Ordered processing of Escherichia coli 23S rRNA in vitro.

abstract：:The Homeodomain Resource is a comprehensive collection of sequence, structure and genomic information on the homeodomain protein family. Available through the Resource are both full-length and domain-only sequence data, as well as X-ray and NMR structural data for proteins and protein-DNA complexes. Also available is ...

journal_title：Nucleic acids research

authors： Banerjee-Basu S,Ferlanti ES,Ryan JF,Baxevanis AD

更新日期：1999-01-01 00:00:00

abstract：:The PRISM web server enables fast and accurate prediction of protein-protein interactions (PPIs). The prediction algorithm is knowledge-based. It combines structural similarity and accounts for evolutionary conservation in the template interfaces. The predicted models are stored in its repository. Given two protein st...

journal_title：Nucleic acids research

authors： Baspinar A,Cukuroglu E,Nussinov R,Keskin O,Gursoy A

更新日期：2014-07-01 00:00:00

abstract：:A very high rate of multidrug resistance (MDR) seen among Gram-negative bacteria such as Escherichia, Klebsiella, Salmonella, Shigella, etc. is a major threat to public health and safety. One of the major virulent determinants of Gram-negative bacteria is capsular polysaccharide or K antigen located on the bacterial o...

journal_title：Nucleic acids research

authors： Kunduru BR,Nair SA,Rathinavelan T

更新日期：2016-01-04 00:00:00

abstract：:Yaf9 is an integral part of the NuA4 acetyltransferase and the SWR1 chromatin remodeling complexes. Here, we show that Yaf9 associates with acetylated histone H3 with high preference for H3K27ac. The crystal structure of the Yaf9 YEATS domain bound to the H3K27ac peptide reveals that the sequence C-terminal to K27ac s...

journal_title：Nucleic acids research

authors： Klein BJ,Ahmad S,Vann KR,Andrews FH,Mayo ZA,Bourriquen G,Bridgers JB,Zhang J,Strahl BD,Côté J,Kutateladze TG

更新日期：2018-01-09 00:00:00

abstract：:The kinetics of PaeR7 endonuclease-catalysed cleavage reactions of fluorophor-labeled oligonucleotide substrates have been examined using fluorescence resonance energy transfer (FRET). A series of duplex substrates were synthesized with an internal CTCGAG PaeR7 recognition site and donor (fluorescein) and acceptor (rh...

journal_title：Nucleic acids research

authors： Ghosh SS,Eis PS,Blumeyer K,Fearon K,Millar DP

更新日期：1994-08-11 00:00:00

abstract：:The CRISPR/Cas adaptive immune system provides resistance against phages and plasmids in Archaea and Bacteria. CRISPR loci integrate short DNA sequences from invading genetic elements that provide small RNA-mediated interference in subsequent exposure to matching nucleic acids. In Streptococcus thermophilus, it was pr...

journal_title：Nucleic acids research

authors： Sapranauskas R,Gasiunas G,Fremaux C,Barrangou R,Horvath P,Siksnys V

更新日期：2011-11-01 00:00:00

abstract：:The sequences coding for DNA[cytosine-N4]methyltransferases MvaI (from Micrococcus varians RFL19) and Cfr9I (from Citrobacter freundii RFL9) have been determined. The predicted methylases are proteins of 454 and 300 amino acids, respectively. Primary structure comparison of M.Cfr9I and another m4C-forming methylase, M...

journal_title：Nucleic acids research

authors： Klimasauskas S,Timinskas A,Menkevicius S,Butkienè D,Butkus V,Janulaitis A

更新日期：1989-12-11 00:00:00

abstract：:Initiation of σ(54)-dependent transcription requires assistance to melt DNA at the promoter site but is impeded by numerous protein-protein and nucleo-protein interactions. To alleviate these inhibitory interactions, hexameric bacterial enhancer binding proteins (bEBP), a subset of the ATPases associated with various ...

journal_title：Nucleic acids research

authors： Zhang N,Joly N,Buck M

更新日期：2012-10-01 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

authors： Newman TJ,Mamun MA,Nieduszynski CA,Blow JJ

更新日期：2013-11-01 00:00:00

abstract：:Mutations in the gene of human RNase T2 are associated with white matter disease of the human brain. Although brain abnormalities (bilateral temporal lobe cysts and multifocal white matter lesions) and clinical symptoms (psychomotor impairments, spasticity and epilepsy) are well characterized, the pathomechanism of RN...

journal_title：Nucleic acids research

authors： Thorn A,Steinfeld R,Ziegenbein M,Grapp M,Hsiao HH,Urlaub H,Sheldrick GM,Gärtner J,Krätzner R

更新日期：2012-09-01 00:00:00

abstract：:In mammalian cells, DNA double-strand breaks (DSBs) are repaired by three pathways, nonhomologous end-joining (NHEJ), gene conversion (GC) and single-strand annealing (SSA). These pathways are distinct with regard to repair efficiency and mutagenic potential and must be tightly controlled to preserve viability and gen...

journal_title：Nucleic acids research

authors： Mansour WY,Schumacher S,Rosskopf R,Rhein T,Schmidt-Petersen F,Gatzemeier F,Haag F,Borgmann K,Willers H,Dahm-Daphi J

更新日期：2008-07-01 00:00:00

abstract：:While most of the recent improvements in multiple sequence alignment accuracy are due to better use of vertical information, which include the incorporation of consistency-based pairwise alignments and the use of profile alignments, we observe that it is possible to further improve accuracy by taking into account alig...

journal_title：Nucleic acids research

authors： Lu Y,Sze SH

更新日期：2009-02-01 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：:DNA and RNA guanine-quadruplexes (G4s) are stabilized by several cations, in particular by potassium and sodium ions. Generally, potassium stabilizes guanine-quartet assemblies to a larger extent than sodium; in this article we report about a higher-order G4 structure more stable in sodium than in potassium. Repeats o...

journal_title：Nucleic acids research

authors： Saintomé C,Amrane S,Mergny JL,Alberti P

更新日期：2016-04-07 00:00:00

abstract：:In the presence of S-adenosyl methionine the 5' terminal guanosine residue of in vitro synthesized reovirus mRNA becomes methylated at the 2'-OH position. In addition, 7-methyl guanylic acid is condensed covalently at the 5' terminus resulting in the formation of a 5' to 5' triphosphate bridge. Analysis of the 5' term...

journal_title：Nucleic acids research

authors： Faust M,Hastings KE,Millward S

更新日期：1975-08-01 00:00:00

abstract：:Several lines of evidence indicate that differences in DNA repair capacity are an important source of variability in cancer risk. However, traditional assays for measurement of DNA repair activity in human samples are laborious and time-consuming. DNA glycosylases are the first step in base excision repair of a variet...

journal_title：Nucleic acids research

authors： Collini M,Caccia M,Chirico G,Barone F,Dogliotti E,Mazzei F

更新日期：2005-10-21 00:00:00

abstract：:TcruziDB (http://TcruziDB.org) is an integrated genome database for the parasitic organism Trypanosoma cruzi, the causative agent of Chagas' disease. The database currently incorporates all available sequence data (Genomic, BAC, EST) in a single user-friendly location. The database contains a variety of tools specific...

journal_title：Nucleic acids research

authors： Luchtan M,Warade C,Weatherly DB,Degrave WM,Tarleton RL,Kissinger JC

更新日期：2004-01-01 00:00:00

abstract：:ArrayExpress is a public repository for microarray data that supports the MIAME (Minimum Information About a Microarray Experiment) requirements and stores well-annotated raw and normalized data. As of November 2004, ArrayExpress contains data from approximately 12,000 hybridizations covering 35 species. Data can be s...

journal_title：Nucleic acids research

authors： Parkinson H,Sarkans U,Shojatalab M,Abeygunawardena N,Contrino S,Coulson R,Farne A,Lara GG,Holloway E,Kapushesky M,Lilja P,Mukherjee G,Oezcimen A,Rayner T,Rocca-Serra P,Sharma A,Sansone S,Brazma A

更新日期：2005-01-01 00:00:00

abstract：:Chewie Nomenclature Server (chewie-NS, https://chewbbaca.online/) allows users to share genome-based gene-by-gene typing schemas and to maintain a common nomenclature, simplifying the comparison of results. The combination between local analyses and a public repository of allelic data strikes a balance between potenti...

journal_title：Nucleic acids research

authors： Mamede R,Vila-Cerqueira P,Silva M,Carriço JA,Ramirez M

更新日期：2021-01-08 00:00:00

abstract：:An important problem in genomics is automatically clustering homologous proteins when only sequence information is available. Most methods for clustering proteins are local, and are based on simply thresholding a measure related to sequence distance. We first show how locality limits the performance of such methods by...

journal_title：Nucleic acids research

authors： Paccanaro A,Casbon JA,Saqi MA

更新日期：2006-03-17 00:00:00

abstract：:Giant viruses have extraordinarily large dsDNA genomes, and exceptionally, they encode various components of the translation apparatus, including tRNAs, aminoacyl-tRNA synthetases and translation factors. Here, we focused on the elongation factor 1 (EF1) family of viral translational GTPases (trGTPases), using computa...

journal_title：Nucleic acids research

authors： Zinoviev A,Kuroha K,Pestova TV,Hellen CUT

更新日期：2019-06-20 00:00:00

abstract：:The advent of RNA-sequencing and microarray technologies has led to rapid growth of transcriptome data generated for a wide range of organisms, under various cellular, organ and individual conditions. Since the number of possible combinations of intercellular and extracellular conditions is almost unlimited, catalogin...

journal_title：Nucleic acids research

authors： Obayashi T,Kagaya Y,Aoki Y,Tadaka S,Kinoshita K

更新日期：2019-01-08 00:00:00

abstract：:Murine embryonic stem (ES) cells are commonly cultured on feeder layers of primary murine embryonic fibroblasts (MEFs). Because gene targeting experiments often involve sequential selection for multiple-drug resistance in single ES cell lines, we have developed a new mouse strain which represents an economical donor f...

journal_title：Nucleic acids research

authors： Tucker KL,Wang Y,Dausman J,Jaenisch R

更新日期：1997-09-15 00:00:00

abstract：:Southern blot analyses using reduced stringency hybridization conditions have been employed to search for sequence homologies between rodent VL30 genes and murine leukemia virus (MuLV) proviruses. These constitute two classes of transposon-like elements previously believed to be genetically unrelated. Our results demo...

journal_title：Nucleic acids research

authors： Giri CP,Hodgson CP,Elder PK,Courtney MG,Getz MJ

更新日期：1983-01-25 00:00:00

abstract：:A cDNA (2855 nt) encoding a putative cytotoxic ribonuclease (rapLR1) related to the antitumor protein onconase was cloned from a library derived from the liver of gravid female amphibian Rana pipiens. The cDNA was mainly comprised (83%) of 3' untranslated region (UTR). Secondary structure analysis predicted two unusua...

journal_title：Nucleic acids research

authors： Chen S,Le SY,Newton DL,Maizel JV Jr,Rybak SM

更新日期：2000-06-15 00:00:00

abstract：:A small library of 49 peptide-oligonucleotide conjugates were synthesized to explore the influence of various peptide side chains on the hybridization properties of the DNA. An invariant 8mer oligonucleotide was coupled to a peptide portion that contained a five residue variable region composed of the cationic amino a...

journal_title：Nucleic acids research

authors： Harrison JG,Balasubramanian S

更新日期：1998-07-01 00:00:00

abstract：:RNA polymerase III recognizes and pauses at its terminator, an oligo(dT) tract in non-template DNA, terminates 3' oligo(rU) synthesis within this sequence, and releases the RNA. The pol III subunit Rpc11p (C11) mediates RNA 3'-5' cleavage in the catalytic center of pol III during pausing. The amino and carboxyl region...

journal_title：Nucleic acids research

authors： Iben JR,Mazeika JK,Hasson S,Rijal K,Arimbasseri AG,Russo AN,Maraia RJ

更新日期：2011-08-01 00:00:00

abstract：:Reconstructing full-length transcript isoforms from sequence fragments (such as ESTs) is a major interest and challenge for bioinformatic analysis of pre-mRNA alternative splicing. This problem has been formulated as finding traversals across the splice graph, which is a directed acyclic graph (DAG) representation of ...

journal_title：Nucleic acids research

authors： Xing Y,Yu T,Wu YN,Roy M,Kim J,Lee C

更新日期：2006-06-06 00:00:00

abstract：:The nucleotide sequence of Neurospora crassa 5.8 S rDNA and adjacent regions has been determined. The deduced 5.8 S rRNA sequence of Neurospora differs from the 5.8 S rRNA sequence of Saccharomyces cerevisiae at 13 of 158 residues. Nine of these differences are clustered in a segment capable of forming a short hairpin...

journal_title：Nucleic acids research

authors： Selker E,Yanofsky C

更新日期：1979-06-11 00:00:00

abstract：:RNA can directly bind to purine-rich DNA via Hoogsteen base pairing, forming a DNA:RNA triple helical structure that anchors the RNA to specific sequences and allows guiding of transcription regulators to distinct genomic loci. To unravel the prevalence of DNA:RNA triplexes in living cells, we have established a fast ...

journal_title：Nucleic acids research

authors： Sentürk Cetin N,Kuo CC,Ribarska T,Li R,Costa IG,Grummt I

更新日期：2019-03-18 00:00:00