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*  Basis for regulated RNA cleavage by functional analysis of RNase L and Ire1p. - Walter Lab
Dong B, Niwa M, Walter P, Silverman R. Basis for regulated RNA cleavage by functional analysis of RNase L and Ire1p. RNA 7:361- ... Basis for regulated RNA cleavage by functional analysis of RNase L and Ire1p.. ... 2′-5′ oligoadenylates, produced in response to interferon treatment and viral double-stranded RNA, are necessary to activate ... Surprisingly, RNase L and Ire1p showed mutually exclusive RNA substrate specificity and partially overlapping but not identical ...
http://walterlab.ucsf.edu/publication/365/basis-for-regulated-rna-cleavage-by-functional-analysis-of-rnase-l-and-ire1p/
*  北京大学医学部机构知识库(IR@PKUHSC): Photomodulating RNA cleavage using photolabile circular antisense oligodeoxynucleotides
Photomodulating RNA cleavage using photolabile circular antisense oligodeoxynucleotides. Tang, XinJing1,2; Su, Meng1; Yu, LiLi3 ... Photomodulating RNA cleavage using photolabile circular antisense oligodeoxynucleotides[J]. NUCLEIC ACIDS RESEARCH,2010,38(11): ... Tang, XinJing,Su, Meng,Yu, LiLi,Lv, Cong,Wang, Jie,&Li, ZhongJin.(2010).Photomodulating RNA cleavage using photolabile circular ... Tang, XinJing,et al."Photomodulating RNA cleavage using photolabile circular antisense oligodeoxynucleotides".NUCLEIC ACIDS ...
http://ir.bjmu.edu.cn/handle/400002259/54744
*  Ribonuclease III - Wikipedia
They process precursors to ribosomal RNA, small nuclear RNA (snRNA) and small nucleolar RNA (snoRNA). The basic dsRNA cleavage ... They process precursors to ribosomal RNA, small nuclear RNA (snRNA) and small nucleolar RNA (snoRNA) Yeast nucleases with the ... "Ribonuclease III mechanisms of double-stranded RNA cleavage". Wiley Interdisciplinary Reviews: RNA. 5 (1): 31-48. doi:10.1002/ ... They are ubiquitous compounds in the cell and play a major role in pathways such as RNA precursor synthesis, RNA Silencing, and ...
https://en.wikipedia.org/wiki/Ribonuclease_III
*  Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha | The EMBO Journal
... the slower RNA (band A) was unaffected by Dicer. We note that the RNA cleavage products produced by Dicer appear to be of the ... 202 nt RNA probe encoding the indicated miR‐30a variants. RNA cleavage products were recovered and resolved on a denaturing 10 ... C) The 5′ cleavage sites mapped in panel B are indicated as I, II, III, and IV on the predicted pri‐miR‐30a RNA structure. Two ... Ketting RF, Haverkamp TH, vanLuenen HG, Plasterk RHA (2001) Dicer functions in RNA interference and in synthesis of small RNA ...
http://emboj.embopress.org/content/24/1/138
*  RNA Catalysis - Herschlag Lab
Catalysis of RNA Cleavage by the Tetrahymena thermophilia Ribozyme. 2. Kinetic Description of the Reaction of an RNA Substrate ... How does RNA function as a catalyst? The discovery of catalytic RNA was a surprise, as RNA at first pass seems ill-suited to be ... We explore RNA catalysis to learn about the catalytic potential of RNA and to decipher what is fundamental to all biological ... The fundamental properties and behaviors of RNA molecules that we uncover teach us about how the potential function of RNA ...
http://herschlaglab.stanford.edu/rna-catalysis
*  Patente US5631146 - DNA aptamers and catalysts that bind adenosine or adenosine-5'-phosphates ... - Google Patentes
Pan et al., "In Vitro Selection of RNAs That Undergo Autolytic Cleavage with Pb2+," Biochemistry 31, 3887-3895, 1992. ... RNA ribozyme polymerases, and methods. US5116742 *. 24 Mar 1989. 26 May 1992. University Patents, Inc.. RNA ribozyme ... Pan et al., In Vitro Selection of RNAs That Undergo Autolytic Cleavage with Pb 2 , Biochemistry 31, 3887 3895, 1992. ... Famulok, "Molecular Recognition of Amino Acids by RNA-Aptamers: An L-Citrulline Binding RNA Motif and Its Evolution Into an L- ...
http://www.google.es/patents/US5631146
*  Mechanism of action of hammerhead ribozymes and their applications in vivo: rapid identification of functional genes in the...
... that many target sites on the RNA were previously inaccessible to cleavage owing to secondary and/or tertiary structure ... Moreover, vector-based siRNA (short-interfering RNA for RNA interference, RNAi) can also be used for the creation of the ... This leads to extremely efficient cleavage of target mRNA, not only in vitro, but also in vivo, and eliminates one of the major ... by coupling the site-specific cleavage activity of a hammerhead ribozyme with the unwinding activity of an endogenous RNA ...
http://www.biochemsoctrans.org/content/30/6/1145
*  Newly found DNA catalysts cleave DNA with wate... ( CHAMPAIGN Ill. Better tools for man...)
Better tools for manipulating DNA in the laboratory m...The deoxyribozymes accomplish the DNA cleavage with the sequence-selec ... DNA hydrolysis is a very challenging chemical reaction, much more difficult to perform than the cleavage of a strand of RNA, ... "So far, we have achieved cleavage of single-stranded DNA targets," Silverman said. "The next big step is to cleave double- ... Better tools for manipulating DNA in the laboratory m...The deoxyribozymes accomplish the DNA cleavage with the sequence-selec ...
http://www.bio-medicine.org/biology-news-1/Newly-found-DNA-catalysts-cleave-DNA-with-water-molecule-9589-1/
*  Hammerhead ribozyme molecule - Stock Image F009/6228 - Science Photo Library
Most ribozymes catalyse their own cleavage, or that of other RNAs, but some also have roles within ribosomes, the location of ... Ribozymes are RNA (ribonucleic acid) molecules that catalyse certain biochemical reactions. Until their discovery in the 1980s ... Most ribozymes catalyse their own cleavage, or that of other RNAs, but some also have roles within ribosomes, the location of ... Ribozymes are RNA (ribonucleic acid) molecules that catalyse certain biochemical reactions. Until their discovery in the 1980s ...
http://www.sciencephoto.com/media/597509/view
*  Lecture8 - 25 26 The hammerhead ribozyme(plant virus Martick& Scott Cell 2006 27 Group I intron ribozyme Golden et al and cech...
... polymerization RNA ligases RNA capping RNA phosphorylation RNA cleavage Peptide bond formation Amide bond formation 32 33 RNA ... 4 RNA structure and catalysis: RNA vs. DNA RNA as an information molecule RNA secondary structure RNA tertiary structure RNA as ... RNA vs. DNA RNA as an information molecule RNA secondary structure RNA tertiary structure RNA as a catalyst RNA world 35 Have ... DNA, RNA, Abroad International Education Office University of California, RNA tertiary structure, Peer Advisor International ...
https://www.coursehero.com/file/6078869/Lecture8/
*  The crystal structure of the Escherichia coli RNase E apoprotein and a mechanism for RNA degradation. - Oxford Neuroscience
The structural data suggest a mechanism of RNA recognition and cleavage that explains the enzyme's preference for substrates ... a finding that has implications for recognition of structured RNA substrates and for the mechanism of internal entry for a ... RNase E undergoes a marked conformational change characterized by the coupled movement of two RNA-binding domains to organize ... RNase E is an essential bacterial endoribonuclease involved in the turnover of messenger RNA and the maturation of structured ...
https://www.neuroscience.ox.ac.uk/publications/100742
*  Detection of mutations by RNase cleavage. - Radcliffe Department of Medicine
Sequential PCR and in vitro transcription steps generate sufficient quantities of duplex RNA targets so that the cleavage ... The cleavage products are then characterized by gel electrophoresis. In this unit, a procedure is presented for RNase cleavage ... An alternate protocol describes cleavage of RNARNA hybrids using a nonisotopic RNase cleavage mutation assay. ... Ribonucleases can specifically recognize and cleave RNA at the site of sequence mismatches in RNA-DNA or RNA-RNA hybrids. ...
https://www.rdm.ox.ac.uk/publications/104196
*  北京大学医学部机构知识库(IR@PKUHSC): D-Isonucleotide (isoNA) incorporation around cleavage site of passenger strand promotes the vibration...
It has been demonstrated that passenger strand cleavage is important for the activation of RNA-induced silencing complex (RISC ... SILENCING ACTIVITY ; RNA INTERFERENCE ; RISC ; STABILITY ; EXPRESSION ; COMPLEXES ; PROTEIN ; CELLS 英文摘要: ... 3.Chinese Acad Sci, Inst Biophys, Lab Noncoding RNA, Beijing 100080, Peoples R China. 4.Peking Univ, Sch Basic Med Sci, Dept ... Herein, we report that isonucleotide (isoNA) modification around the cleavage site of the passenger strand would affect the in ...
http://ir.bjmu.edu.cn/handle/400002259/62414
*  An Ultrasensitive Light-up Cu2+ Biosensor Using a New DNAzyme Cleaving a Phosphorothioate-Modified Substrate
So far, no RNA cleaving DNAzymes specific for Cu2+ are known. In this work, a phosphorothioate (PS) RNA-containing library was ... It has only eight nucleotides in the enzyme loop with a cleavage rate of 0.1 min(-1) in the presence of 1 mu M Cu2+ at pH 6.0 ( ... PSCu10 is specific for Cu2+; and it has no cleavage in the presence of ascorbate, which reduces Cu2+ to. Cu+. ... its optimal pH). Between the two diastereomers of the PS RNA chiral center, the R-p isomer is 37 times more active than the S-p ...
https://uwspace.uwaterloo.ca/handle/10012/11791
*  Gene therapy tools: oligonucleotides and peptides
1. A High-Throughput Kinetic Assay for RNA-Cleaving Deoxyribozymes. Open this publication in new window or tab ,,A High- ... A second method was developed based on the common denominator of all nucleases, each cleavage event exposes a single phosphate ... Here we present a new method for determining single-turnover kinetics of RNA-cleaving DNAzymes in real-time and in a high- ... In addition, the optimal conditions with respect to cell number and time of transfection for both short interfering RNA (siRNA ...
http://su.diva-portal.org/smash/record.jsf?pid=diva2:950969
*  RNA Cleavage Linked With Ribosomal Action | Genetics
... new cleavages as well as the cleavage at NE were introduced in soc-nel+3b and soc-nel+6b RNAs (Figure 6B) but no cleavage other ... RNA techniques:. Isolation of total RNA from T4-infected cells, primer-extension analysis of soc RNA, and analysis of cDNA ... cleavage at NE was detected in soc-nel/ochre as well as in soc-nel RNA (lane 7). Similar to soc-nel, cleavage at NE occurred in ... RNA Cleavage Linked With Ribosomal Action. Haruyo Yamanishi and Tetsuro Yonesaki. Genetics October 1, 2005 vol. 171 no. 2 419- ...
http://www.genetics.org/content/171/2/419
*  Targeting RNA by the Antisense Approach and a Close Look at RNA Cleavage Reaction
... Barman, Jharna Uppsala University, ... but the RNA cleavage sites of the modified AON/RNA were found to be very different. The aza-ENA-T modifications also made the ... The Km and Vmax values obtained from the RNA concentration-dependent kinetics of RNase H promoted cleavage reaction for all AON ... the enzymatic hydrolysis of a specific phosphate in RNA by general base-catalyss in RNA-cleaving proteins (RNase A, RNA ...
http://www.diva-portal.org/smash/record.jsf?pid=diva2%3A170860&c=8&searchType=SIMPLE&language=en&query=&af=%5B%22dateIssued%3A2007%22%5D&aq=%5B%5B%7B%22categoryId%22%3A%2211533%22%7D%5D%5D&aq2=%5B%5B%5D%5D&aqe=%5B%5D&noOfRows=50&sortOrder=author_sort_asc&sortOrder2=title_sort_asc&onlyFullText=false&sf=all
*  Molecular design of an acid-base cooperative catalyst for RNA cleavage based on a dizinc complex | SpringerLink
Molecular design of an acid-base cooperative catalyst for RNA cleavage based on a dizinc complex. ... In contrast, (Zn2+)2-32− showed lower activity toward ApA cleavage at pH 7.0, which can be ascribed to the absence of the ... Acid-base cocatalyst Dinucleating ligands Dizinc(II) complexes Kinetics and mechanism RNA hydrolysis ... which are responsible for ApA cleavage. The monohydroxo species of (Zn2+)2-2 has two acidic protons, which are not present in ...
https://link.springer.com/article/10.1007%2Fs00775-004-0596-2
*  RNA-Guided RNA Cleavage by a CRISPR RNA-Cas Protein Complex
... Caryn R. Hale, Peng Zhao, Sara Olson, Michael O. Duff, Brenton R. ... Homology-dependent cleavage of a target RNA. One hypothesis for the mechanism by which CRISPR RNAs and Cas proteins mediate ... The 14-nucleotide product that results from cleavage of the Δ1-6 target RNA at site 2 was observed (Figure 4A), but cleavage at ... In order to determine whether all of the six Cmr proteins are essential for psiRNA-guided RNA cleavage, we assayed cleavage ...
http://pubmedcentralcanada.ca/pmcc/articles/PMC2951265/
*  Near-infrared luminescence and RNA cleavage ability of lanthanide Schiff base complexes derived from N,N'-bis (3...
Kaczmarek A, Alvarez Porebski PW, Mortier T, Lynen F, Van Deun R, Van Hecke K. Near-infrared luminescence and RNA cleavage ... Schiff base, Lanthanide, Luminescence, Crystal structure, RNA cleavage, CRYSTAL-STRUCTURE, METAL-COMPLEXES, PHOTOPHYSICAL ... Near-infrared luminescence and RNA cleavage ability of lanthanide Schiff base complexes derived from N,N'-bis (3- ... "Near-infrared Luminescence and RNA Cleavage Ability of Lanthanide Schiff Base Complexes Derived from N,N'-bis (3- ...
https://biblio.ugent.be/publication/8132961
*  "Structural and functional basis for RNA cleavage by Ire1" by Alexei V. Korennykh, Andrei A. Korostelev et al.
CONCLUSIONS: Our data define the catalytic center of Ire1 RNase and suggest a mechanism of RNA cleavage: each RNase monomer ... apparently contains a separate catalytic apparatus for RNA cleavage, whereas two RNase subunits contribute to RNA stem-loop ... CONCLUSIONS: Our data define the catalytic center of Ire1 RNase and suggest a mechanism of RNA cleavage: each RNase monomer ... Endoribonucleases; Membrane Glycoproteins; Protein-Serine-Threonine Kinases; RNA Cleavage; Saccharomyces cerevisiae Proteins; ...
https://escholarship.umassmed.edu/oapubs/2266/
*  Pairing mismatch helps impaired fish RNA cleavage proceed swimmingly - MIT Department of Biology
No mismatch, no efficient cleavage.. Exploring the effects of a seed sequence mismatch on Ago-catalyzed cleavage kinetics ... Cellular RNAi components slice and destroy invading double-stranded RNA sequences and also help snip and process microRNAs, RNA ... A Seed Mismatch Enhances Argonaute2-Catalyzed Cleavage and Partially Rescues Severely Impaired Cleavage Found in Fish. ... RNA interference (RNAi) is a defense used by eukaryotic cells to protect themselves from such threats to their genomic harmony ...
https://biology.mit.edu/pairing-mismatch-helps-impaired-fish-rna-cleavage-proceed-swimmingly/
*  Degradome Sequencing Enables Identification of ARGONAUTE/Small RNA Cleavage Sites | RNA-Seq Blog
Poly(A) RNA is purified from the tissue of interest which is followed by a 5'-RNA adapter ligation. The ligated products are ... A schematic representation of degradome library preparation After the sequence-specific miRNA-induced RNA cleavage, the 3′ ... The method starts with poly(A) selection and followed by a 5′-RNA adapter ligation. The next step is reverse transcription to ... The protocol is based on a modified 5'-rapid amplification of cDNA ends combined with deep sequencing of 3' cleavage products ...
https://www.rna-seqblog.com/degradome-sequencing-enables-identification-of-argonautesmall-rna-cleavage-sites/
*  Targeted cleavage of RNA using ribonuclease P targeting and cleavage sequences - Patent # 5869248 - PatentGenius
It has been discovered that any RNA can be targeted for cleavage by RNase P from prokaryotic or eukaryotic cells using a ... Sequence-specific and efficient cleavage of these RNA substrates by the appropriate RNA enzymes resulted.. A set of RNA enzymes ... 10 is a diagram of TK and CaT RNA substrate RNAs. The two 13-nt segments highlighted in the TK RNA and CAT RNA sequences ( ... "Cleavage Of Targeted RNA By RNase P" to Altman et al., discloses that it is possible to target any RNA molecule for cleavage by ...
http://www.patentgenius.com/patent/5869248.html
*  Mutations in the RNA Polymerase III Subunit Rpc11p That Decrease RNA 3′ Cleavage Activity Increase 3′-Terminal Oligo(U) Length...
Pol III-associated RNA 3′ cleavage assay. RNA cleavage was performed using in vitro-reconstituted elongation complexes (ECs) ( ... that mediates RNA 3′ cleavage and facilitates Pol III termination (8). Indeed, Pol III can carry out RNA 3′ cleavage and ... RNA 3:1434-1443. [PubMed]. 34. Whitehall, S. K., C. Bardeleben, and G. A. Kassavetis. 1994. Hydrolytic cleavage of nascent RNA ... RNA 3′-oligo(U) length is inversely related to cleavage activity by Rpc11p. With regard to the relationship between RNA 3′ ...
http://pubmedcentralcanada.ca/pmcc/articles/PMC543423/?lang=en-ca