ProTherm, Thermodynamic Database for Proteins and Mutants: developments in version 3.0.

abstract：:Replacement of alpha-, beta- and gamma-phosphate groups in 2'-deoxynucleoside 5'-triphosphates (dNTP) with phosphonate groups yields a new set of dNTP mimics with potential biological and therapeutic applications. Here, we describe the synthesis of 15 new dNTPs modified at alpha-, beta- and gamma-phosphates containing...

journal_title：Nucleic acids research

authors： Alexandrova LA,Skoblov AY,Jasko MV,Victorova LS,Krayevsky AA

更新日期：1998-02-01 00:00:00

abstract：:The signal recognition particle database (SRPDB) is located at the University of Texas Health Science Center at Tyler and includes tabulations of SRP RNA, SRP protein and SRP receptor sequences. The sequences are annotated with links to the primary databases. They are ordered alphabetically or phylogenetically and are...

journal_title：Nucleic acids research

authors： Samuelsson T,Zwieb C

更新日期：1999-01-01 00:00:00

abstract：:Each of the major U snRNP polypeptides from human cells was purified by electroelution from SDS-polyacrylamide gels. Rabbit antisera could be obtained against the individual proteins 70K, A, B', B and D, although rabbits failed to elicit antibodies against E, F and G. A strong structural homology was found between pro...

journal_title：Nucleic acids research

authors： Reuter R,Rothe S,Lührmann R

更新日期：1987-05-26 00:00:00

abstract：:Poly(ADP-ribosyl)ation regulates numerous cellular processes like genome maintenance and cell death, thus providing protective functions but also contributing to several pathological conditions. Poly(ADP-ribose) (PAR) molecules exhibit a remarkable heterogeneity in chain lengths and branching frequencies, but the biol...

journal_title：Nucleic acids research

authors： Aberle L,Krüger A,Reber JM,Lippmann M,Hufnagel M,Schmalz M,Trussina IREA,Schlesiger S,Zubel T,Schütz K,Marx A,Hartwig A,Ferrando-May E,Bürkle A,Mangerich A

更新日期：2020-10-09 00:00:00

abstract：:Present results provide direct evidence of the nature of a conformational change in DNA when nucleosomes are formed from core histones and poly [d(A-T)]. First, we have found some features which have characteristic aspects of the A like conformation of DNA. Thus, an increased contribution due to a sugar conformation c...

journal_title：Nucleic acids research

authors： Brahms S,Brahmachari SK,Angelier N,Brahms JG

更新日期：1981-10-10 00:00:00

abstract：:From a recombinant lambda phage, we have determined a 387 bp sequence containing a mouse lysine tRNA gene. The putative lys tRNA (anticodon UUU) differs from rabbit liver lys tRNA at five positions. The flanking regions of the mouse gene are not generally homologous to published human and Drosophila lys tRNA genes. Ho...

journal_title：Nucleic acids research

authors： Han JH,Harding JD

更新日期：1983-04-11 00:00:00

abstract：:Alu insertions have contributed to >11% of the human genome and ∼30-35 Alu subfamilies remain actively mobile, yet the characterization of polymorphic Alu insertions from short-read data remains a challenge. We build on existing computational methods to combine Alu detection and de novo assembly of WGS data as a means...

journal_title：Nucleic acids research

authors： Wildschutte JH,Baron A,Diroff NM,Kidd JM

更新日期：2015-12-02 00:00:00

abstract：:Two models have been proposed for triggering release of the lagging strand polymerase at the replication fork, enabling cycling to the primer for the next Okazaki fragment--either collision with the 5'-end of the preceding fragment (collision model) or synthesis of a new primer by primase (signaling model). Specific p...

journal_title：Nucleic acids research

authors： Yuan Q,McHenry CS

更新日期：2014-02-01 00:00:00

abstract：:Hepatitis B virus (HBV) replication is initiated by HBV RT binding to the highly conserved encapsidation signal, epsilon, at the 5' end of the RNA pregenome. Epsilon contains an apical stem-loop, whose residues are either totally conserved or show rare non-disruptive mutations. Here we present the structure of the api...

journal_title：Nucleic acids research

authors： Flodell S,Petersen M,Girard F,Zdunek J,Kidd-Ljunggren K,Schleucher J,Wijmenga S

更新日期：2006-01-01 00:00:00

abstract：:At either end of the nopaline Ti-plasmid T-region resides a copy of a 25 bp repeated element. The normal T-DNA endpoint is 1 bp internal of the right copy, with the transcription initiation site of the nopaline synthase (nos) gene being approximately 300 bp away in the same direction. Here we describe results which de...

journal_title：Nucleic acids research

authors： Shaw CH,Watson MD,Carter GH,Shaw CH

更新日期：1984-08-10 00:00:00

abstract：:To screen multiple loci in small purified samples of diploid and aneuploid cells a PCR-based technique of whole genome amplification was adapted to the study of somatic lesions. DNA samples from different numbers of flow-sorted diploid and aneuploid cells from biopsies were amplified with a degenerate 15mer primer. Al...

journal_title：Nucleic acids research

authors： Barrett MT,Reid BJ,Joslyn G

更新日期：1995-09-11 00:00:00

abstract：:The nucleotide sequence of the portion of a Bacillus subtilis (strain PAP115) 3 kb Pst I fragment which contains an endo-beta-1, 4-glucanase gene has been determined. This gene encodes a protein of 499 amino acid residues (Mr = 55,234) with a typical B. subtilis signal peptide. Escherichia coli which has been transfor...

journal_title：Nucleic acids research

authors： MacKay RM,Lo A,Willick G,Zuker M,Baird S,Dove M,Moranelli F,Seligy V

更新日期：1986-11-25 00:00:00

abstract：:The comprehensive multiplatform genomics data generated by The Cancer Genome Atlas (TCGA) Research Network is an enabling resource for cancer research. It includes an unprecedented amount of microRNA sequence data: ~11 000 libraries across 33 cancer types. Combined with initiatives like the National Cancer Institute G...

journal_title：Nucleic acids research

authors： Chu A,Robertson G,Brooks D,Mungall AJ,Birol I,Coope R,Ma Y,Jones S,Marra MA

更新日期：2016-01-08 00:00:00

abstract：:A new method for identifying secretory signal sequences and for predicting the site of cleavage between a signal sequence and the mature exported protein is described. The predictive accuracy is estimated to be around 75-80% for both prokaryotic and eukaryotic proteins. ...

journal_title：Nucleic acids research

authors： von Heijne G

更新日期：1986-06-11 00:00:00

abstract：:In Euplotes crassus millions of telomeres are synthesized during the sexual phase of the life cycle. Since these newly synthesized telomeres are longer than normal macronuclear telomeres, they must be trimmed to the mature size. We have examined the timing and mechanism of this trimming step. We have shown that a sudd...

journal_title：Nucleic acids research

authors： Vermeesch JR,Williams D,Price CM

更新日期：1993-11-25 00:00:00

abstract：:We have used DNase I footprinting to examine the association kinetics of GA-, GT- and CT-containing oligonucleotides with the target sequence (GGA)5GG. (CCT)5CC. These reactions are slow yielding bimolecular association rate constants between 50 and 2000 M-1s-1. We find that GT-containing oligonucleotides bind much fa...

journal_title：Nucleic acids research

authors： Paes HM,Fox KR

更新日期：1997-08-15 00:00:00

abstract：:The design and synthesis of metal complexes that can specifically target DNA secondary structure has attracted considerable attention. Chiral metallosupramolecular complexes (e.g. helicates) in particular display unique DNA-binding behavior, however until recently few examples which are both water-compatible and enant...

journal_title：Nucleic acids research

authors： Zhao A,Howson SE,Zhao C,Ren J,Scott P,Wang C,Qu X

更新日期：2017-05-19 00:00:00

abstract：:Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced by integrating multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). It is based exclusively on curated healthy wild-type expression data (e.g., no gene knock-out, no treatment, no disease...

journal_title：Nucleic acids research

authors： Bastian FB,Roux J,Niknejad A,Comte A,Fonseca Costa SS,de Farias TM,Moretti S,Parmentier G,de Laval VR,Rosikiewicz M,Wollbrett J,Echchiki A,Escoriza A,Gharib WH,Gonzales-Porta M,Jarosz Y,Laurenczy B,Moret P,Person E,

更新日期：2021-01-08 00:00:00

abstract：:REDUCE is a motif-based regression method for microarray analysis. The only required inputs are (i) a single genome-wide set of absolute or relative mRNA abundances and (ii) the DNA sequence of the regulatory region associated with each gene that is probed. Currently supported organisms are yeast, worm and fly; it is ...

journal_title：Nucleic acids research

authors： Roven C,Bussemaker HJ

更新日期：2003-07-01 00:00:00

abstract：:The 'POU' (acronym of Pit-1, Oct-1, Unc-86) family of transcription factors share a common DNA-binding domain of approximately 160 residues, comprising so-called 'POUs' and 'POUh' sub-domains connected by a flexible linker. The importance of POU proteins as developmental regulators and tumor-promoting agents is due to...

journal_title：Nucleic acids research

authors： Alazard R,Mourey L,Ebel C,Konarev PV,Petoukhov MV,Svergun DI,Erard M

更新日期：2007-01-01 00:00:00

abstract：:Studies involving ribozyme-directed inactivation of targeted RNA molecules have met with mixed success, making clear the importance of methods to measure and optimize ribozyme activity within cells. The interpretation of biochemical assays for determining ribozyme activity in the cellular environment have been complic...

journal_title：Nucleic acids research

authors： Seyhan AA,Amaral J,Burke JM

更新日期：1998-08-01 00:00:00

abstract：:RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet, the underlying mechanisms and coding requirements for efficient co-transcriptional folding remain unclear. Traditional a...

journal_title：Nucleic acids research

authors： Xayaphoummine A,Viasnoff V,Harlepp S,Isambert H

更新日期：2007-01-01 00:00:00

abstract：:Nuclear receptors for the thyroid hormone and vitamin A and D cooperate with the retinoid X receptor (RXR) in activating the transcription. Although the hormone response elements for these receptors have been proposed in which spacing of the direct repeated motifs determine the specificity (so called 3-4-5 rule), vita...

journal_title：Nucleic acids research

authors： Nishikawa J,Kitaura M,Matsumoto M,Imagawa M,Nishihara T

更新日期：1994-08-11 00:00:00

abstract：:Short oligo(deoxynucleoside phosphorothioate)s were analyzed as a pool of individual diastereomeric species. The composition of such mixtures, determined by means of HPLC, indicates that consecutive couplings in commonly used phosphoramidite chemistry lead to increasing contents of the Rp isomer. Methods of analysis a...

journal_title：Nucleic acids research

authors： Wilk A,Stec WJ

更新日期：1995-02-11 00:00:00

abstract：:PKR is a doubled-stranded RNA-dependent protein kinase which is implicated in the regulation of several cellular processes, including cell proliferation. PKR undergoes phosphorylation and activation in mouse embryonic 3T3-F442A cells in response to endogenous RNA(s). Activation of PKR is related to growth and differen...

journal_title：Nucleic acids research

authors： Petryshyn RA,Ferrenz AG,Li J

更新日期：1997-07-01 00:00:00

abstract：:Mismatch repair is a highly conserved cellular pathway responsible for repairing mismatched dsDNA. Errors are detected by the MutS enzyme, which most likely senses altered mechanical property of damaged dsDNA rather than a specific molecular pattern. While the curved shape of dsDNA in crystallographic MutS/DNA structu...

journal_title：Nucleic acids research

authors： Bouchal T,Durník I,Illík V,Réblová K,Kulhánek P

更新日期：2020-11-18 00:00:00

abstract：:The reaction of fluorescamine with primary amino groups of tRNAs was investigated. The reagent was attached under mild conditions to the 3'-end of tRNAPhe-C-C-A(3'NH) from yeast and to the minor nucleoside x in E. coli tRNAArg, tRNALys, tRNAMet, tRNAIle and tRNAPhe. The primary aliphatic amino groups of these tRNAs re...

journal_title：Nucleic acids research

authors： Sprinzl M,Faulhammer HG

更新日期：1978-12-01 00:00:00

abstract：:Proteins engage in highly selective interactions with their macromolecular partners. Sequence variants that alter protein binding affinity may cause significant perturbations or complete abolishment of function, potentially leading to diseases. There exists a persistent need to develop a mechanistic understanding of i...

journal_title：Nucleic acids research

authors： Li M,Simonetti FL,Goncearenco A,Panchenko AR

更新日期：2016-07-08 00:00:00

abstract：:The binding of two symmetric bis-benzimidazole compounds, 2,2-bis-[4'-(3"-dimethylamino-1"-propyloxy)phenyl]-5,5-bi-1H-benzimidazole and its piperidinpropylphenyl analog, to the minor groove of DNA, have been studied by DNA footprinting, surface plasmon resonance (SPR) methods and molecular dynamics simulations in exp...

journal_title：Nucleic acids research

authors： Bailly C,Chessari G,Carrasco C,Joubert A,Mann J,Wilson WD,Neidle S

更新日期：2003-03-01 00:00:00

abstract：:NMR data from different experiments often contain errors; thus, automated backbone resonance assignment is a very challenging issue. In this paper, we present a method called GANA that uses a genetic algorithm to automatically perform backbone resonance assignment with a high degree of precision and recall. Precision ...

journal_title：Nucleic acids research

authors： Lin HN,Wu KP,Chang JM,Sung TY,Hsu WL

更新日期：2005-08-10 00:00:00