Polynucleotide:adenosine glycosidase activity of ribosome-inactivating proteins: effect on DNA, RNA and poly(A).

Abstract:

:Ribosome-inactivating proteins (RIP) are a family of plant enzymes for which a unique activity was determined: rRNAN-glycosidase at a specific universally conserved position, A4324in the case of rat ribosomes. Recently we have shown that the RIP from Saponaria officinalis have a much wider substrate specificity: they are actually polynucleotide:adenosine glycosidases. Here we extend studies on substrate specificity to most known RIP: 52 purified proteins, both type 1 (single-chain) and type 2 (two chain, an enzymatic chain and a lectin chain) were examined for adenine release on various substrates including RNAs from different sources, DNA, and poly(A). All RIP depurinated extensively DNA and some released adenine from all adenine-containing polynucleotides tested. From experimental evidence the entire class of plant proteins, up to now called ribosome-inactivating proteins, may be classified as polynucleotide:adenosine glycosidases. The newly identified substrates may be implicated in the biological role(s) of RIP.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Barbieri L,Valbonesi P,Bonora E,Gorini P,Bolognesi A,Stirpe F

doi

10.1093/nar/25.3.518

subject

Has Abstract

pub_date

1997-02-01 00:00:00

pages

518-22

issue

3

eissn

0305-1048

issn

1362-4962

pii

gka111

journal_volume

25

pub_type

杂志文章
  • DNA sequence of Rhizobium trifolii nodulation genes reveals a reiterated and potentially regulatory sequence preceding nodABC and nodFE.

    abstract::The Rhizobium trifolii nod genes required for host-specific nodulation of clovers are located on 14 kb of Sym (symbiotic) plasmid DNA. Analysis of the nucleotide sequence of a 3.7 kb portion of this region has revealed open reading frames corresponding to the nodABCDEF genes. A DNA sequencing technique, using primer e...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/14.7.2891

    authors: Schofield PR,Watson JM

    更新日期:1986-04-11 00:00:00

  • Localisation of foldback DNA sequences in nuclei chromosomes of Scilla, Secale, and of mouse.

    abstract::Foldback DNA, prepared from mouse and Scilla sibirica main band DNA, and from rye (Secale cereale) total DNA, was characterised by denaturation, renaturation, and electron microscopy. 3H-cRNA of this DNA was hybridised in situ to nuclei and chromosomes of the respective species. There is no universal labelling pattern...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/5.10.3589

    authors: Deumling B

    更新日期:1978-10-01 00:00:00

  • Cloning of an interferon regulatory factor 2 isoform with different regulatory ability.

    abstract::Interferons (IFNs) are a family of multifunctional proteins involved in immune activation, regulation of cell growth and antiviral response. They exert their functions by induction of several IFN-stimulated genes, including IFN regulatory factors (IRFs), a family of transcriptional regulators. One of these factors, IR...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/28.21.4219

    authors: Koenig Merediz SA,Schmidt M,Hoppe GJ,Alfken J,Meraro D,Levi BZ,Neubauer A,Wittig B

    更新日期:2000-11-01 00:00:00

  • HCAD, closing the gap between breakpoints and genes.

    abstract::Recurrent chromosome aberrations are an important resource when associating human pathologies to specific genes. However, for technical reasons a large number of chromosome breakpoints are defined only at the level of cytobands and many of the genes involved remain unidentified. We developed a web-based information sy...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gki061

    authors: Hoffmann R,Dopazo J,Cigudosa JC,Valencia A

    更新日期:2005-01-01 00:00:00

  • Preparation and properties of insolubilized restriction endonucleases.

    abstract::Type II restriction endonucleases Bam HI and Eco RI were covalently coupled to Sepharose. These insolubilized enzymes generated fragment patterns for several viral DNAs identical to those produced by the respective free enzymes. Conditions for optimal activity were similar for both bound and unbound forms of the enzym...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/5.3.679

    authors: Lee YH,Blakesley RW,Smith LA,Chirikjian JG

    更新日期:1978-03-01 00:00:00

  • Interaction of N-terminal domain of U1A protein with an RNA stem/loop.

    abstract::The U1A protein is a sequence-specific RNA binding protein found in the U1 snRNP particle where it binds to stem/loop II of U1 snRNA. U1A contains two 'RNP' or 'RRM' (RNA Recognition Motif) domains, which are common to many RNA-binding proteins. The N-terminal RRM has been shown to bind specifically to the U1 RNA stem...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/20.16.4283

    authors: Hall KB,Stump WT

    更新日期:1992-08-25 00:00:00

  • Mice expressing an error-prone DNA polymerase in mitochondria display elevated replication pausing and chromosomal breakage at fragile sites of mitochondrial DNA.

    abstract::Expression of a proof-reading deficient form of mitochondrial DNA (mtDNA) polymerase gamma, POLG, causes early death accompanied by features of premature ageing in mouse. However, the mechanism of cellular senescence remains unresolved. In addition to high levels of point mutations of mtDNA, the POLG mutator mouse har...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkp091

    authors: Bailey LJ,Cluett TJ,Reyes A,Prolla TA,Poulton J,Leeuwenburgh C,Holt IJ

    更新日期:2009-04-01 00:00:00

  • E. coli Rep helicase and RecA recombinase unwind G4 DNA and are important for resistance to G4-stabilizing ligands.

    abstract::G-quadruplex (G4) DNA structures can form physical barriers within the genome that must be unwound to ensure cellular genomic integrity. Here, we report unanticipated roles for the Escherichia coli Rep helicase and RecA recombinase in tolerating toxicity induced by G4-stabilizing ligands in vivo. We demonstrate that R...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkaa442

    authors: Paul T,Voter AF,Cueny RR,Gavrilov M,Ha T,Keck JL,Myong S

    更新日期:2020-07-09 00:00:00

  • A manganese-dependent ribozyme in the 3'-untranslated region of Xenopus Vg1 mRNA.

    abstract::The smallest catalytic RNA identified to date is a manganese-dependent ribozyme that requires only a complex between GAAA and UUU to effect site-specific cleavage. We show here that this ribozyme occurs naturally in the 3'-UTR of Vg1 and beta-actin mRNAs. In accord with earlier studies with model RNAs, cleavage occurs...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkn530

    authors: Kolev NG,Hartland EI,Huber PW

    更新日期:2008-10-01 00:00:00

  • Putative subunits of the maize origin of replication recognition complex ZmORC1-ZmORC5.

    abstract::The finding in animal species of complexes homologous to the products of six Saccharomyces cerevisiae genes, origin of replication recognition complex (ORC), has suggested that ORC-related mechanisms have been conserved in all eukaryotes. In plants, however, the only cloned putative homologs of ORC subunits are the Ar...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkg138

    authors: Witmer X,Alvarez-Venegas R,San-Miguel P,Danilevskaya O,Avramova Z

    更新日期:2003-01-15 00:00:00

  • Apurinic endonucleases from Saccharomyces cerevisiae.

    abstract::Three endonuclease activities have been partially purified from Saccharomyces cerevisiae on the basis of their activity against x-irradiated closed-circular supercoiled bacteriophage PM2 DNA. These endonucleases also nick apurinic DNA and two out of the three activities incise DNA UV-irradiated with high doses. The en...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/5.9.3347

    authors: Armel PR,Wallace SS

    更新日期:1978-09-01 00:00:00

  • The Radiation Hybrid Database.

    abstract::Since July 1995, the European Bioinformatics Institute (EBI) has maintained RHdb (http://www.ebi.ac.uk/RHdb/RHdb.html ), a public database for radiation hybrid data. Radiation hybrid mapping is an important technique for determining high resolution maps. Recently, CORBA access has been added to Rhdb. The EBI is an Out...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/26.1.102

    authors: Lijnzaad P,Helgesen C,Rodriguez-Tomé P

    更新日期:1998-01-01 00:00:00

  • A pathogenic point mutation reduces stability of mitochondrial mutant tRNA(Ile).

    abstract::Point mutations in mitochondrial tRNA genes are responsible for individual subgroups of mitochondrial encephalomyopathies. We have recently reported that point mutations in the tRNA(Leu)(UUR) and tRNA(Lys) genes cause a defect in the normal modification at the first nucleotide of the anticodon. As part of a systematic...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/28.19.3779

    authors: Yasukawa T,Hino N,Suzuki T,Watanabe K,Ueda T,Ohta S

    更新日期:2000-10-01 00:00:00

  • IMP1 KH1 and KH2 domains create a structural platform with unique RNA recognition and re-modelling properties.

    abstract::IGF2 mRNA-binding protein 1 (IMP1) is a key regulator of messenger RNA (mRNA) metabolism and transport in organismal development and, in cancer, its mis-regulation is an important component of tumour metastasis. IMP1 function relies on the recognition of a diverse set of mRNA targets that is mediated by the combinator...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkz136

    authors: Dagil R,Ball NJ,Ogrodowicz RW,Hobor F,Purkiss AG,Kelly G,Martin SR,Taylor IA,Ramos A

    更新日期:2019-05-07 00:00:00

  • Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions.

    abstract::A linear method for the search of eukaryotic nuclear tRNA genes in DNA databases is described. Based on a modified version of the general weight matrix procedure, our algorithm relies on the recognition of two intragenic control regions known as A and B boxes, a transcription termination signal, and on the evaluation ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.7.1247

    authors: Pavesi A,Conterio F,Bolchi A,Dieci G,Ottonello S

    更新日期:1994-04-11 00:00:00

  • Facile methods for generating human somatic cell gene knockouts using recombinant adeno-associated viruses.

    abstract::Emerging evidence suggests that recombinant adeno-associated viral (rAAV) vectors can be used for specific gene targeting in human somatic cells. We have developed an rAAV vector construction procedure employing fusion PCR and a single cloning step that considerably simplifies the knockout process. We demonstrate its ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gnh009

    authors: Kohli M,Rago C,Lengauer C,Kinzler KW,Vogelstein B

    更新日期:2004-01-02 00:00:00

  • Differential activation and functional specialization of miR-146 and miR-155 in innate immune sensing.

    abstract::Many microRNAs (miRNAs) are co-regulated during the same physiological process but the underlying cellular logic is often little understood. The conserved, immunomodulatory miRNAs miR-146 and miR-155, for instance, are co-induced in many cell types in response to microbial lipopolysaccharide (LPS) to feedback-repress ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gks1030

    authors: Schulte LN,Westermann AJ,Vogel J

    更新日期:2013-01-07 00:00:00

  • An error-prone family Y DNA polymerase (DinB homolog from Sulfolobus solfataricus) uses a 'steric gate' residue for discrimination against ribonucleotides.

    abstract::DNA polymerases of the A and B families, and reverse transcriptases, share a common mechanism for preventing incorporation of ribonucleotides: a highly conserved active site residue obstructing the position that would be occupied by a 2' hydroxyl group on the incoming nucleotide. In the family Y (lesion bypass) polyme...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkg417

    authors: DeLucia AM,Grindley ND,Joyce CM

    更新日期:2003-07-15 00:00:00

  • Binding of TFIIIA to derivatives of 5S RNA containing sequence substitutions or deletions defines a minimal TFIIIA binding site.

    abstract::The repetitive zinc finger domain of transcription factor IIIA binds 5S DNA and 5S RNA with similar affinity. Site directed mutagenesis of the Xenopus borealis somatic 5S RNA gene has been used to produce a series of derivatives of 5S RNA containing local sequence substitutions or sequence deletions. Gel mobility shif...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/20.11.2639

    authors: Bogenhagen DF,Sands MS

    更新日期:1992-06-11 00:00:00

  • The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus.

    abstract::RsaE is a regulatory RNA highly conserved amongst Firmicutes that lowers the amount of mRNAs associated with the TCA cycle and folate metabolism. A search for new RsaE targets in Staphylococcus aureus revealed that in addition to previously described substrates, RsaE down-regulates several genes associated with argini...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gky584

    authors: Rochat T,Bohn C,Morvan C,Le Lam TN,Razvi F,Pain A,Toffano-Nioche C,Ponien P,Jacq A,Jacquet E,Fey PD,Gautheret D,Bouloc P

    更新日期:2018-09-28 00:00:00

  • Genome engineering of isogenic human ES cells to model autism disorders.

    abstract::Isogenic pluripotent stem cells are critical tools for studying human neurological diseases by allowing one to study the effects of a mutation in a fixed genetic background. Of particular interest are the spectrum of autism disorders, some of which are monogenic such as Timothy syndrome (TS); others are multigenic suc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkv164

    authors: Martinez RA,Stein JL,Krostag AR,Nelson AM,Marken JS,Menon V,May RC,Yao Z,Kaykas A,Geschwind DH,Grimley JS

    更新日期:2015-05-26 00:00:00

  • Multiplex strand displacement amplification (SDA) and detection of DNA sequences from Mycobacterium tuberculosis and other mycobacteria.

    abstract::Strand Displacement Amplification (SDA) is an isothermal, in vitro method of amplifying a DNA target sequence prior to detection [Walker et al (1992) Nucleic Acids Res., 20, 1691-1693]. Here we describe a multiplex form of SDA that allows two target sequences and an internal amplification control to be co-amplified by...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.13.2670

    authors: Walker GT,Nadeau JG,Spears PA,Schram JL,Nycz CM,Shank DD

    更新日期:1994-07-11 00:00:00

  • A recombination based method to rapidly assess specificity of two-hybrid clones in yeast.

    abstract::The yeast two-hybrid system is frequently used to identify protein-protein interactions. Confirming the specificity of candidate clones requires separation and isolation of yeast plasmids, propagation in bacteria and testing combinations of DNA-binding and activation domain hybrids in yeast. In order to simplify this ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/26.9.2252

    authors: Petermann R,Mossier BM,Aryee DN,Kovar H

    更新日期:1998-05-01 00:00:00

  • Eliminating helper phage from phage display.

    abstract::Phage display technology involves the display of proteins or peptides, as coat protein fusions, on the surface of a phage or phagemid particles. Using standard technology, helper phage are essential for the replication and assembly of phagemid particles, during library production and biopanning. We have eliminated the...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkl772

    authors: Chasteen L,Ayriss J,Pavlik P,Bradbury AR

    更新日期:2006-01-01 00:00:00

  • Sequence-specific interaction of alpha-beta-anomeric double-stranded DNA with the p50 subunit of NF kappa B: application to the decoy approach.

    abstract::The potential use of alpha-beta-anomeric duplex oligonucleotides to inhibit transcription factor activity by the decoy approach is investigated in this report. Indeed, several alpha-beta-anomeric heteroduplexes display a sequence-specific interaction with the p50 subunit of the transcription factor NF kappa B. Used in...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.15.3069

    authors: Tanaka H,Vickart P,Bertrand JR,Rayner B,Morvan F,Imbach JL,Paulin D,Malvy C

    更新日期:1994-08-11 00:00:00

  • Predicting the functional impact of protein mutations: application to cancer genomics.

    abstract::As large-scale re-sequencing of genomes reveals many protein mutations, especially in human cancer tissues, prediction of their likely functional impact becomes important practical goal. Here, we introduce a new functional impact score (FIS) for amino acid residue changes using evolutionary conservation patterns. The ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkr407

    authors: Reva B,Antipin Y,Sander C

    更新日期:2011-09-01 00:00:00

  • When simple sequence comparison fails: the cryptic case of the shared domains of the bacterial replication initiation proteins DnaB and DnaD.

    abstract::DnaD and DnaB are essential DNA-replication-initiation proteins in low-G+C content Gram-positive bacteria. Here we use sensitive Hidden Markov Model-based techniques to show that the DnaB and DnaD proteins share a common structure that is evident across all their structural domains, termed DDBH1 and DDBH2 (DnaD DnaB H...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq465

    authors: Marston FY,Grainger WH,Smits WK,Hopcroft NH,Green M,Hounslow AM,Grossman AD,Craven CJ,Soultanas P

    更新日期:2010-11-01 00:00:00

  • Force-activated DNA substrates for probing individual proteins interacting with single-stranded DNA.

    abstract::Single-molecule force spectroscopy provides insight into how proteins bind to and move along DNA. Such studies often embed a single-stranded (ss) DNA region within a longer double-stranded (ds) DNA molecule. Yet, producing these substrates remains laborious and inefficient, particularly when using the traditional thre...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkx761

    authors: Okoniewski SR,Uyetake L,Perkins TT

    更新日期:2017-10-13 00:00:00

  • Nascent RNA sequencing reveals mechanisms of gene regulation in the human malaria parasite Plasmodium falciparum.

    abstract::Gene expression in Plasmodium falciparum is tightly regulated to ensure successful propagation of the parasite throughout its complex life cycle. The earliest transcriptomics studies in P. falciparum suggested a cascade of transcriptional activity over the course of the 48-hour intraerythrocytic developmental cycle (I...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkx464

    authors: Lu XM,Batugedara G,Lee M,Prudhomme J,Bunnik EM,Le Roch KG

    更新日期:2017-07-27 00:00:00

  • O-ribosyl-phosphate purine as a constant modified nucleotide located at position 64 in cytoplasmic initiator tRNAs(Met) of yeasts.

    abstract::The unknown modified nucleotide G*, isolated from both Schizosaccharomyces pombe and Torulopsis utilis initiator tRNAs(Met), has been identified as an O-ribosyl-(1"----2')-guanosine-5"-phosphate, called Gr(p), by means of HPLC, UV-absorption, mass spectrometry and periodate oxidation procedures. By comparison with the...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/19.19.5199

    authors: Glasser AL,Desgres J,Heitzler J,Gehrke CW,Keith G

    更新日期:1991-10-11 00:00:00