Methylation of human eukaryotic elongation factor alpha (eEF1A) by a member of a novel protein lysine methyltransferase family modulates mRNA translation.

abstract：:The isolation and characterization of deletion mutants of the bacteriocinogenic plasmid Clo DF13 is described. To construct these deletion mutants, DNA of Clo DF13::Tn901 and Clo DF13-rep3::Tn901 plasmids was digested with restriction endonucleases, ligated with T4 ligase and introduced by transformation into Escheric...

journal_title：Nucleic acids research

authors： Stuitje AR,Veltkamp E,van den Elzen PJ,Nijkamp HJ

更新日期：1978-06-01 00:00:00

abstract：:Resolvase enzymes that cleave DNA four-way (Holliday) junctions are required for poxvirus replication, but clinically useful inhibitors have not been developed. Here, we report an assay for resolvase cleavage activity based on fluorescence polarization (FP) for high-throughput screening and mechanistic studies. Initia...

journal_title：Nucleic acids research

authors： Culyba M,Hwang Y,Attar S,Madrid PB,Bupp J,Huryn D,Sanchez L,Grobler J,Miller MD,Bushman FD

更新日期：2012-09-01 00:00:00

abstract：:It has been inferred from DNA sequence analyses that in echinoderm mitochondria not only the usual asparagine codons AAU and AAC, but also the usual lysine codon AAA, are translated as asparagine by a single mitochondrial (mt) tRNAAsn with the anticodon GUU. Nucleotide sequencing of starfish mt tRNAAsn revealed that t...

journal_title：Nucleic acids research

authors： Tomita K,Ueda T,Watanabe K

更新日期：1999-04-01 00:00:00

abstract：:Apurinic/apyrimidinic endonuclease 1 (APE1), an essential protein in mammals, is involved in base excision DNA repair (BER) and in regulation of gene expression, acting as a redox co-activator of several transcription factors. Recent findings highlight a novel role for APE1 in RNA metabolism, which is modulated by nuc...

journal_title：Nucleic acids research

authors： Fantini D,Vascotto C,Marasco D,D'Ambrosio C,Romanello M,Vitagliano L,Pedone C,Poletto M,Cesaratto L,Quadrifoglio F,Scaloni A,Radicella JP,Tell G

更新日期：2010-12-01 00:00:00

abstract：:KRAS is one of the most mutated genes in human cancer. It is controlled by a G4 motif located upstream of the transcription start site. In this paper, we demonstrate that 8-oxoguanine (8-oxoG), being more abundant in G4 than in non-G4 regions, is a new player in the regulation of this oncogene. We designed oligonucleo...

journal_title：Nucleic acids research

authors： Cogoi S,Ferino A,Miglietta G,Pedersen EB,Xodo LE

更新日期：2018-01-25 00:00:00

abstract：:YdiV is a negative regulator of cell motility. It interacts with FlhD(4)C(2) complex, a product of flagellar master operon, which works as the transcription activator of all other flagellar operons. Here, we report the crystal structures of YdiV and YdiV(2)-FlhD(2) complex at 1.9 Å and 2.9 Å resolutions, respectively....

journal_title：Nucleic acids research

authors： Li B,Li N,Wang F,Guo L,Huang Y,Liu X,Wei T,Zhu D,Liu C,Pan H,Xu S,Wang HW,Gu L

更新日期：2012-11-01 00:00:00

abstract：:We have synthesized the tetradecamer GAGCXGATAACAAG containing a part of the sequence of the lactose operator. A guanine base in the sequence is replaced by the adduct of the carcinogen 2-acetylaminofluorene with guanine. Under the standard conditions of de-protection, the fluorene moiety is lost, leaving behind a gua...

journal_title：Nucleic acids research

authors： Stöhrer G,Osband JA,Alvarado-Urbina G

更新日期：1983-08-11 00:00:00

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

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

abstract：:ArrayOme is a new program that calculates the size of genomes represented by microarray-based probes and facilitates recognition of key bacterial strains carrying large numbers of novel genes. Protein-coding sequences (CDS) that are contiguous on annotated reference templates and classified as 'Present' in the test st...

journal_title：Nucleic acids research

authors： Ou HY,Smith R,Lucchini S,Hinton J,Chaudhuri RR,Pallen M,Barer MR,Rajakumar K

更新日期：2005-01-07 00:00:00

abstract：:In squid (Loligo bleekeri) mitochondria, the two 3'-terminal nucleotides (G72-G73) of the tRNA(Tyr) gene overlap with the two 5'-terminal nucleotides (G1-G2) of the downstream tRNA(Cys) gene. To elucidate the processing mechanism(s) of the tRNA molecules derived from this region, tRNAs were analyzed by sequencing cDNA...

journal_title：Nucleic acids research

authors： Tomita K,Ueda T,Watanabe K

更新日期：1996-12-15 00:00:00

abstract：:It has been proposed that DNA multiply damaged sites (MDS), where more than one moiety in a local region ( approximately 1 helical turn, 10 bp) of the DNA is damaged, are lesions of enhanced biological significance. However, other than indirect measures, there are few analytical techniques that allow direct detection ...

journal_title：Nucleic acids research

authors： Bowman KJ,Pla RL,Guichard Y,Farmer PB,Jones GD

更新日期：2001-10-15 00:00:00

abstract：:With the improved rapid sequencing techniques, the earlier sequence of U2 RNA of Novikoff hepatoma (Shibata et al, J. Biol. Chem. 250, 3909-3920, 1975) was reanalyzed and modified. The improved sequence of U2 RNA is 188 (or 189) nucleotides long and is in register with a characterized U2 RNA pseudogene (Denison et al,...

journal_title：Nucleic acids research

authors： Reddy R,Henning D,Epstein P,Busch H

更新日期：1981-11-11 00:00:00

abstract：:DNA predominantly contains Watson-Crick (WC) base pairs, but a non-negligible fraction of base pairs are in the Hoogsteen (HG) hydrogen bonding motif at any time. In HG, the purine is rotated ∼180° relative to the WC motif. The transitions between WC and HG may play a role in recognition and replication, but are diffi...

journal_title：Nucleic acids research

authors： Vreede J,Pérez de Alba Ortíz A,Bolhuis PG,Swenson DWH

更新日期：2019-12-02 00:00:00

abstract：:We report here the different ways in which four subunits of the basal transcription/repair factor TFIIH (XPB, XPD, p62 and p44) and the damage recognition XPC repair protein can enter the nucleus. We examined their nuclear localization by transiently expressing the gene products tagged with the enhanced green fluoresc...

journal_title：Nucleic acids research

authors： Santagati F,Botta E,Stefanini M,Pedrini AM

更新日期：2001-04-01 00:00:00

abstract：:EcoCyc is an organism-specific Pathway/Genome Database that describes the metabolic and signal-transduction pathways of Escherichia coli, its enzymes, and-a new addition-its transport proteins. MetaCyc is a new metabolic-pathway database that describes pathways and enzymes of many different organisms, with a microbial...

journal_title：Nucleic acids research

authors： Karp PD,Riley M,Saier M,Paulsen IT,Paley SM,Pellegrini-Toole A

更新日期：2000-01-01 00:00:00

abstract：:A new system, ZCURVE 1.0, for finding protein- coding genes in bacterial and archaeal genomes has been proposed. The current algorithm, which is based on the Z curve representation of the DNA sequences, lays stress on the global statistical features of protein-coding genes by taking the frequencies of bases at three c...

journal_title：Nucleic acids research

authors： Guo FB,Ou HY,Zhang CT

更新日期：2003-03-15 00:00:00

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 ...

journal_title：Nucleic acids research

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

更新日期：1997-02-01 00:00:00

abstract：:We identify a novel activity of the RarA (also MgsA) protein of Escherichia coli, demonstrating that this protein functions at DNA ends to generate flaps. A AAA+ ATPase in the clamp loader clade, RarA protein is part of a highly conserved family of DNA metabolism proteins. We demonstrate that RarA binds to double-stra...

journal_title：Nucleic acids research

authors： Stanage TH,Page AN,Cox MM

更新日期：2017-03-17 00:00:00

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

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

更新日期：1991-10-11 00:00:00

abstract：:The majority of genome-wide association study (GWAS) risk variants reside in non-coding DNA sequences. Understanding how these sequence modifications lead to transcriptional alterations and cell-to-cell variability can help unraveling genotype-phenotype relationships. Here, we describe a computational method, dubbed C...

journal_title：Nucleic acids research

authors： Li S,Alvarez RV,Sharan R,Landsman D,Ovcharenko I

更新日期：2017-03-17 00:00:00

abstract：:Alternative RNA splicing is an essential process to yield proteomic diversity in eukaryotic cells, and aberrant splicing is often associated with numerous human diseases and cancers. We recently described serine/arginine-rich splicing factor 3 (SRSF3 or SRp20) being a proto-oncogene. However, the SRSF3-regulated splic...

journal_title：Nucleic acids research

authors： Ajiro M,Jia R,Yang Y,Zhu J,Zheng ZM

更新日期：2016-02-29 00:00:00

abstract：:Exposure to many endogenous and exogenous agents can give rise to DNA alkylation, which constitutes a major type of DNA damage. Among the DNA alkylation products, alkyl phosphotriesters have relatively high frequencies of occurrence and are resistant to repair in mammalian tissues. However, little is known about how t...

journal_title：Nucleic acids research

authors： Wu J,Wang P,Wang Y

更新日期：2018-05-04 00:00:00

abstract：:Human prostatic acid phosphatase (PAcP) is a prostate epithelium-specific differentiation antigen. Cellular PAcP functions as a neutral protein tyrosine phosphatase and is involved in regulating androgen-promoted prostate cancer cell proliferation. Despite the fact that the promoter of the PAcP gene has been cloned, t...

journal_title：Nucleic acids research

authors： Zelivianski S,Glowacki R,Lin MF

更新日期：2004-07-07 00:00:00

abstract：:Using a partially purified replication complex from tobacco chloroplasts, replication origins have been localized to minimal sequences of 82 (pKN8, positions 137 683-137 764) and 243 bp (pKN3, positions 130 513-130 755) for ori A and ori B respectively. Analysis of in vitro replication products by two-dimensional agar...

journal_title：Nucleic acids research

authors： Kunnimalaiyaan M,Nielsen BL

更新日期：1997-09-15 00:00:00

abstract：:In order to systematically analyze the effects of nucleoside modification of sugar moieties in DNA polymerase reactions, we synthesized 16 modified templates containing 2',4'-bridged nucleotides and three types of 2',4'-bridged nucleoside-5'-triphospates with different bridging structures. Among the five types of ther...

journal_title：Nucleic acids research

authors： Kuwahara M,Obika S,Nagashima J,Ohta Y,Suto Y,Ozaki H,Sawai H,Imanishi T

更新日期：2008-08-01 00:00:00

abstract：:Zinc finger protein with KRAB and SCAN domains 3 (ZKSCAN3) has long been known as a master transcriptional repressor of autophagy. Here, we identify a novel role for ZKSCAN3 in alleviating senescence that is independent of its autophagy-related activity. Downregulation of ZKSCAN3 is observed in aged human mesenchymal ...

journal_title：Nucleic acids research

authors： Hu H,Ji Q,Song M,Ren J,Liu Z,Wang Z,Liu X,Yan K,Hu J,Jing Y,Wang S,Zhang W,Liu GH,Qu J

更新日期：2020-06-19 00:00:00

abstract：:The essential and universal N(6)-threonylcarbamoyladenosine (t(6)A) modification at position 37 of ANN-decoding tRNAs plays a pivotal role in translational fidelity through enhancement of the cognate codon recognition and stabilization of the codon-anticodon interaction. In Escherichia coli, the YgjD (TsaD), YeaZ (Tsa...

journal_title：Nucleic acids research

authors： Zhang W,Collinet B,Perrochia L,Durand D,van Tilbeurgh H

更新日期：2015-02-18 00:00:00

abstract：:Cellular membranes feature dynamic submicrometer-scale lateral domains termed lipid rafts, membrane rafts or glycosphingolipid-enriched microdomains (GEM). Numerous proteomics studies have been conducted on the lipid raft proteome, however, interpretation of individual studies is limited by potential undefined contami...

journal_title：Nucleic acids research

authors： Mohamed A,Shah AD,Chen D,Hill MM

更新日期：2019-01-08 00:00:00

abstract：:Available evidence suggests that Mg2+ ions are involved in reactions catalyzed by hammerhead ribozymes. However, the activity in the presence of exclusively monovalent ions led us to question whether divalent metal ions really function as catalysts when they are present. We investigated ribozyme activity in the presen...

journal_title：Nucleic acids research

authors： Inoue A,Takagi Y,Taira K

更新日期：2004-08-09 00:00:00

abstract：:Solution structures of DNA duplexes containing oxanine (Oxa, O) opposite a cytosine (O:C duplex) and opposite a thymine (O:T duplex) have been solved by the combined use of (1)H NMR and restrained molecular dynamics calculation. One mismatch pair was introduced into the center of the 11-mer duplex of [d(GTGACO(6)CACTG...

journal_title：Nucleic acids research

authors： Pack SP,Morimoto H,Makino K,Tajima K,Kanaori K

更新日期：2012-02-01 00:00:00