MutaBind estimates and interprets the effects of sequence variants on protein-protein interactions.

abstract：:We have developed a comprehensive resource devoted to biologists wanting to optimize the use of gene trap clones in their experiments. We have processed 300 602 such clones from both public and private projects to generate 28,199 'UniTraps', i.e. distinct collections of unambiguous insertions at the same subgenic regi...

journal_title：Nucleic acids research

authors： Roma G,Sardiello M,Cobellis G,Cruz P,Lago G,Sanges R,Stupka E

更新日期：2008-01-01 00:00:00

abstract：:Cisplatin analogues were synthesised that consisted of platinum(II) diamine complexes tethered via a polymethylene chain ( n = 3, 5, 8 and 10) to a phenanthridinium cation. Both chloro and iodo leaving groups were examined. DNA adduct formation was quantitatively analysed using a linear amplification system with the p...

journal_title：Nucleic acids research

authors： Whittaker J,McFadyen WD,Wickham G,Wakelin LP,Murray V

更新日期：1998-09-01 00:00:00

abstract：:Chelation of divalent cations by 5 mM EDTA and subsequent removal by dialysis from a cytoplasmic HeLa cell extract leads to a complete loss of 5S rRNA transcription without affecting tRNA synthesis. Transcription complexes for 5S RNA can no longer be assembled in such a zinc-depleted extract and this ability can be fu...

journal_title：Nucleic acids research

authors： Wingender E,Dilloo D,Seifart KH

更新日期：1984-12-11 00:00:00

abstract：:We have identified cDNAs encoding Mel-N1, the mouse homologue of a human nervous system-specific RNA-binding protein, Hel-N1. Two major mRNA transcripts of Mel-N1 were detected predominantly in the adult mouse brain by Northern blot analysis. To gain insight into the RNA binding specificity of Mel-N1, we performed ite...

journal_title：Nucleic acids research

authors： Abe R,Yamamoto K,Sakamoto H

更新日期：1996-06-01 00:00:00

abstract：:Mitochondrial DNA maintenance and segregation are dependent on the actin cytoskeleton in budding yeast. We found two cytoskeletal proteins among six proteins tightly associated with rat liver mitochondrial DNA: non-muscle myosin heavy chain IIA and β-actin. In human cells, transient gene silencing of MYH9 (encoding no...

journal_title：Nucleic acids research

authors： Reyes A,He J,Mao CC,Bailey LJ,Di Re M,Sembongi H,Kazak L,Dzionek K,Holmes JB,Cluett TJ,Harbour ME,Fearnley IM,Crouch RJ,Conti MA,Adelstein RS,Walker JE,Holt IJ

更新日期：2011-07-01 00:00:00

abstract：:Besides the nicking-closing (topoisomerase I) activity, an ATP-dependent DNA topoisomerase is present in rat liver nuclei. The enzyme, partially purified, is able to catenate in vitro closed DNA circles in a magnesium-dependent, ATP-dependent, histone H1-dependent reaction, and to decatenate in vitro kinetoplast DNA n...

journal_title：Nucleic acids research

authors： Duguet M,Lavenot C,Harper F,Mirambeau G,De Recondo AM

更新日期：1983-02-25 00:00:00

abstract：:The development of genetic switches and their integrated forms (genetic circuits) with desired specifications/functions is key for success in synthetic biology. Due to the difficulty in rational design, genetic switches and circuits with desirable specifications are mostly obtained by directed evolution. Based on a vi...

journal_title：Nucleic acids research

authors： Tashiro Y,Fukutomi H,Terakubo K,Saito K,Umeno D

更新日期：2011-02-01 00:00:00

abstract：:Zinc fingers are small protein domains in which zinc plays a structural role contributing to the stability of the domain. Zinc fingers are structurally diverse and are present among proteins that perform a broad range of functions in various cellular processes, such as replication and repair, transcription and transla...

journal_title：Nucleic acids research

authors： Krishna SS,Majumdar I,Grishin NV

更新日期：2003-01-15 00:00:00

abstract：:Various environmental oxidative stresses are sensed by redox-sensitive regulators through cysteine thiol oxidation or modification. A few zinc-containing anti-sigma (ZAS) factors in actinomycetes have been reported to respond sensitively to thiol oxidation, among which RsrA from Streptomyces coelicolor is best charact...

journal_title：Nucleic acids research

authors： Jung YG,Cho YB,Kim MS,Yoo JS,Hong SH,Roe JH

更新日期：2011-09-01 00:00:00

abstract：:Ditercalinium, an antitumor bifunctional intercalator which forms a high affinity reversible complex with DNA, was found to be specifically cytotoxic for polA and lig7 E. coli strains. In the polA strain, the cytotoxic effect of ditercalinium was suppressed by the uvrA mutation. DNA single strand breaks accumulated in...

journal_title：Nucleic acids research

authors： Lambert B,Roques BP,Le Pecq JB

更新日期：1988-02-11 00:00:00

abstract：:Using two primers corresponding to helix 1 and helix 3 regions in the homeodomain, we subjected genomic DNA from Caenorhabditis elegans to amplification by the polymerase chain reaction. Sequence analysis of the amplified products revealed a new homeobox-containing gene, designated ceh-19. This gene was located betwee...

journal_title：Nucleic acids research

authors： Naito M,Kohara Y,Kurosawa Y

更新日期：1992-06-25 00:00:00

abstract：:Ribotoxins are potent inhibitors of protein biosynthesis and inactivate ribosomes from a variety of organisms. The ribotoxin alpha-sarcin cleaves the large 23S ribosomal RNA (rRNA) at the universally conserved sarcin-ricin loop (SRL) leading to complete inactivation of the ribosome and cellular death. The SRL interact...

journal_title：Nucleic acids research

authors： García-Ortega L,Alvarez-García E,Gavilanes JG,Martínez-del-Pozo A,Joseph S

更新日期：2010-07-01 00:00:00

abstract：:The laminin (LM)-database, hosted at http://www.lm.lncc.br, was published in the NAR database 2011 edition. It was the first database that provided comprehensive information concerning a non-collagenous family of extracellular matrix proteins, the LMs. In its first version, this database contained a large amount of in...

journal_title：Nucleic acids research

authors： Golbert DC,Santana-van-Vliet E,Mundstein AS,Calfo V,Savino W,de Vasconcelos AT

更新日期：2014-01-01 00:00:00

abstract：:RNase D was recently reported as a new enzymatic activity associated with HIV-1 reverse transcriptase (RT), cleaving RNA at two positions within the double-stranded region of the tRNA primer-viral RNA template complex (Ben-Artzi et al., Proc. Natl. Acad. Sci. USA 89 (1992) 927-931). This would make RNase D a fourth di...

journal_title：Nucleic acids research

authors： Hostomsky Z,Hudson GO,Rahmati S,Hostomska Z

更新日期：1992-11-11 00:00:00

abstract：:We show that using low denaturation temperatures (80-88 degrees C) during ligation mediated PCR (LM PCR) of bacterial DNA leads to the amplification of limited sets of the less stable DNA fragments. A set of electrophoretic patterns of such fragments obtained at different denaturation temperatures forms the PCR meltin...

journal_title：Nucleic acids research

authors： Masny A,Płucienniczak A

更新日期：2003-09-15 00:00:00

abstract：:The E3 ubiquitin ligase HUWE1/Mule/ARF-BP1 plays an important role in integrating/coordinating diverse cellular processes such as DNA damage repair and apoptosis. A previous study has shown that HUWE1 is required for the early step of DNA damage-induced apoptosis, by targeting MCL-1 for proteasomal degradation. Howeve...

journal_title：Nucleic acids research

authors： Yi J,Lu G,Li L,Wang X,Cao L,Lin M,Zhang S,Shao G

更新日期：2015-05-19 00:00:00

abstract：:Numerous potential ligand-binding sites are available today, along with hundreds of thousands of known binding sites observed in the PDB. Exhaustive similarity search for such vastly numerous binding site pairs is useful to predict protein functions and to enable rapid screening of target proteins for drug design. Exi...

journal_title：Nucleic acids research

authors： Ito J,Tabei Y,Shimizu K,Tsuda K,Tomii K

更新日期：2012-01-01 00:00:00

abstract：:Micrococcal nuclease has been shown to preferentially cleave chromatin in the region of genes actively engaged in transcription. We have used this preferential cleavage to show that the metallothionein (MT) gene in adult mouse liver, when induced to produce mRNA by injection of cadmium, becomes more susceptible to nuc...

journal_title：Nucleic acids research

authors： Koropatnick J,Andrews G,Duerksen JD,Varshney U,Gedamu L

更新日期：1983-05-25 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：:Post-translational modifications (PTMs) regulate many aspects of protein function and are indispensable for the spatio-temporal regulation of cellular processes. The proteome-wide identification of PTM targets has made significant progress in recent years, as has the characterization of their writers, readers, modifie...

journal_title：Nucleic acids research

authors： Teloni F,Altmeyer M

更新日期：2016-02-18 00:00:00

abstract：:An updated compilation of 300 E. coli mRNA promoter sequences is presented. For each sequence the most recent relevant paper was checked, to verify the location of the transcriptional start position as identified experimentally. We comment on the reliability of the sequence databanks and analyze the conservation of kn...

journal_title：Nucleic acids research

authors： Lisser S,Margalit H

更新日期：1993-04-11 00:00:00

abstract：:Two analog uridine triphosphates tethering additional functionality, one a primary amino group and the second a mercapto group, were prepared and tested for their compatibility with in vitro RNA selection procedures. 5-(3-Aminopropyl)uridine triphosphate (UNH(2)) as a uridine substitute was a more effective substrate ...

journal_title：Nucleic acids research

authors： Vaish NK,Fraley AW,Szostak JW,McLaughlin LW

更新日期：2000-09-01 00:00:00

abstract：:We had shown previously (3) that the E. coli argE gene could be turned-on by an IS3 element inserted in orientation II near the 5' end of the gene. Here we show that this effect is due to the presence of an outward promoter located on IS3. The exact site of insertion of IS3 was determined by DNA sequencing. Using the ...

journal_title：Nucleic acids research

authors： Charlier D,Piette J,Glansdorff N

更新日期：1982-10-11 00:00:00

abstract：:We report the use of an engineered ribozyme to produce a circular human exon in vitro. Specifically, we have designed a derivative of a yeast self-splicing group II intron that is able to catalyze the formation of a circular exon encoding the first kringle domain (K1) of the human tissue plasminogen activator protein....

journal_title：Nucleic acids research

authors： Mikheeva S,Hakim-Zargar M,Carlson D,Jarrell K

更新日期：1997-12-15 00:00:00

abstract：:The NCBI Taxonomy database (http://www.ncbi.nlm.nih.gov/taxonomy) is the standard nomenclature and classification repository for the International Nucleotide Sequence Database Collaboration (INSDC), comprising the GenBank, ENA (EMBL) and DDBJ databases. It includes organism names and taxonomic lineages for each of the...

journal_title：Nucleic acids research

authors： Federhen S

更新日期：2012-01-01 00:00:00

abstract：:A common goal in the discovery of rare functional DNA variants via medical resequencing is to incur a relatively lower proportion of false positive base-calls. We developed a novel statistical method for resequencing arrays (SRMA, sequence robust multi-array analysis) to increase the accuracy of detecting rare variant...

journal_title：Nucleic acids research

authors： Wang W,Shen P,Thiyagarajan S,Lin S,Palm C,Horvath R,Klopstock T,Cutler D,Pique L,Schrijver I,Davis RW,Mindrinos M,Speed TP,Scharfe C

更新日期：2011-01-01 00:00:00

abstract：:The Biodegradative Strain Database (BSD) is a freely-accessible, web-based database providing detailed information on degradative bacteria and the hazardous substances that they degrade, including corresponding literature citations, relevant patents and links to additional web-based biological and chemical data. The B...

journal_title：Nucleic acids research

authors： Urbance JW,Cole J,Saxman P,Tiedje JM

更新日期：2003-01-01 00:00:00

abstract：:The miR-290 cluster is expressed in embryonic stem cells (ESCs) and is important for the maintenance of pluripotency, but little is known about the mechanisms regulating the early embryonic microRNA cluster (EEmiRC) expression. Here we report the identification of a 332-bp intragenic enhancer (IE) able to modulate the...

journal_title：Nucleic acids research

authors： Tata PR,Tata NR,Kühl M,Sirbu IO

更新日期：2011-05-01 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：:The 5'-cap of spliceosomal small nuclear RNAs, some small nucleolar RNAs and of telomerase RNA was found to be hypermethylated in vivo. The Trimethylguanosine Synthase 1 (TGS1) mediates this conversion of the 7-methylguanosine-cap to the 2,2,7-trimethylguanosine (m(3)G)-cap during maturation of the RNPs. For mammalian...

journal_title：Nucleic acids research

authors： Monecke T,Dickmanns A,Ficner R

更新日期：2009-07-01 00:00:00