Abstract:
:MHCPEP is a curated database comprising over 6000 peptide sequences known to bind MHC molecules. Entries are compiled from published reports as well as from direct submissions of experimental data. Each entry contains peptide sequence, MHC specificity and when available, experimental method, observed activity, binding affinity, source protein, anchor positions, as well as publication references. The present format of the database allows text string matching searches but can easily be converted for use in conjunction with sequence analysis packages. The database can be accessed via Internet using Gopher, FTP or WWW.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Brusic V,Rudy G,Kyne AP,Harrison LCdoi
10.1093/nar/24.1.242subject
Has Abstractpub_date
1996-01-01 00:00:00pages
242-4issue
1eissn
0305-1048issn
1362-4962pii
5s1015journal_volume
24pub_type
杂志文章abstract::Residual dipolar coupling (RDC) represents one of the most exciting emerging NMR techniques for protein structure studies. However, solving a protein structure using RDC data alone is still a highly challenging problem. We report here a computer program, RDC-PROSPECT, for protein structure prediction based on a struct...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh204
更新日期:2004-01-26 00:00:00
abstract::Transposable elements (TEs) comprise a large proportion of long non-coding RNAs (lncRNAs). Here, we employed CRISPR to delete a short interspersed nuclear element (SINE) in Malat1, a cancer-associated lncRNA, to investigate its significance in cellular physiology. We show that Malat1 with a SINE deletion forms diffuse...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz1176
更新日期:2020-03-18 00:00:00
abstract::The spliceosomal protein Prp1 (Prp6/U5-102 K) is necessary for the integrity of pre-catalytic spliceosomal complexes. We have identified a novel regulatory function for Prp1. Expression of mutations in the N-terminus of Prp1 leads to the accumulation of pre-catalytic spliceosomal complexes containing the five snRNAs U...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp1155
更新日期:2010-03-01 00:00:00
abstract::The database of 3D interacting domains (3did) is a collection of protein interactions for which high-resolution 3D structures are known. 3did exploits structural information to provide the crucial molecular details necessary for understanding how protein interactions occur. Besides interactions between globular domain...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn690
更新日期:2009-01-01 00:00:00
abstract::The D. melanogaster Adh gene is transcribed from two different promoters; a proximal (larval) promoter is active during late embryonic and larval stages, and a distal (adult) promoter is active primarily in third instar larvae and in adult flies (1). Genetic analyses suggest that several species of the mulleri subgrou...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.19.6899
更新日期:1985-10-11 00:00:00
abstract::Invertebrate RNA viruses are targets of the host RNA interference (RNAi) pathway, which limits virus infection by degrading viral RNA substrates. Several insect RNA viruses encode suppressor proteins to counteract this antiviral response. We recently demonstrated that the dsDNA virus Invertebrate iridescent virus 6 (I...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku910
更新日期:2014-10-29 00:00:00
abstract::The deoxyribose hexanucleoside pentaphosphate (m5dC-dG)3 has been studied by 500 MHz 1H NMR in D2O (0.1 M NaCl) and in D2O/deuterated methanol mixtures. Two conformations, in slow equilibrium on the NMR time scale, were detected in methanolic solution. Two-dimensional nuclear Overhauser effect (NOE) experiments were u...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.2.1243
更新日期:1984-01-25 00:00:00
abstract::The Mouse Genome Database (MGD) focuses on the integration of mapping, homology, polymorphism and molecular data about the laboratory mouse. Detailed descriptions of genes including their chromosomal location, gene function, disease associations, mutant phenotypes, molecular polymorphisms and links to representative s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.1.95
更新日期:1999-01-01 00:00:00
abstract::The structure of a ribonuclease III processing signal from bacteriophage T7 was examined by NMR spectroscopy, optical melting, and chemical and enzymatic modification. A 41 nucleotide variant of the T7 R1.1 processing signal has two Watson-Crick base-paired helices separated by an internal loop, consistent with its pr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.4.604
更新日期:1994-02-25 00:00:00
abstract::Chemically modified siRNAs are expected to have resistance toward nuclease degradation and good thermal stability in duplex formation for in vivo applications. We have recently found that 2'-OMe-4'-thioRNA, a hybrid chemical modification based on 2'-OMeRNA and 4'-thioRNA, has high hybridization affinity for complement...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks204
更新日期:2012-07-01 00:00:00
abstract::Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species, complementing the resources for vertebrate genomics developed in the Ensembl project (http://www.ensembl.org). Together, the two resources provide a consistent set of programmatic and interacti...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1011
更新日期:2018-01-04 00:00:00
abstract::The universal L-shaped tertiary structure of tRNAs is maintained with the help of nucleotide modifications within the D- and T-loops, and these modifications are most extensive within hyperthermophilic species. The obligate-commensal Nanoarchaeum equitans and its phylogenetically-distinct host Ignicoccus hospitalis gr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa411
更新日期:2020-07-09 00:00:00
abstract::With the development of High-Throughput Sequencing (HTS) thousands of human genomes have now been sequenced. Whenever different studies analyze the same genome they usually agree on the amount of single-nucleotide polymorphisms, but differ dramatically on the number of insertion and deletion variants (indels). Further...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv677
更新日期:2015-09-03 00:00:00
abstract::Gene-order-based comparison of multiple genomes provides signals for functional analysis of genes and the evolutionary process of genome organization. Gene clusters are regions of co-localized genes on genomes of different species. The rapid increase in sequenced genomes necessitates bioinformatics tools for finding g...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw843
更新日期:2016-11-16 00:00:00
abstract::We previously reported the isolation of PRP28, a gene in Saccharomyces cerevisiae whose activity is required for the first step of nuclear mRNA splicing in vivo. Sequence analysis revealed that PRP28 is included in the 'DEAD-box' gene family, members of which are thought to function as ATP-dependent RNA helicases. Gen...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.15.3187
更新日期:1994-08-11 00:00:00
abstract::The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of known protein structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and distant evolutionary relationships; the third, fold...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.1.257
更新日期:2000-01-01 00:00:00
abstract::An open reading frame upstream from nifHDK operon of Klebsiella pneumoniae had been described. The orientation of this open reading frame is opposite to that of nifHDK and sequence homology was found between the open reading frame promoter and the promoter of nifHDK operon. A recombinant plasmid carrying the promoter ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.12.4241
更新日期:1983-06-25 00:00:00
abstract::The TWIST1 bHLH transcription factor controls embryonic development and cancer processes. Although molecular and genetic analyses have provided a wealth of data on the role of bHLH transcription factors, very little is known on the molecular mechanisms underlying their binding affinity to the E-box sequence of the pro...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw334
更新日期:2016-06-20 00:00:00
abstract::Directed molecular evolution and combinatorial methodologies are playing an increasingly important role in the field of protein engineering. The general approach of generating a library of partially randomized genes, expressing the gene library to generate the proteins the library encodes and then screening the protei...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkh315
更新日期:2004-02-27 00:00:00
abstract::MLL, the trithorax ortholog, is a well-characterized histone 3 lysine 4 methyltransferase that is crucial for proper regulation of the Hox genes during embryonic development. Chromosomal translocations, disrupting the Mll gene, lead to aggressive leukemia with poor prognosis. However, the functions of MLL in cellular ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku458
更新日期:2014-07-01 00:00:00
abstract::A mutation in a gene dicA of Escherichia coli leads to temperature-sensitive cell division, by allowing expression of a nearby division inhibition gene dicB (1). We have now established the sequence of the DicA region and identified DicA as a 15.5 KD protein. A second gene dicC transcribed divergently from dicA and co...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.17.6821
更新日期:1986-09-11 00:00:00
abstract::The genome-wide identification of microRNA transcription start sites (miRNA TSSs) is essential for understanding how miRNAs are regulated in development and disease. In this study, we developed mirSTP (mirna transcription Start sites Tracking Program), a probabilistic model for identifying active miRNA TSSs from nasce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx318
更新日期:2017-07-27 00:00:00
abstract::Selection for amino acid affinity by elution of RNAs from tryptophan-Sepharose using free L-tryptophan evokes one sequence predominantly (K(D) = 12 microM), a symmetrical internal loop of 3 nt per side. Though we have also isolated larger sequences with affinity for tryptophan, successively squeezed selection in rando...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki861
更新日期:2005-09-25 00:00:00
abstract::We used the high resolution and accuracy of the Cambridge Structural Database (CSD) to provide detailed information regarding base pairing interactions of selected nucleobases. We searched for base pairs in which nucleobases interact with each other through two or more hydrogen bonds and form more or less planar struc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa629
更新日期:2020-09-04 00:00:00
abstract::The erbAalpha gene encodes two alpha-thyroid hormone receptor isoforms, TRalpha1 and TRalpha2, which arise from alternatively processed mRNAs, erbAalpha1 (alpha1) and erb alpha2 (alpha2). The splicing and alternative polyadenylation patterns of these mRNAs resemble that of mRNAs encoding different forms of immunoglobu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.21.4296
更新日期:1997-11-01 00:00:00
abstract::This study describes a novel functional property of the eukaryotic transcription factor NF-kappa B in altering the DNA structure. We observed that the binding of purified NF-kappa B to DNA was facilitated by spermine and cations which are known to promote DNA bending, and by a nick in one position at the 3'-end of the...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.22.6497
更新日期:1990-11-25 00:00:00
abstract::The DNA unwinding element (DUE) is a sequence rich in adenine and thymine residues present within the origin region of both prokaryotic and eukaryotic replicons. Recently, it has been shown that this is the site where bacterial DnaA proteins, the chromosomal replication initiators, form a specific nucleoprotein filame...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku453
更新日期:2014-07-01 00:00:00
abstract::The genome stability is maintained by coordinated action of DNA repairs and checkpoints, which delay progression through the cell cycle in response to DNA damage. Rad9 is conserved from yeast to human and functions in cell cycle checkpoint controls. Here, a regulatory mechanism for Rad9 function is reported. In this s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq1264
更新日期:2011-06-01 00:00:00
abstract::Optical DNA mapping (ODM) allows visualization of long-range sequence information along single DNA molecules. The data can for example be used for detecting long range structural variations, for aiding DNA sequence assembly of complex genomes and for mapping epigenetic marks and DNA damage across the genome. ODM tradi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz489
更新日期:2019-09-05 00:00:00
abstract::The Central glycolytic genes Repressor (CggR) from Bacillus subtilis belongs to the SorC family of transcription factors that control major carbohydrate metabolic pathways. Recent studies have shown that CggR binds as a tetramer to its tandem operator DNA sequences and that the inducer metabolite, fructose 1,6-bisphos...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq334
更新日期:2010-09-01 00:00:00