Importance of base-pair opening for mismatch recognition.

abstract：:Escherichia coli Exonuclease I (ExoI) digests single-stranded DNA (ssDNA) in the 3'-5' direction in a highly processive manner. The crystal structure of ExoI, determined previously in the absence of DNA, revealed a C-shaped molecule with three domains that form a central positively charged groove. The active site is a...

journal_title：Nucleic acids research

authors： Korada SK,Johns TD,Smith CE,Jones ND,McCabe KA,Bell CE

更新日期：2013-06-01 00:00:00

abstract：:HORMA domain-containing proteins (HORMADs) play an essential role in meiosis in many organisms. The meiotic HORMADs, including yeast Hop1, mouse HORMAD1 and HORMAD2, and Arabidopsis ASY1, assemble along chromosomes at early prophase and the closure motif at their C-termini has been hypothesized to be instrumental for ...

journal_title：Nucleic acids research

authors： Yang C,Hu B,Portheine SM,Chuenban P,Schnittger A

更新日期：2020-11-18 00:00:00

abstract：:This study unveils Mycobacterium smegmatis DinB2 as the founder of a clade of Y-family DNA polymerase that is naturally adept at incorporating ribonucleotides by virtue of a leucine in lieu of a canonical aromatic steric gate. DinB2 efficiently scavenges limiting dNTP and rNTP substrates in the presence of manganese. ...

journal_title：Nucleic acids research

authors： Ordonez H,Uson ML,Shuman S

更新日期：2014-01-01 00:00:00

abstract：:A microchip method has been developed for massive and parallel thermodynamic analyses of DNA duplexes. Fluorescently labeled oligonucleotides were hybridized with oligonucleotides immobilized in the 100 x 100 x 20 mum gel pads of the microchips. The equilibrium melting curves for all microchip duplexes were measured i...

journal_title：Nucleic acids research

authors： Fotin AV,Drobyshev AL,Proudnikov DY,Perov AN,Mirzabekov AD

更新日期：1998-03-15 00:00:00

abstract：:Archaeal family-B DNA polymerases bind tightly to deaminated bases and stall replication on encountering uracil in template strands, four bases ahead of the primer-template junction. Should the polymerase progress further towards the uracil, for example, to position uracil only two bases in front of the junction, 3'-5...

journal_title：Nucleic acids research

authors： Richardson TT,Wu X,Keith BJ,Heslop P,Jones AC,Connolly BA

更新日期：2013-02-01 00:00:00

abstract：:Reverse transcription in retroviruses and retrotransposons requires nucleic acid chaperones, which drive the rearrangement of nucleic acid conformation. The nucleic acid chaperone properties of the human immunodeficiency virus type-1 (HIV-1) nucleocapsid (NC) protein have been extensively studied, and nucleic acid agg...

journal_title：Nucleic acids research

authors： Chaurasiya KR,Geertsema H,Cristofari G,Darlix JL,Williams MC

更新日期：2012-01-01 00:00:00

abstract：:The histone methyl transferase Suv39H1 is involved in silencing by pericentric heterochromatin. It specifically methylates K9 of histone H3, thereby creating a high affinity binding site for HP1 proteins. We and others have shown recently that it is also involved in transcriptional repression by the retinoblastoma pro...

journal_title：Nucleic acids research

authors： Vaute O,Nicolas E,Vandel L,Trouche D

更新日期：2002-01-15 00:00:00

abstract：:Organisms growing at elevated temperatures face the challenge of maintaining the integrity of their genetic materials. Archaea possess unique chromatin proteins for gene organization and information processing. We present the solution structure of Sso7c4 from Sulfolobus solfataricus, which has a homodimeric DNA-bindin...

journal_title：Nucleic acids research

authors： Hsu CH,Wang AH

更新日期：2011-08-01 00:00:00

abstract：:A class II site-specific endodeoxyribonuclease (SalPI) was identified in cell-free extracts of Streptomyces albus CMI 52766 after high speed centrifugation and fractionation through Bio Gel AO.5M. SalPI cleaves lambda DNA into at least 18 fragments. Five cleavage sites were located in the linear lambda map by the use ...

journal_title：Nucleic acids research

authors： Chater KF

更新日期：1977-06-01 00:00:00

abstract：:The glycoprotein C (gC) gene of herpes simplex virus type 1 is a true late gene, in that its expression occurs late in infection with a strict requirement for viral DNA replication. Recently, we reported on gC expression during infection with mutant viruses carrying deletions in the gC gene promoter. Analysis of RNA e...

journal_title：Nucleic acids research

authors： Shapira M,Homa FL,Glorioso JC,Levine M

更新日期：1987-04-10 00:00:00

abstract：:Three Rat1/Xrn2 homologues exist in Arabidopsis thaliana: nuclear AtXRN2 and AtXRN3, and cytoplasmic AtXRN4. The latter has a role in degrading 3' products of miRNA-mediated mRNA cleavage, whereas all three proteins act as endogenous post-transcriptional gene silencing suppressors. Here we show that, similar to yeast ...

journal_title：Nucleic acids research

authors： Zakrzewska-Placzek M,Souret FF,Sobczyk GJ,Green PJ,Kufel J

更新日期：2010-07-01 00:00:00

abstract：:Translation initiation of eukaryotic mRNAs generally occurs by cap-dependent ribosome scanning. However, certain mRNAs contain internal ribosome entry sites (IRES) allowing cap-independent translation. Several of these IRES-competent transcripts and their corresponding proteins are involved in tumourigenesis. This stu...

journal_title：Nucleic acids research

authors： Petz M,Kozina D,Huber H,Siwiec T,Seipelt J,Sommergruber W,Mikulits W

更新日期：2007-01-01 00:00:00

abstract：:In testis mRNA stability and translation initiation are extensively under the control of poly(A)-binding proteins (PABP). Here we have cloned a new human testis-specific PABP (PABP3) of 631 amino acids (70.1 kDa) with 92.5% identical residues to the ubiquitous PABP1. A northern blot of multiple human tissues hybridise...

journal_title：Nucleic acids research

authors： Féral C,Guellaën G,Pawlak A

更新日期：2001-05-01 00:00:00

abstract：:I show that the recognition sequences of Type II restriction systems are correlated with the G + C content of the host bacterial DNA. Almost all restriction systems with G + C rich tetranucleotide recognition sequences are found in species with A + T rich genomes, whereas G + C rich hexanucleotide and octanucleotide r...

journal_title：Nucleic acids research

authors： McClelland M

更新日期：1988-03-25 00:00:00

abstract：:Puromycin, an analog of the 3' end of aminoacyl-tRNA, causes premature termination of translation by being linked non-specifically to growing polypeptide chains. Here we report the interesting phenomenon that puromycin acting as a non-inhibitor at very low concentration (e.g. 0.04 microM) can bond only to full-length ...

journal_title：Nucleic acids research

authors： Miyamoto-Sato E,Nemoto N,Kobayashi K,Yanagawa H

更新日期：2000-03-01 00:00:00

abstract：:We identify a new subgroup of Type I Restriction-Modification enzymes that modify cytosine in one DNA strand and adenine in the opposite strand for host protection. Recognition specificity has been determined for ten systems using SMRT sequencing and each recognizes a novel DNA sequence motif. Previously characterized...

journal_title：Nucleic acids research

authors： Morgan RD,Luyten YA,Johnson SA,Clough EM,Clark TA,Roberts RJ

更新日期：2016-11-02 00:00:00

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

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

更新日期：2000-06-15 00:00:00

abstract：:The current pandemic situation caused by the Betacoronavirus SARS-CoV-2 (SCoV2) highlights the need for coordinated research to combat COVID-19. A particularly important aspect is the development of medication. In addition to viral proteins, structured RNA elements represent a potent alternative as drug targets. The s...

journal_title：Nucleic acids research

authors： Wacker A,Weigand JE,Akabayov SR,Altincekic N,Bains JK,Banijamali E,Binas O,Castillo-Martinez J,Cetiner E,Ceylan B,Chiu LY,Davila-Calderon J,Dhamotharan K,Duchardt-Ferner E,Ferner J,Frydman L,Fürtig B,Gallego J,Grün JT

更新日期：2020-12-16 00:00:00

abstract：:Sas2p is a histone acetyltransferase implicated in the regulation of transcriptional silencing, and ORC is the six-subunit origin recognition complex involved in the initiation of DNA replication and the establishment of transcriptionally silent chromatin by silencers in yeast. We show here that SAS2 deletion (sas2Del...

journal_title：Nucleic acids research

authors： Zou Y,Bi X

更新日期：2008-09-01 00:00:00

abstract：:In phytohemagglutinin stimulated human lymphocytes the time relationship was determined between induction of the parameters mentioned. The results indicate that the induction occurred in a specific sequence. Thus, a simultaneous increase in the activity of DNA polymerase and thymidinekinase occurred after 15 h of incu...

journal_title：Nucleic acids research

authors： Tyrsted G,Munch-Petersen B

更新日期：1977-08-01 00:00:00

abstract：:Clustered damages are formed in DNA by ionising radiation and radiomimetic anticancer agents and are thought to be biologically severe. 7,8-dihydro-8-oxoguanine (8-oxoG), a major DNA damage resulting from oxidative attack, is highly mutagenic leading to a high level of G.C-->T.A transversions if not previously excised...

journal_title：Nucleic acids research

authors： David-Cordonnier MH,Boiteux S,O'Neill P

更新日期：2001-03-01 00:00:00

abstract：:Post-translational modifications (PTMs) play a key role in numerous cellular processes by directly affecting structure, dynamics and interaction networks of target proteins. Despite their importance, our understanding of protein PTMs at the atomistic level is still largely incomplete. Molecular dynamics (MD) simulatio...

journal_title：Nucleic acids research

authors： Margreitter C,Petrov D,Zagrovic B

更新日期：2013-07-01 00:00:00

abstract：:Apolipoprotein B (apoB) is a major protein component of low density and very low density lipoproteins. Because of its large size and heterogeneity, molecular studies of apoB have been difficult, and its structure and regulation remain poorly understood. We now report the identification of human apoB cDNA clones by ant...

journal_title：Nucleic acids research

authors： Mehrabian M,Schumaker VN,Fareed GC,West R,Johnson DF,Kirchgessner T,Lin HC,Wang XB,Ma YH,Mendiaz E

更新日期：1985-10-11 00:00:00

abstract：:PrimPol is a primase-polymerase involved in nuclear and mitochondrial DNA replication in eukaryotic cells. Although PrimPol is predicted to possess an archaeo-eukaryotic primase and a UL52-like zinc finger domain, the role of these domains has not been established. Here, we report that the proposed zinc finger domain ...

journal_title：Nucleic acids research

authors： Keen BA,Jozwiakowski SK,Bailey LJ,Bianchi J,Doherty AJ

更新日期：2014-05-01 00:00:00

abstract：:We have previously identified a T lymphocyte protein which binds to a site within the LTR of the human immunodeficiency virus type 1 (HIV-1) and exerts an inhibitory effect on virus gene expression. The palindromic site (site B) recognized by this protein is related to the palindromic binding sites of members of the s...

journal_title：Nucleic acids research

authors： Orchard K,Lang G,Collins M,Latchman D

更新日期：1992-10-25 00:00:00

abstract：:A growing body of evidence suggests that siRNA could generate off-target effects through different mechanisms. However, the full impact of off-target gene regulation on phenotypic induction and accordingly on data interpretation in the context of large-scale siRNA library screen has not been reported. Here we report o...

journal_title：Nucleic acids research

authors： Lin X,Ruan X,Anderson MG,McDowell JA,Kroeger PE,Fesik SW,Shen Y

更新日期：2005-08-09 00:00:00

abstract：:Allosteric nucleic acid ligases have been used previously to transform analyte-binding into the formation of oligonucleotide templates that can be amplified and detected. We have engineered binary deoxyribozyme ligases whose two components are brought together by bridging oligonucleotide effectors. The engineered liga...

journal_title：Nucleic acids research

authors： Tabor JJ,Levy M,Ellington AD

更新日期：2006-04-28 00:00:00

abstract：:Many microRNAs (miRNAs) are co-regulated during the same physiological process but the underlying cellular logic is often little understood. The conserved, immunomodulatory miRNAs miR-146 and miR-155, for instance, are co-induced in many cell types in response to microbial lipopolysaccharide (LPS) to feedback-repress ...

journal_title：Nucleic acids research

authors： Schulte LN,Westermann AJ,Vogel J

更新日期：2013-01-07 00:00:00

abstract：:The Chemical Effects in Biological Systems database (CEBS) is a comprehensive and unique toxicology resource that compiles individual and summary animal data from the National Toxicology Program (NTP) testing program and other depositors into a single electronic repository. CEBS has undergone significant updates in re...

journal_title：Nucleic acids research

authors： Lea IA,Gong H,Paleja A,Rashid A,Fostel J

更新日期：2017-01-04 00:00:00

abstract：:The translational regulation of ferritin expression currently represents the only well characterized example for eukaryotic translational control by high affinity interactions between a specific cytoplasmic protein, iron regulatory factor [IRF], and an mRNA-binding site, the iron-responsive element [IRE], located in t...

journal_title：Nucleic acids research

authors： Stripecke R,Hentze MW

更新日期：1992-11-11 00:00:00