Abstract：
:The Escherichia coli fmu gene product has recently been determined to be the 16S rRNA m(5)C 967 methyltransferase. As such, Fmu represents the first protein identified as an S -adenosyl-L-methionine (AdoMet)- dependent RNA m(5)C methyltransferase whose amino acid sequence is known. Using the amino acid sequence of Fmu as an initial probe in an iterative search of completed DNA sequence databases, 27 homologous ORF products were identified as probable RNA m(5)C methyltransferases. Further analysis of sequences in undeposited genomic sequencing data and EST databases yielded more than 30 additional homologs. These putative RNA m(5)C methyltransferases are grouped into eight subfamilies, some of which are predicted to consist of direct genetic counterparts, or orthologs. The enzymes proposed to be RNA m(5)C methyltransferases have sequence motifs closely related to signature sequences found in the well-studied DNA m(5)C methyltransferases and other AdoMet-dependent methyltransferases. Structure-function correlates in the known AdoMet methyltransferases support the assignment of this family as RNA m(5)C methyltransferases.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Reid R,Greene PJ,Santi DVdoi
10.1093/nar/27.15.3138keywords:
subject
Has Abstractpub_date
1999-08-01 00:00:00pages
3138-45issue
15eissn
0305-1048issn
1362-4962pii
gkc479journal_volume
27pub_type
杂志文章abstract：:Complete genomes of three closely related Gram-positive bacteria Streptococcus pyogenes, Streptococcus pneumoniae and Lactococcus lactis are analyzed for abundances of short DNA sequence motifs (frequent words). The character and extent of frequent words are strikingly different among these genomes. The frequent words...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkf534
更新日期：2002-10-01 00:00:00
abstract：:We describe a database of macromolecular motions meant to be of general use to the structural community. The database, which is accessible on the World Wide Web with an entry point at http://bioinfo.mbb.yale.edu/MolMovDB , attempts to systematize all instances of protein and nucleic acid movement for which there is at...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.18.4280
更新日期：1998-09-15 00:00:00
abstract：:Basic region-leucine zipper (B-ZIP) proteins are a class of dimeric sequence-specific DNA-binding proteins unique to eukaryotes. We have identified 67 B-ZIP proteins in the Arabidopsis thaliana genome. No A.thaliana B-ZIP domains are homologous with any Homo sapiens B-ZIP domains. Here, we predict the dimerization spe...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkh653
更新日期：2004-06-29 00:00:00
abstract：:The hypoxanthine-guanine phosphoribosyltransferase (HGPRT) enzyme of Trypanosoma brucei and related parasites provides a rational target for the treatment of African sleeping sickness and several other parasitic diseases. To characterize the T. brucei HGPRT enzyme in detail, the T. brucei hgprt was isolated within a 4...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.23.5431
更新日期：1993-11-25 00:00:00
abstract：:GAP-43 is a membrane phosphoprotein that is important for the development and plasticity of neural connections. In undifferentiated PC12 pheochromocytoma cells, GAP-43 mRNA degrades rapidly ( t = 5 h), but becomes stable when cells are treated with nerve growth factor. To identify trans- acting factors that may influe...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/25.6.1281
更新日期：1997-03-15 00:00:00
abstract：:Little is known about the regulation of the DNA damage-mediated gene expression in archaea. Here we report that the addition of actinomycin D to Sulfolobus solfataricus cultures triggers the expression of the radA paralogue sso0777. Furthermore, a specific retarded band is observed when electrophoretic mobility shift ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm782
更新日期：2007-01-01 00:00:00
abstract：:DNA synthesis by phage T4 DNA polymerase is arrested at specific sequences in single-stranded DNA templates. To determine whether or not T4 DNA polymerase accessory proteins 32, 44, 45 and 62 eliminated recognition of these arrest sites, unique primer-templates were constructed in which DNA synthesis began at a DNA pr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.8.3343
更新日期：1986-04-25 00:00:00
abstract：:An examination, using reversed-phase chromatography and cyanogen bromide treatment, of tRNATyr, tRNAHis, tRNAAsn, and tRNAAsp from SV40-transformed mouse fibroblasts grown to different cell densities, untransformed cells grown to confluence, and mouse liver indicates that: (1) The tissue cultured mouse fibroblasts exa...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.7.2513
更新日期：1978-07-01 00:00:00
abstract：:Motif3D is a web-based protein structure viewer designed to allow sequence motifs, and in particular those contained in the fingerprints of the PRINTS database, to be visualised on three-dimensional (3D) structures. Additional functionality is provided for the rhodopsin-like G protein-coupled receptors, enabling finge...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg534
更新日期：2003-07-01 00:00:00
abstract：:Exposure to genotoxic agents, such as ionizing radiation (IR), produces double-strand breaks, repaired predominantly in mammalian cells by non-homologous end-joining (NHEJ). Ku70 was identified as an interacting partner of a proteolytic Cyclin E (CycE) fragment, p18CycE. p18CycE endogenous generation during IR-induced...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt812
更新日期：2013-12-01 00:00:00
abstract：:DNA from healthy Malaysian newborns was studied on gene maps after digestion with different restriction endonucleases. Of 65 newborns, two were found to be carriers of two different variants of triplicated alpha-globin loci. In variant no. 1, found in an Malay, the three alpha-globin genes are in an elongated DNA frag...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.15.3707
更新日期：1981-08-11 00:00:00
abstract：:Twenty AdoMet-dependent methyltransferases (MTases) have been characterized structurally by X-ray crystallography and NMR. These include seven DNA MTases, five RNA MTases, four protein MTases and four small molecule MTases acting on the carbon, oxygen or nitrogen atoms of their substrates. The MTases share a common co...
journal_title：Nucleic acids research
pub_type： 杂志文章,评审
doi：10.1093/nar/29.18.3784
更新日期：2001-09-15 00:00:00
abstract：:The DNA sequences at and around the junctions between viral and cellular DNA in the polyoma virus transformed mouse cell line, TS-A-3T3, have been determined. No common sequence specificity or structural features at the joins have been observed. The sequence indicates that the 94K truncated large T antigen found in TS...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.15.4515
更新日期：1982-08-11 00:00:00
abstract：:The nucleoplasm is not homogenous; it consists of many types of nuclear bodies, also known as nuclear domains or nuclear subcompartments. These self-organizing structures gather machinery involved in various nuclear activities. Nuclear speckles (NSs) or splicing speckles, also called interchromatin granule clusters, w...
journal_title：Nucleic acids research
pub_type： 杂志文章,评审
doi：10.1093/nar/gkx759
更新日期：2017-10-13 00:00:00
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
doi：10.1093/nar/17.19.7821
更新日期：1989-10-11 00:00:00
abstract：:RNA-Seq is gradually becoming the standard tool for transcriptomic expression studies in biological research. Although considerable progress has been recorded in the development of statistical algorithms for the detection of differentially expressed genes using RNA-Seq data, the list of detected genes can differ signi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku1273
更新日期：2015-02-27 00:00:00
abstract：:Photoalkylation reactions with 2-propanol, initiated with di-tert-butyl peroxide, of a variety of purine and pyrimidine mononucleotides and dinucleoside monophosphates lead to the substitution of an alpha-hydroxyisopropyl group for the H-8 atom of adenosine and the addition of the alcohol across the 5,6-double bond of...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/3.7.1715
更新日期：1976-07-01 00:00:00
abstract：:Infrared and UV spectroscopies have been used to study the assembly of a hairpin nucleotide sequence (nucleotides 3-30) of the 5' non-coding region of the hepatitis C virus RNA (5'-GGCGGGGAUUAUCCCCGCUGUGAGGCGG-3') with a RNA 20mer ligand (5'-CCGCCUCACAAAGGUGGGGU-3') in the presence of magnesium ion and spermidine. The...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/30.6.1333
更新日期：2002-03-15 00:00:00
abstract：:The rDNA cluster in Saccharomyces cerevisiae is located 450 kb from the left end and 610 kb from the right end of chromosome XII and consists of approximately 150 tandemly repeated copies of a 9.1 kb rDNA unit. To explore the biological significance of this specific chromosomal context, chromosome XII was split at bot...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl293
更新日期：2006-05-31 00:00:00
abstract：:A frequently used method of comparing large RNA molecules employs the two-dimensional display of oligonucleotides generated through the action of specific RNases (oligonucleotide mapping, fingerprinting). Using computer simulations and simple analytic expressions the number of large RNase T1-resistant oligonucleotides...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.1.237
更新日期：1982-01-11 00:00:00
abstract：:dITP may be generated from dATP by a slow, nonenzymatic hydrolysis. While [3H]dITP was degraded rapidly to [3H]deoxyinosine by HeLa cell nuclear extracts, no net degradation of [3H]dITP was observed in the presence of physiological concentrations of ATP, apparently because the extract contained deoxynucleoside diphosp...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.12.3693
更新日期：1982-06-25 00:00:00
abstract：:Understanding the normal state of human tissue transcriptome profiles is essential for recognizing tissue disease states and identifying disease markers. Recently, the Human Protein Atlas and the FANTOM5 consortium have each published extensive transcriptome data for human samples using Illumina-sequenced RNA-Seq and ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv608
更新日期：2015-08-18 00:00:00
abstract：:The Mouse Genome Database (MGD, http://www.informatics.jax.org) is the international community resource for integrated genetic, genomic and biological data about the laboratory mouse. Data in MGD are obtained through loads from major data providers and experimental consortia, electronic submissions from laboratories a...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr974
更新日期：2012-01-01 00:00:00
abstract：:The Cre-lox system is an important tool for genetic manipulation. To promote integrative reactions, two strategies using mutant lox sites have been developed. One is the left element/right element (LE/RE)-mutant strategy and the other is the cassette exchange strategy using heterospecific lox sites such as lox511 or l...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnf102
更新日期：2002-10-01 00:00:00
abstract：:UV-induced reversion of the arg4-17 ochre allele in Saccharomyces cerevisiae is largely dependent on translesion polymerase eta (Rad30p), known to bypass cyclobutane-type TT dimers in an error-free fashion. arg4-17 locus reversion was predominantly due to T-->C transition of T127, the 3' T of a TT photoproduct site. T...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/30.5.1262
更新日期：2002-03-01 00:00:00
abstract：:In Eukaryotes, DNA is wound around the histone octamer forming the basic chromatin unit, the nucleosome. Atomic structures have been obtained from crystallography and single particle cryo-electron microscopy (cryoEM) of identical engineered particles. But native nucleosomes are dynamical entities with diverse DNA sequ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky670
更新日期：2018-09-28 00:00:00
abstract：:One of the obstacles hindering a better understanding of cancer is its heterogeneity. However, computational approaches to model cancer heterogeneity have lagged behind. To bridge this gap, we have developed a new probabilistic approach that models individual cancer cases as mixtures of subtypes. Our approach can be s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt577
更新日期：2013-09-01 00:00:00
abstract：:During S phase, the entire genome must be precisely duplicated, with no sections of DNA left unreplicated. Here, we develop a simple mathematical model to describe the probability of replication failing due to the irreversible stalling of replication forks. We show that the probability of complete genome replication i...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt728
更新日期：2013-11-01 00:00:00
abstract：:The nucleotide sequences 3' to the translational termination codons in a collection of human genes have been analysed for evidence of a preferred 3' context for natural UAG codons. The aim was to see whether human UAG contexts can be related to the recent demonstration of the effects of 3' context on nonsense suppress...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.1.15
更新日期：1994-01-11 00:00:00
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
doi：10.1093/nar/14.16.6711
更新日期：1986-08-26 00:00:00
