: Aughey GN,Liu JL

    更新日期:2015-07-01 00:00:00

  • Life with carbon monoxide.

    abstract::This review focuses on how microbes live on CO as a sole source of carbon and energy and with CO by generating carbon monoxide as a metabolic intermediate. The use of CO is a property of organisms that use the Wood-L jungdahl pathway of autotrophic growth. The review discusses when CO metabolism originated, when and h...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409230490496577

    authors: Ragsdale SW

    更新日期:2004-05-01 00:00:00

  • Nonenzymatic deamidation of asparaginyl and glutaminyl residues in proteins.

    abstract::Some asparagine and glutamine residues in proteins undergo deamidation to aspartate and glutamate with rates that depend upon the sequence and higher-order structure of the protein. Functional groups within the protein can catalyze this reaction, acting as general acids, bases, or stabilizers of the transition state. ...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239109081719

    authors: Wright HT

    更新日期:1991-01-01 00:00:00

  • The role of phosphatidylcholine and choline metabolites to cell proliferation and survival.

    abstract::The reorganization of metabolic pathways in cancer facilitates the flux of carbon and reducing equivalents into anabolic pathways at the expense of oxidative phosphorylation. This provides rapidly dividing cells with the necessary precursors for membrane, protein and nucleic acid synthesis. A fundamental metabolic per...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2012.735643

    authors: Ridgway ND

    更新日期:2013-01-01 00:00:00

  • Molecular paleontology and complexity in the last eukaryotic common ancestor.

    abstract::Eukaryogenesis, the origin of the eukaryotic cell, represents one of the fundamental evolutionary transitions in the history of life on earth. This event, which is estimated to have occurred over one billion years ago, remains rather poorly understood. While some well-validated examples of fossil microbial eukaryotes ...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2013.821444

    authors: Koumandou VL,Wickstead B,Ginger ML,van der Giezen M,Dacks JB,Field MC

    更新日期:2013-07-01 00:00:00

  • The complexity and regulation of repair of alkylation damage to nucleic acids.

    abstract::DNA damaging agents have been a cornerstone of cancer therapy for nearly a century. The discovery of many of these chemicals, particularly the alkylating agents, are deeply entwined with the development of poisonous materials originally intended for use in warfare. Over the last decades, their anti-proliferative effec...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章

    doi:10.1080/10409238.2020.1869173

    authors: Tsao N,Schärer OD,Mosammaparast N

    更新日期:2021-01-12 00:00:00

  • A beta amyloidogenesis: unique, or variation on a systemic theme?

    abstract::For more than a century amyloid was considered to be an interesting, unique, but inconsequential pathologic entity that rarely caused significant clinical problems. We now recognize that amyloid is not one entity. In vivo it is a uniform organization of a disease, or process, specific protein co-deposited with a set o...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239709082674

    authors: Kisilevsky R,Fraser PE

    更新日期:1997-01-01 00:00:00

  • Isoprenoids and protein prenylation: implications in the pathogenesis and therapeutic intervention of Alzheimer's disease.

    abstract::The mevalonate-isoprenoid-cholesterol biosynthesis pathway plays a key role in human health and disease. The importance of this pathway is underscored by the discovery that two major isoprenoids, farnesyl and geranylgeranyl pyrophosphate, are required to modify an array of proteins through a process known as protein p...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2018.1458070

    authors: Jeong A,Suazo KF,Wood WG,Distefano MD,Li L

    更新日期:2018-06-01 00:00:00

  • Structural biology of MCM helicases.

    abstract::The eukaryotic MCM2-7 complex is recruited onto origins of replication during the G1 phase of the cell cycle and acts as the main helicase at the replication fork during the S phase. Over the last few years a number of structural reports on MCM proteins using both electron microscopy and protein crystallography have b...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409230903186012

    authors: Costa A,Onesti S

    更新日期:2009-09-01 00:00:00

  • How it all starts: Initiation of the clotting cascade.

    abstract::The plasma coagulation system in mammalian blood consists of a cascade of enzyme activation events in which serine proteases activate the proteins (proenzymes and procofactors) in the next step of the cascade via limited proteolysis. The ultimate outcome is the polymerization of fibrin and the activation of platelets,...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2015.1050550

    authors: Smith SA,Travers RJ,Morrissey JH

    更新日期:2015-01-01 00:00:00

  • Ribonucleotide incorporation into DNA during DNA replication and its consequences.

    abstract::Ribonucleotides are the most abundant non-canonical nucleotides in the genome. Their vast presence and influence over genome biology is becoming increasingly appreciated. Here we review the recent progress made in understanding their genomic presence, incorporation characteristics and usefulness as biomarkers for poly...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章

    doi:10.1080/10409238.2020.1869175

    authors: Zhou ZX,Williams JS,Lujan SA,Kunkel TA

    更新日期:2021-02-01 00:00:00

  • The structure, role, and regulation of type 1 protein phosphatases.

    abstract::Type 1 protein phosphatases (PP-1) comprise a group of widely distributed enzymes that specifically dephosphorylate serine and threonine residues of certain phosphoproteins. They all contain an isoform of the same catalytic subunit, which has an extremely conserved primary structure. One of the properties of PP-1 that...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239209082564

    authors: Bollen M,Stalmans W

    更新日期:1992-01-01 00:00:00

  • Clathrin: its role in receptor-mediated vesicular transport and specialized functions in neurons.

    abstract::Clathrin constitutes the coat of vesicles involved in three receptor-mediated intracellular transport pathways; the export of aggregated material from the trans-Golgi network for regulated secretion, the transfer of lysosomal hydrolases from the trans-Golgi network to lysosomes and receptor-mediated endocytosis at the...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239309078441

    authors: Pley U,Parham P

    更新日期:1993-01-01 00:00:00

  • Leukocytic oxygen activation and microbicidal oxidative toxins.

    abstract::Following a brief introduction of cellular response to stimulation comprising leukocyte activation, three major areas are discussed: (1) the neutrophil oxidase; (2) myeloperoxidase (MPO)-dependent oxidative microbicidal reactions; and (3) MPO-independent oxidative reactions. Topics included in section (A) are current ...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238909082555

    authors: Hurst JK,Barrette WC Jr

    更新日期:1989-01-01 00:00:00

  • Defining genome maintenance pathways using functional genomic approaches.

    abstract::Genome maintenance activities including DNA repair, cell division cycle control, and checkpoint signaling pathways preserve genome integrity and prevent disease. Defects in these pathways cause birth defects, neurodegeneration, premature aging, and cancer. Recent technical advances in functional genomic approaches suc...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2011.588938

    authors: Bansbach CE,Cortez D

    更新日期:2011-08-01 00:00:00

  • Advances in Toll-like receptor biology: Modes of activation by diverse stimuli.

    abstract::As we learn more about the biology of the Toll-like receptors (TLRs), a wide range of molecules that can activate this fascinating family of pattern recognition receptors emerges. In addition to conserved pathogenic components, endogenous danger signals created upon tissue damage are also sensed by TLRs. Detection of ...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2015.1033511

    authors: Bryant CE,Gay NJ,Heymans S,Sacre S,Schaefer L,Midwood KS

    更新日期:2015-01-01 00:00:00

  • Aldehyde dehydrogenases and their role in carcinogenesis.

    abstract::Aldehydes are highly reactive molecules that may have a variety of effects on biological systems. They can be generated from a virtually limitless number of endogenous and exogenous sources. Although some aldehyde-mediated effects such as vision are beneficial, many effects are deleterious, including cytotoxicity, mut...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409239209082565

    authors: Lindahl R

    更新日期:1992-01-01 00:00:00

  • PTP1B: a simple enzyme for a complex world.

    abstract::Our understanding of the fundamental regulatory roles that tyrosine phosphatases play within cells has advanced significantly in the last two decades. Out-dated ideas that tyrosine phosphatases acts solely as the "off" switch counterbalancing the action of tyrosine kinases has proved to be flawed. PTP1B is the most ch...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2013.819830

    authors: Feldhammer M,Uetani N,Miranda-Saavedra D,Tremblay ML

    更新日期:2013-09-01 00:00:00

  • Serotonin receptor signaling and regulation via β-arrestins.

    abstract::Serotonin receptors are the product of 15 distinct genes, 14 of which are G protein-coupled receptors. These receptors are expressed in a wide range of cell types, including distinct neuronal populations, and promote diverse functional responses in multiple organ systems. These receptors are important for mediating th...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.3109/10409238.2010.516741

    authors: Bohn LM,Schmid CL

    更新日期:2010-12-01 00:00:00

  • Multiple functions of insulin-degrading enzyme: a metabolic crosslight?

    abstract::Insulin-degrading enzyme (IDE) is a ubiquitous zinc peptidase of the inverzincin family, which has been initially discovered as the enzyme responsible for insulin catabolism; therefore, its involvement in the onset of diabetes has been largely investigated. However, further studies on IDE unraveled its ability to degr...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2017.1337707

    authors: Tundo GR,Sbardella D,Ciaccio C,Grasso G,Gioia M,Coletta A,Polticelli F,Di Pierro D,Milardi D,Van Endert P,Marini S,Coletta M

    更新日期:2017-10-01 00:00:00

  • Dynamic structure of plasma fibronectin.

    abstract::Fibronectin is a large vertebrate glycoprotein that is found in soluble and insoluble forms and involved in diverse processes. Protomeric fibronectin is a dimer of subunits, each of which comprises 29-31 modules - 12 type I, two type II and 15-17 type III. Plasma fibronectin is secreted by hepatocytes and circulates i...

    journal_title:Critical reviews in biochemistry and molecular biology

    pub_type: 杂志文章,评审

    doi:10.1080/10409238.2016.1184224

    authors: Maurer LM,Ma W,Mosher DF

    更新日期:2015-07-01 00:00:00