Nucleotides in precursor tRNAs that are required intact for catalysis by RNase P RNAs.

abstract：:Two CTAG-recognizing restriction and modification (R/M) systems, designated MthZI and MthFI, were identified in the thermophilic archaeon Methanobacterium thermoformicicum strains Z-245 and FTF, respectively. Further analysis revealed that the methyltransferase (MTase) genes are plasmid-located in both strains. The pl...

journal_title：Nucleic acids research

authors： Nölling J,de Vos WM

更新日期：1992-10-11 00:00:00

abstract：:In this study, we present the DNA-Binding Site Identifier (DBSI), a new structure-based method for predicting protein interaction sites for DNA binding. DBSI was trained and validated on a data set of 263 proteins (TRAIN-263), tested on an independent set of protein-DNA complexes (TEST-206) and data sets of 29 unbound...

journal_title：Nucleic acids research

authors： Zhu X,Ericksen SS,Mitchell JC

更新日期：2013-09-01 00:00:00

abstract：:Genomic imbalances are a major cause of constitutional and acquired disorders. Therefore, aneuploidy screening has become the cornerstone of preimplantation, prenatal and postnatal genetic diagnosis, as well as a routine aspect of the diagnostic workup of many acquired disorders. Recently, array comparative genomic hy...

journal_title：Nucleic acids research

authors： Le Caignec C,Spits C,Sermon K,De Rycke M,Thienpont B,Debrock S,Staessen C,Moreau Y,Fryns JP,Van Steirteghem A,Liebaers I,Vermeesch JR

更新日期：2006-05-12 00:00:00

abstract：:Pfam is a widely used database of protein families, currently containing more than 13,000 manually curated protein families as of release 26.0. Pfam is available via servers in the UK (http://pfam.sanger.ac.uk/), the USA (http://pfam.janelia.org/) and Sweden (http://pfam.sbc.su.se/). Here, we report on changes that ha...

journal_title：Nucleic acids research

authors： Punta M,Coggill PC,Eberhardt RY,Mistry J,Tate J,Boursnell C,Pang N,Forslund K,Ceric G,Clements J,Heger A,Holm L,Sonnhammer EL,Eddy SR,Bateman A,Finn RD

更新日期：2012-01-01 00:00:00

abstract：:Fifteen years elapsed between the discovery of the double helix (1953) and the first DNA sequencing (1968). Modern DNA sequencing began in 1977, with development of the chemical method of Maxam and Gilbert and the dideoxy method of Sanger, Nicklen and Coulson, and with the first complete DNA sequence (phage X174), whi...

journal_title：Nucleic acids research

authors： Hutchison CA 3rd

更新日期：2007-01-01 00:00:00

abstract：:The Kluyveromyces lactis gene encoding the general transcription factor IIB (TFIIB) was isolated from a genomic library by complementation of the cold-sensitive phenotype conferred by a mutation in the SUA7 gene, which encodes TFIIB in Saccharomyces cerevisiae. DNA sequence analysis of the KI-SUA7 gene revealed a 357 ...

journal_title：Nucleic acids research

authors： Na JG,Hampsey M

更新日期：1993-07-25 00:00:00

abstract：:The formation of interstrand cross-links in nucleic acids can have a strong impact on biological function of nucleic acids; therefore, many cross-linking agents have been developed for biological applications. Despite numerous studies, there remains a need for cross-linking agents that exhibit both efficiency and sele...

journal_title：Nucleic acids research

authors： Nishimoto A,Jitsuzaki D,Onizuka K,Taniguchi Y,Nagatsugi F,Sasaki S

更新日期：2013-07-01 00:00:00

abstract：:We have studied the coil-to-helix transition of the DNA oligomer d(C4A4T4C4), using circular dichroism measurements to monitor the formation of A.T base pairs within the central self-complementary A4T4 region and the formation of protonated C.C+ base pairs at the ends of the oligomer. We found that both A.T and C.C+ b...

journal_title：Nucleic acids research

authors： Gray DM,Cui T,Ratliff RL

更新日期：1984-10-11 00:00:00

abstract：:Three new proteins which selectively bind to UV-damaged DNA were identified and purified to near homogeneity from UV-irradiated Drosophila melanogaster embryos through several column chromatographies. These proteins, tentatively designated as D-DDB P1, P2 and P3, can be identified as different complex bands in a gel s...

journal_title：Nucleic acids research

authors： Kai M,Takahashi T,Todo T,Sakaguchi K

更新日期：1995-07-25 00:00:00

abstract：:Sets of genes expressed in the same tissue are believed to be under the regulation of a similar set of transcription factors, and can thus be assumed to contain similar structural patterns in their regulatory regions. Here we present a study of the structural patterns in promoters of genes expressed specifically in 26...

journal_title：Nucleic acids research

authors： Vandenbon A,Nakai K

更新日期：2010-01-01 00:00:00

abstract：:Originally identified as an RNA polymerase II interactor, Che-1/AATF (Che-1) has now been recognized as a multifunctional protein involved in cell-cycle regulation and cancer progression, as well as apoptosis inhibition and response to stress. This protein displays a peculiar nucleolar localization and it has recently...

journal_title：Nucleic acids research

authors： Sorino C,Catena V,Bruno T,De Nicola F,Scalera S,Bossi G,Fabretti F,Mano M,De Smaele E,Fanciulli M,Iezzi S

更新日期：2020-06-19 00:00:00

abstract：:Primer design is a fundamental technique that is widely used for polymerase chain reaction (PCR). Although many methods have been proposed for primer design, they require a great deal of manual effort to generate feasible and valid primers, including homology tests on off-target sequences using BLAST-like tools. That ...

journal_title：Nucleic acids research

authors： Kim H,Kang N,Chon KW,Kim S,Lee N,Koo J,Kim MS

更新日期：2015-11-16 00:00:00

abstract：:Since 2010, the Genomicus web server is available online at http://genomicus.biologie.ens.fr/genomicus. This graphical browser provides access to comparative genomic analyses in four different phyla (Vertebrate, Plants, Fungi, and non vertebrate Metazoans). Users can analyse genomic information from extant species, as...

journal_title：Nucleic acids research

authors： Nguyen NTT,Vincens P,Roest Crollius H,Louis A

更新日期：2018-01-04 00:00:00

abstract：:Nam8, a component of yeast U1 snRNP, is optional for mitotic growth but required during meiosis, because Nam8 collaborates with Mer1 to promote splicing of essential meiotic mRNAs AMA1, MER2 and MER3. Here, we identify SPO22 and PCH2 as novel targets of Nam8-dependent meiotic splicing. Whereas SPO22 splicing is co-dep...

journal_title：Nucleic acids research

authors： Qiu ZR,Schwer B,Shuman S

更新日期：2011-04-01 00:00:00

abstract：:A set of programs is presented for the reconstruction of a DNA sequence from data generated by the M13 shotgun sequencing technique. Once the sequence has been established and stored other programs are used for its analysis. The programs have been written for the Apple II microcomputer. A minimum investment is require...

journal_title：Nucleic acids research

authors： Larson R,Messing J

更新日期：1982-01-11 00:00:00

abstract：:ID elements comprise a rodent SINE (short interspersed DNA repetitive element) family that has amplified by retroposition of a few master genes. In order to understand the important factors of SINE amplification, we investigated the transcription of rat ID elements. Three different size classes of ID transcripts, BC1,...

journal_title：Nucleic acids research

authors： Kim J,Kass DH,Deininger PL

更新日期：1995-06-25 00:00:00

abstract：:Module identification is a frequently used approach for mining local structures with more significance in global networks. Recently, a wide variety of bilayer networks are emerging to characterize the more complex biological processes. In the light of special topological properties of bilayer networks and the accompan...

journal_title：Nucleic acids research

authors： Xu Y,Guo M,Liu X,Wang C,Liu Y,Liu G

更新日期：2016-11-16 00:00:00

abstract：:VIDA is a new virus database that organizes open reading frames (ORFs) from partial and complete genomic sequences from animal viruses. Currently VIDA includes all sequences from GenBank for Herpesviridae, Coronaviridae and Arteriviridae. The ORFs are organized into homologous protein families, which are identified on...

journal_title：Nucleic acids research

authors： Albà MM,Lee D,Pearl FM,Shepherd AJ,Martin N,Orengo CA,Kellam P

更新日期：2001-01-01 00:00:00

abstract：:Aberrant DNA methylation at CpG dinucleotides can result in epigenetic silencing of tumour suppressor genes and represents one of the earliest events in tumourigenesis. To date, however, high-throughput tools that are capable of surveying the methylation status of multiple gene promoters have been restricted to a limi...

journal_title：Nucleic acids research

authors： Mund C,Beier V,Bewerunge P,Dahms M,Lyko F,Hoheisel JD

更新日期：2005-04-28 00:00:00

abstract：:The PD-(D/E)XK type II restriction endonuclease ThaI cuts the target sequence CG/CG with blunt ends. Here, we report the 1.3 Å resolution structure of the enzyme in complex with substrate DNA and a sodium or calcium ion taking the place of a catalytic magnesium ion. The structure identifies Glu54, Asp82 and Lys93 as t...

journal_title：Nucleic acids research

authors： Firczuk M,Wojciechowski M,Czapinska H,Bochtler M

更新日期：2011-01-01 00:00:00

abstract：:More than 200 assembly factors (AFs) are required for the production of ribosomes in yeast. The stepwise association and dissociation of these AFs with the pre-ribosomal subunits occurs in a hierarchical manner to ensure correct maturation of the pre-rRNAs and assembly of the ribosomal proteins. Although decades of re...

journal_title：Nucleic acids research

authors： Braun CM,Hackert P,Schmid CE,Bohnsack MT,Bohnsack KE,Perez-Fernandez J

更新日期：2020-01-10 00:00:00

abstract：:We report here the discovery of HMBP, a protein in nuclei of human T-helper lymphocytes and other human cell types, which binds with enhanced affinity to a promoter element in the HIV-1 long terminal repeat when that element is methylated at CpGs, the target site of the human DNA methyltransferase. This promoter eleme...

journal_title：Nucleic acids research

authors： Joel P,Shao W,Pratt K

更新日期：1993-12-11 00:00:00

abstract：:Two hexamer DNA fragments containing a carcinogenic modified base, O6-methyl guanine, have been synthesized by a solid-phase phosphotriester method, in which the unmodified guanine residues present were O6 protected with the 4-nitrophenylethyl group. These two alkylated oligonucleotides were found to have similar Tm's...

journal_title：Nucleic acids research

authors： Kuzmich S,Marky LA,Jones RA

更新日期：1983-05-25 00:00:00

abstract：:Bacteria belonging to the class Mollicutes were among the first ones to be selected for complete genome sequencing because of the minimal size of their genomes and their pathogenicity for humans and a broad range of animals and plants. At this time six genome sequences have been publicly released (Mycoplasma genitaliu...

journal_title：Nucleic acids research

authors： Barré A,de Daruvar A,Blanchard A

更新日期：2004-01-01 00:00:00

abstract：:Nucleotide sequences of three cloned restriction fragments of Tetrahymena mtDNA which showed hybridization with mitochondrial tRNA have been determined. EcoRI fragment 5 (4.1 kbp) contains the tRNAphe gene sequence with anticodon GAA; Hind III fragment 6 (2.0 kbp) the tRNAhis with anticodon GTG; and EcoRI fragment 7 (...

journal_title：Nucleic acids research

authors： Suyama Y

更新日期：1985-05-10 00:00:00

abstract：:The human Werner syndrome protein, WRN, is a member of the RecQ helicase family and contains 3'-->5' helicase and 3'-->5' exonuclease activities. Recently, we showed that the exonuclease activity of WRN is greatly stimulated by the human Ku heterodimer protein. We have now mapped this interaction physically and functi...

journal_title：Nucleic acids research

authors： Karmakar P,Snowden CM,Ramsden DA,Bohr VA

更新日期：2002-08-15 00:00:00

abstract：:The chemical synthesis of backbone deuterium labelled [r(CGCGAAU*U*CGCG)]2 (U* = [5'-2H]U) is described. An efficient purification procedure was developed using a polymeric reverse phase (PRP) HPLC column at 60 degrees C. This procedure provided pure RNA dodecamer in the multi-milligram quantities (39% overall yield) ...

journal_title：Nucleic acids research

authors： Khare D,Orban J

更新日期：1992-10-11 00:00:00

abstract：:Analysis of the human protein-tyrosine phosphatase (PTP) PTPRJ mRNA detected three in-frame AUGs at the 5'-end (starting at nt +14, +191 and +356) with no intervening stop codons. This tandem AUG arrangement is conserved between humans and the mouse and is unique among the genes of the classical PTPs. Until now it was...

journal_title：Nucleic acids research

authors： Karagyozov L,Godfrey R,Böhmer SA,Petermann A,Hölters S,Ostman A,Böhmer FD

更新日期：2008-08-01 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

authors： Zhang H,Siede W

更新日期：2002-03-01 00:00:00

abstract：:Pre-mRNA splicing is catalyzed by the spliceosome, a multi-megadalton ribonucleoprotein machine. Previous work from our laboratory revealed the splicing factor SRSF1 as a regulator of the SUMO pathway, leading us to explore a connection between this pathway and the splicing machinery. We show here that addition of a r...

journal_title：Nucleic acids research

authors： Pozzi B,Bragado L,Will CL,Mammi P,Risso G,Urlaub H,Lührmann R,Srebrow A

更新日期：2017-06-20 00:00:00