The 16S ribosomal RNA mutation database (16SMDB).


:The 16S ribosomal RNA mutation database (16SMDB) provides a list of mutated positions in 16S ribosomal RNA from Escherichia coli and the identity of each alteration. Information provided for each mutation includes: (i) a brief description of the phenotype(s) associated with each mutation; (ii) whether a mutant phenotype has been detected by in vivo or in vitro methods; (iii) relevant literature citations. The database is available via ftp and on the World Wide Web.


Nucleic Acids Res


Nucleic acids research


Triman KL




Has Abstract


1996-01-01 00:00:00














  • A multifunctional expression vector for an anti-HIV-1 ribozyme that produces a 5'- and 3'-trimmed trans-acting ribozyme, targeted against HIV-1 RNA, and cis-acting ribozymes that are designed to bind to and thereby sequester trans-activator proteins such

    abstract::We previously constructed a multiribozyme expression vector by combining cis- and trans-acting ribozymes and we showed that several ribozymes, each directed against a different target in the HIV genome and acting independently in a 'shotgun' manner, markedly increased the efficiency of cleavage of HIV RNA in vitro [Oh...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Yuyama N,Ohkawa J,Koguma T,Shirai M,Taira K

    更新日期:1994-11-25 00:00:00

  • Molecular characteristics of reiterative DNA unwinding by the Caenorhabditis elegans RecQ helicase.

    abstract::The RecQ family of helicases is highly conserved both structurally and functionally from bacteria to humans. Defects in human RecQ helicases are associated with genetic diseases that are characterized by cancer predisposition and/or premature aging. RecQ proteins exhibit 3'-5' helicase activity and play critical roles...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Choi S,Lee SW,Kim H,Ahn B

    更新日期:2019-10-10 00:00:00

  • The MH1 domain of Smad3 interacts with Pax6 and represses autoregulation of the Pax6 P1 promoter.

    abstract::Pax6 transcription is under the control of two main promoters (P0 and P1), and these are autoregulated by Pax6. Additionally, Pax6 expression is under the control of the TGFbeta superfamily, although the precise mechanisms of such regulation are not understood. The effect of TGFbeta on Pax6 expression was studied in t...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Grocott T,Frost V,Maillard M,Johansen T,Wheeler GN,Dawes LJ,Wormstone IM,Chantry A

    更新日期:2007-01-01 00:00:00

  • Splicing of the U6 RNA precursor is impaired in fission yeast pre-mRNA splicing mutants.

    abstract::U6 RNA is a member of a class of small abundant stable nuclear RNAs that are essential for splicing. In all species examined so far, the U6 RNA is a RNA polymerase III transcript. The U6 gene of the fission yeast Schizosaccharomyces pombe is unusual in that it is interrupted by an intron whose structure is similar to ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Potashkin J,Frendewey D

    更新日期:1989-10-11 00:00:00

  • Caenorhabditis elegans DNA does not contain 5-methylcytosine at any time during development or aging.

    abstract::DNA, isolated from age-synchronous senescent populations of Caenorhabditis elegans has been quantitatively and qualitatively analyzed for the presence of 5-methylcytosine. High performance liquid chromatography on two wild-type and several mutant strains of C. elegans failed to detect any 5-methylcytosine. The restric...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Simpson VJ,Johnson TE,Hammen RF

    更新日期:1986-08-26 00:00:00

  • SNPWave: a flexible multiplexed SNP genotyping technology.

    abstract::Scalable multiplexed amplification technologies are needed for cost-effective large-scale genotyping of genetic markers such as single nucleotide polymorphisms (SNPs). We present SNPWave, a novel SNP genotyping technology to detect various subsets of sequences in a flexible fashion in a fixed detection format. SNPWave...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: van Eijk MJ,Broekhof JL,van der Poel HJ,Hogers RC,Schneiders H,Kamerbeek J,Verstege E,van Aart JW,Geerlings H,Buntjer JB,van Oeveren AJ,Vos P

    更新日期:2004-03-05 00:00:00

  • Evidence that RNA editing modulates splice site selection in the 5-HT2C receptor gene.

    abstract::Adenosine to inosine editing of mRNA from the human 5-HT2C receptor gene (HTR2C) occurs at five exonic positions (A-E) in a stable stem-loop that includes the normal 5' splice site of intron 5 and is flanked by two alternative splice sites. Using in vitro editing, we identified a novel editing site (F) located in the ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Flomen R,Knight J,Sham P,Kerwin R,Makoff A

    更新日期:2004-04-15 00:00:00

  • A comparison of the different DNA binding specificities of the bZip proteins C/EBP and GCN4.

    abstract::The bZip proteins GCN4 and C/EBP differ in their DNA binding specificities: GCN4 binds well to the pseudopalindromic AP1 site 5'-A4T3G2A1C0T1C2'A3'T4'-3' and to the palindromic ATF/CREB sequence 5'-A4T3G2A1-C0*G0'T1'C2'A3'T4'-3'; C/EBP preferentially recognizes the palindromic sequence 5'-A4T3T2G1C0*G0'C1'A2'-A3'T4'-3...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Koldin B,Suckow M,Seydel A,von Wilcken-Bergmann B,Müller-Hill B

    更新日期:1995-10-25 00:00:00

  • Protein evolution in yeast transcription factor subnetworks.

    abstract::When averaged over the full yeast protein-protein interaction and transcriptional regulatory networks, protein hubs with many interaction partners or regulators tend to evolve significantly more slowly due to increased negative selection. However, genome-wide analysis of protein evolution in the subnetworks of associa...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Wang Y,Franzosa EA,Zhang XS,Xia Y

    更新日期:2010-10-01 00:00:00

  • SEASTAR: systematic evaluation of alternative transcription start sites in RNA.

    abstract::Alternative first exons diversify the transcriptomes of eukaryotes by producing variants of the 5' Untranslated Regions (5'UTRs) and N-terminal coding sequences. Accurate transcriptome-wide detection of alternative first exons typically requires specialized experimental approaches that are designed to identify the 5' ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Qin Z,Stoilov P,Zhang X,Xing Y

    更新日期:2018-05-04 00:00:00

  • The isolation of a human Ig V lambda gene from a recombinant library of chromosome 22 and estimation of its copy number.

    abstract::We report the first isolation and characterisation of a human Ig V lambda gene. The gene was isolated from a recombinant phage library of human chromosome 22 using a mouse Ig lambda cDNA as probe. DNA sequence analysis predicts a short leader peptide interrupted by an intron of 88 nucleotides, and a mature polypeptide...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Anderson ML,Szajnert MF,Kaplan JC,McColl L,Young BD

    更新日期:1984-09-11 00:00:00

  • ELM-the eukaryotic linear motif resource in 2020.

    abstract::The eukaryotic linear motif (ELM) resource is a repository of manually curated experimentally validated short linear motifs (SLiMs). Since the initial release almost 20 years ago, ELM has become an indispensable resource for the molecular biology community for investigating functional regions in many proteins. In this...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Kumar M,Gouw M,Michael S,Sámano-Sánchez H,Pancsa R,Glavina J,Diakogianni A,Valverde JA,Bukirova D,Čalyševa J,Palopoli N,Davey NE,Chemes LB,Gibson TJ

    更新日期:2020-01-08 00:00:00

  • Analysis of the 3' flanking region of the human c-myc gene in lymphomas with the t(8;22) and t(2;8) chromosomal translocations.

    abstract::We have cloned and mapped the sequences extending 38 kb 3' of the c-myc gene. This region is found to be highly repetitive in nature and hybridizes extensively with a BLUR 8 Alu probe. Unique sequence probes derived from this region were used to map the chromosomal breakpoints of a number of lymphoma cell lines with t...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sun LK,Showe LC,Croce CM

    更新日期:1986-05-27 00:00:00

  • MitoMiner v3.1, an update on the mitochondrial proteomics database.

    abstract::Mitochondrial proteins remain the subject of intense research interest due to their implication in an increasing number of different conditions including mitochondrial and metabolic disease, cancer, and neuromuscular degenerative and age-related disorders. However, the mitochondrial proteome has yet to be accurately a...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Smith AC,Robinson AJ

    更新日期:2016-01-04 00:00:00

  • Structure of the yeast Pml1 splicing factor and its integration into the RES complex.

    abstract::The RES complex was previously identified in yeast as a splicing factor affecting nuclear pre-mRNA retention. This complex was shown to contain three subunits, namely Snu17, Bud13 and Pml1, but its mode of action remains ill-defined. To obtain insights into its function, we have performed a structural investigation of...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Brooks MA,Dziembowski A,Quevillon-Cheruel S,Henriot V,Faux C,van Tilbeurgh H,Séraphin B

    更新日期:2009-01-01 00:00:00

  • In vitro selection to identify determinants in tRNA for Bacillus subtilis tyrS T box antiterminator mRNA binding.

    abstract::The T box transcription antitermination regulatory system, found in Gram-positive bacteria, is dependent on a complex set of interactions between uncharged tRNA and the 5'-untranslated mRNA leader region of the regulated gene. One of these interactions involves the base pairing of the acceptor end of cognate tRNA with...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Fauzi H,Jack KD,Hines JV

    更新日期:2005-05-06 00:00:00

  • Characterization of human 5S rRNA genes.

    abstract::The human 5S rRNA genes are found in clusters of tandem repeated units. We have cloned and partially characterized six restriction fragments from two clusters of 2.3 kb and 1.6 kb repeats, respectively. Four fragments from the cluster of 2.3 kb repeats contain a 5S rRNA gene and one fragment contains a gene variant wi...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sørensen PD,Frederiksen S

    更新日期:1991-08-11 00:00:00

  • CACCC and GATA-1 sequences make the constitutively expressed alpha-globin gene erythroid-responsive in mouse erythroleukemia cells.

    abstract::Although the human alpha-globin and beta-globin genes are co-regulated in adult life, they achieve the same end by very different mechanisms. For example, a transfected beta-globin gene is expressed in an inducible manner in mouse erythroleukemia (MEL) cells while a transfected alpha-globin gene is constitutively expr...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Ren S,Li J,Atweh GF

    更新日期:1996-01-15 00:00:00

  • The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes.

    abstract::PIWI-interacting RNAs (piRNAs) comprise a class of small RNAs best known for suppressing transposable elements in germline tissues. The vector mosquito Aedes aegypti encodes seven PIWI genes, four of which are somatically expressed. This somatic piRNA pathway generates piRNAs from viral RNA during infection with cytop...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Joosten J,Miesen P,Taşköprü E,Pennings B,Jansen PWTC,Huynen MA,Vermeulen M,Van Rij RP

    更新日期:2019-03-18 00:00:00

  • RARGE: a large-scale database of RIKEN Arabidopsis resources ranging from transcriptome to phenome.

    abstract::The RIKEN Arabidopsis Genome Encyclopedia (RARGE) database houses information on biological resources ranging from transcriptome to phenome, including RIKEN Arabidopsis full-length (RAFL) complementary DNAs (cDNAs), their promoter regions, Dissociation (Ds) transposon-tagged lines and expression data from microarray e...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sakurai T,Satou M,Akiyama K,Iida K,Seki M,Kuromori T,Ito T,Konagaya A,Toyoda T,Shinozaki K

    更新日期:2005-01-01 00:00:00

  • Saccharomyces genome database informs human biology.

    abstract::The Saccharomyces Genome Database (SGD; is an expertly curated database of literature-derived functional information for the model organism budding yeast, Saccharomyces cerevisiae. SGD constantly strives to synergize new types of experimental data and bioinformatics predictions with existin...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Skrzypek MS,Nash RS,Wong ED,MacPherson KA,Hellerstedt ST,Engel SR,Karra K,Weng S,Sheppard TK,Binkley G,Simison M,Miyasato SR,Cherry JM

    更新日期:2018-01-04 00:00:00

  • Plant intron sequences: evidence for distinct groups of introns.

    abstract::In vivo and in vitro RNA splicing experiments have demonstrated that the intron splicing machineries are not interchangeable in all organisms. These differences have prevented the efficient in vivo expression of monocot genes containing introns in dicot plants and the in vitro excision of some plant introns in HeLa ce...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Hanley BA,Schuler MA

    更新日期:1988-07-25 00:00:00

  • A lac promoter with a changed distance between -10 and -35 regions.

    abstract::A lac promotor mutant was constructed by filling in the protruding ends of the HpaII site located within the lac promotor. The mutation, named M42, is a two base pair insertion that changes the distance between the -10 and -35 regions from 18 to 20 residues. The activity of the mutant promotor measured in vivo is 15% ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Mandecki W,Reznikoff WS

    更新日期:1982-02-11 00:00:00

  • Structure and expression of the nuclear gene coding for the plastid CS1 ribosomal protein from spinach.

    abstract::The chloroplast ribosomal protein CS1 is an essential component of the plastids translational machinery involved in translation initiation. Southern analysis suggests that the corresponding nuclear gene is present in one copy in the spinach genome. We have isolated and sequenced the gene (rps1) to study its expression...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Franzetti B,Zhou DX,Mache R

    更新日期:1992-08-25 00:00:00

  • Quantitation of supercoiled circular content in plasmid DNA solutions using a fluorescence-based method.

    abstract::A method for quantifying the proportion of supercoiled circular (SC) forms in DNA solutions is described. The method (SCFluo) takes advantage of the reversible denaturation property of SC forms and the high specificity of the PicoGreen fluorochrome for double-stranded (ds)DNA. Fluorescence values of forms capable of r...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Levy MS,Lotfian P,O'Kennedy R,Lo-Yim MY,Shamlou PA

    更新日期:2000-06-15 00:00:00

  • The European Bioinformatics Institute in 2017: data coordination and integration.

    abstract::The European Bioinformatics Institute (EMBL-EBI) supports life-science research throughout the world by providing open data, open-source software and analytical tools, and technical infrastructure ( We accommodate an increasingly diverse range of data types and integrate them, so that biologists...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Cook CE,Bergman MT,Cochrane G,Apweiler R,Birney E

    更新日期:2018-01-04 00:00:00

  • Cloning and characterization of two guide RNA-binding proteins from mitochondria of Crithidia fasciculata: gBP27, a novel protein, and gBP29, the orthologue of Trypanosoma brucei gBP21.

    abstract::In kinetoplastid protozoa, mitochondrial (mt) mRNAs are post-transcriptionally edited by insertion and deletion of uridylate residues, the information being provided by guide (g)RNAs. Currently popular mechanisms for the editing process envisage a series of consecutive 'cut-and-paste' reactions, carried out by a compl...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Blom D,Burg Jv,Breek CK,Speijer D,Muijsers AO,Benne R

    更新日期:2001-07-15 00:00:00

  • Efficient new ribozyme mimics: direct mapping of molecular design principles from small molecules to macromolecular, biomimetic catalysts.

    abstract::Dramatic improvements in ribozyme mimics have been achieved by employing the principles of small molecule catalysis to the design of macromolecular, biomimetic reagents. Ribozyme mimics derived from the ligand 2,9-dimethylphenanthroline (neocuproine) show at least 30-fold improvements in efficiency at sequence-specifi...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Putnam WC,Daniher AT,Trawick BN,Bashkin JK

    更新日期:2001-05-15 00:00:00

  • Accurate quantification of DNA methylation using combined bisulfite restriction analysis coupled with the Agilent 2100 Bioanalyzer platform.

    abstract::DNA methylation is the best-studied epigenetic modification and describes the conversion of cytosine to 5-methylcytosine. The importance of this phenomenon is that aberrant promoter hypermethylation is a common occurrence in cancer and is frequently associated with gene silencing. Various techniques are currently avai...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Brena RM,Auer H,Kornacker K,Hackanson B,Raval A,Byrd JC,Plass C

    更新日期:2006-02-07 00:00:00

  • Complete nucleotide sequence of the 23S rRNA gene of the Cyanobacterium, Anacystis nidulans.

    abstract::The nucleotide sequence of the Anacystis nidulans 23S rRNA gene, including the 5'- and 3'-flanking regions has been determined. The gene is 2876 nucleotides long and shows higher primary sequence homology to the 23S rRNAs of plastids (84.5%) than to that of E. coli (79%). The predicted rRNA transcript also shares many...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Douglas SE,Doolittle WF

    更新日期:1984-04-11 00:00:00