MHCPEP--a database of MHC-binding peptides: update 1995.


: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.


Nucleic Acids Res


Nucleic acids research


Brusic V,Rudy G,Kyne AP,Harrison LC




Has Abstract


1996-01-01 00:00:00














  • SUVH1, a Su(var)3-9 family member, promotes the expression of genes targeted by DNA methylation.

    abstract::Transposable elements are found throughout the genomes of all organisms. Repressive marks such as DNA methylation and histone H3 lysine 9 (H3K9) methylation silence these elements and maintain genome integrity. However, how silencing mechanisms are themselves regulated to avoid the silencing of genes remains unclear. ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Li S,Liu L,Li S,Gao L,Zhao Y,Kim YJ,Chen X

    更新日期:2016-01-29 00:00:00

  • Identification and partial characterization of an endogenous form of mouse mammary tumor virus that is transcribed into the virion-associated RNA genome.

    abstract::Restriction mapping demonstrated the presence of several distinct proviral forms of mouse mammary tumor virus in the genome of GR mice. One of these proviruses (GR-MTV-2) was highly amplified in GR 3A cells, a cell line derived from a GR mammary tumor. By the criterion of restriction mapping, the amplified GR-MTV-2 pr...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Fanning TG,Puma JP,Cardiff RD

    更新日期:1980-12-11 00:00:00

  • Adhesin competence repressor (AdcR) from Streptococcus pyogenes controls adaptive responses to zinc limitation and contributes to virulence.

    abstract::Altering zinc bioavailability to bacterial pathogens is a key component of host innate immunity. Thus, the ability to sense and adapt to the alterations in zinc concentrations is critical for bacterial survival and pathogenesis. To understand the adaptive responses of group A Streptococcus (GAS) to zinc limitation and...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sanson M,Makthal N,Flores AR,Olsen RJ,Musser JM,Kumaraswami M

    更新日期:2015-01-01 00:00:00

  • Identification of the ATP-binding site in the terminase subunit pUL56 of human cytomegalovirus.

    abstract::Human cytomegalovirus (HCMV) terminase is composed of subunits pUL56 (130 kDa) and pUL89 ( approximately 75 kDa), encoded by the UL56 and UL89 genes. In a recent investigation, we demonstrated that the main ATPase activity is associated with the large terminase subunit pUL56. The protein has two putative ATP-binding s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Scholz B,Rechter S,Drach JC,Townsend LB,Bogner E

    更新日期:2003-03-01 00:00:00

  • Exome RNA sequencing reveals rare and novel alternative transcripts.

    abstract::RNA sequencing has become an important method to perform hypothesis-free characterization of global gene expression. One of the limitations of RNA sequencing is that most sequence reads represent highly expressed transcripts, whereas low level transcripts are challenging to detect. To combine the benefits of tradition...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Halvardson J,Zaghlool A,Feuk L

    更新日期:2013-01-07 00:00:00

  • Effect of 2',3'-dideoxythymidine-5'-triphosphate on HeLa cell in vitro DNA synthesis: evidence that DNA polymerase alpha is the only polymerase required for cellular DNA replication.

    abstract::We have studied the effects of the nucleotide analogue, 2',3'-dideoxythymidine-5'-triphosphate (ddTTP) on replicative DNA synthesis in HeLa cell lysates. As previously demonstrated (1), such lysates carry out extensive DNA synthesis in vitro, at rates and in a fashion similar to in vivo DNA replication. We report here...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Waqar MA,Evans MJ,Huberman JA

    更新日期:1978-06-01 00:00:00

  • Polynucleotides. XXIV. Synthesis and properties of a dinucleoside monophosphate derived from uridine 6,2-cyclonucleoside.

    abstract::A dinucleoside monophosphate, 6,2'-anhydro-6-oxy-1-beta-D-arabinofuranosyluracil-phosphoryl- (3'-5')-6,2'-anhydro-6-oxy-1-beta-D-arabinofuranosyluracil (I) was synthesized by the condensation reaction using DCC from 5'-monomethoxytrityl derivative(VII) and 3'-acetyl-5'-phosphate(X) of the monomer units. Yield was ca. ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Ikehara M,Tezuka T

    更新日期:1974-03-01 00:00:00

  • Reverse transcription of avian myeloblastosis virus 35S RNA. Early synthesis of plus strand DNA of discrete size in reconstructed reactions.

    abstract::The early DNa products of reverse transcription have been analyzed from reconstructed reactions containing avian myeloblastosis virus 35S RNA . tRNAtrp complex and highly purified reverse transcriptase. We describe conditions for the synthesis of genome-length complementary DNA and two discrete species of plus strand ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Olsen JC,Watson KF

    更新日期:1982-02-11 00:00:00

  • Determination of nucleic acid sequence homologies and relative concentrations by a dot hybridization procedure.

    abstract::A dot hybridization method is presented for rapidly determining the relative concentrations of nucleic acids in a mixture, as well as the extent of sequence homology between related RNA or DNA species. ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Kafatos FC,Jones CW,Efstratiadis A

    更新日期:1979-11-24 00:00:00

  • Studies on the biological role of DNA methylation: III Role in excision of one-genome long single-stranded phi X 174 DNA.

    abstract::Accumulation of replicative intermediates of the bacteriophage phi X174 was observed in E. coli C infected cells when phage DNA methylation has been inhibited by nicotinamide or when cells were infected with a temperature-sensitive mutant in gene A. Analysis of the accumulating replicative intermediates by electron mi...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Friedman J,Friedmann A,Razin A

    更新日期:1977-10-01 00:00:00

  • Human apolipoprotein B: identification of cDNA clones and characterization of mRNA.

    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

    pub_type: 杂志文章


    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

  • Overexpression of the base excision repair NTHL1 glycosylase causes genomic instability and early cellular hallmarks of cancer.

    abstract::Base excision repair (BER), which is initiated by DNA N-glycosylase proteins, is the frontline for repairing potentially mutagenic DNA base damage. The NTHL1 glycosylase, which excises DNA base damage caused by reactive oxygen species, is thought to be a tumor suppressor. However, in addition to NTHL1 loss-of-function...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Limpose KL,Trego KS,Li Z,Leung SW,Sarker AH,Shah JA,Ramalingam SS,Werner EM,Dynan WS,Cooper PK,Corbett AH,Doetsch PW

    更新日期:2018-05-18 00:00:00

  • Membranome: a database for proteome-wide analysis of single-pass membrane proteins.

    abstract::The Membranome database was developed to assist analysis and computational modeling of single-pass (bitopic) transmembrane (TM) proteins and their complexes by providing structural information about these proteins on a genomic scale. The database currently collects data on >6000 bitopic proteins from Homo sapiens, Ara...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Lomize AL,Lomize MA,Krolicki SR,Pogozheva ID

    更新日期:2017-01-04 00:00:00

  • Molecular dynamics simulations of sarcin-ricin rRNA motif.

    abstract::Explicit solvent molecular dynamics (MD) simulations were carried out for sarcin-ricin domain (SRD) motifs from 23S (Escherichia coli) and 28S (rat) rRNAs. The SRD motif consists of GAGA tetraloop, G-bulged cross-strand A-stack, flexible region and duplex part. Detailed analysis of the overall dynamics, base pairing, ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Spacková N,Sponer J

    更新日期:2006-02-02 00:00:00

  • Synthesis of cyclic oligodeoxyribonucleotides via the 'filtration' approach.

    abstract::The synthesis of cyclic di-, tri-, tetra-, penta- and hexa-thymidylic acids (16; n = 2, 3, 4, 5 and 6) and the cyclic hexadeoxyribonucleotide [d(CpCpTpApGpGp)], via the "filtration" approach, is reported. Some of the physical properties of the cyclic oligonucleotides are discussed, and their susceptibility to digestio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Rao MV,Reese CB

    更新日期:1989-10-25 00:00:00

  • DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model.

    abstract::RNA pseudoknots are functional structure elements with key roles in viral and cellular processes. Prediction of a pseudoknotted minimum free energy structure is an NP-complete problem. Practical algorithms for RNA structure prediction including restricted classes of pseudoknots suffer from high runtime and poor accura...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sperschneider J,Datta A

    更新日期:2010-04-01 00:00:00

  • Molecular footprints of human immunoglobulin gene evolution: a new sequence family.

    abstract::Analysis of the human VK (ref. 2) gene locus led to the detection of a new sequence family (L sequences). Its copy number is in the range of 10(2). The L sequences, which are about 500 bp long, are found as part of the 3' flanking regions of a clustered set of human VKI genes but they occur also separate from the gene...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Straubinger B,Pech M,Mühlebach K,Jaenichen HR,Bauer HG,Zachau HG

    更新日期:1984-07-11 00:00:00

  • Visualizing the proteome of Escherichia coli: an efficient and versatile method for labeling chromosomal coding DNA sequences (CDSs) with fluorescent protein genes.

    abstract::To investigate the feasibility of conducting a genomic-scale protein labeling and localization study in Escherichia coli, a representative subset of 23 coding DNA sequences (CDSs) was selected for chromosomal tagging with one or more fluorescent protein genes (EGFP, EYFP, mRFP1, DsRed2). We used lambda-Red recombinati...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Watt RM,Wang J,Leong M,Kung HF,Cheah KS,Liu D,Danchin A,Huang JD

    更新日期:2007-01-01 00:00:00

  • Testing the palindromic target site model for DNA transposon insertion using the Drosophila melanogaster P-element.

    abstract::Understanding the molecular mechanisms that influence transposable element target site preferences is a fundamental challenge in functional and evolutionary genomics. Large-scale transposon insertion projects provide excellent material to study target site preferences in the absence of confounding effects of post-inse...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Linheiro RS,Bergman CM

    更新日期:2008-11-01 00:00:00

  • Recycling of single-stranded DNA-binding protein by the bacterial replisome.

    abstract::Single-stranded DNA-binding proteins (SSBs) support DNA replication by protecting single-stranded DNA from nucleolytic attack, preventing intra-strand pairing events and playing many other regulatory roles within the replisome. Recent developments in single-molecule approaches have led to a revised picture of the repl...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Spenkelink LM,Lewis JS,Jergic S,Xu ZQ,Robinson A,Dixon NE,van Oijen AM

    更新日期:2019-05-07 00:00:00

  • Azidopolynucleotides as photoaffinity reagents.

    abstract::Polynucleotides containing adenosine and 8-azidoadenosine or inosine and 8-azidoinosine residues have been prepared from mixtures of nucleoside diphosphates using polynucleotide phosphorylase from Escherichia coli. These copolymers can form complexes with polyuridylic or polycytidylic acids respectively. Single strand...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Cartwright IL,Hutchinson DW

    更新日期:1980-04-11 00:00:00

  • The Database of Macromolecular Motions: new features added at the decade mark.

    abstract::The database of molecular motions, MolMovDB (, has been in existence for the past decade. It classifies macromolecular motions and provides tools to interpolate between two conformations (the Morph Server) and predict possible motions in a single structure. In 2005, we expanded the services offered...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Flores S,Echols N,Milburn D,Hespenheide B,Keating K,Lu J,Wells S,Yu EZ,Thorpe M,Gerstein M

    更新日期:2006-01-01 00:00:00

  • Prediction of transcription regulatory sites in Archaea by a comparative genomic approach.

    abstract::Intragenomic and intergenomic comparisons of upstream nucleotide sequences of archaeal genes were performed with the goal of predicting transcription regulatory sites (operators) and identifying likely regulons. Learning sets for the detection of regulatory sites were constructed using the available experimental data ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Gelfand MS,Koonin EV,Mironov AA

    更新日期:2000-02-01 00:00:00

  • ATP insertion opposite 8-oxo-deoxyguanosine by Pol4 mediates error-free tolerance in Schizosaccharomyces pombe.

    abstract::7,8-Dihydro-8-oxo-deoxyguanosine (8oxodG) is a highly premutagenic DNA lesion due to its ability to mispair with adenine. Schizosaccharomyces pombe lacks homologs for relevant enzymes that repair 8oxodG, which suggests that this lesion could be persistent and must be tolerated. Here we show that SpPol4, the unique Pol...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sastre-Moreno G,Sánchez A,Esteban V,Blanco L

    更新日期:2014-09-01 00:00:00

  • Reversion of a transcriptionally defective MHC class II-negative human B-cell mutant.

    abstract::RJ2.2.5, a mutant derived from the human B-lymphoma cell, Raji, is unable to express the MHC class II genes because of a recessive transcriptional defect attributed to the lack of an activator function. We report the isolation of a RJ2.2.5 revertant, namely AR, in which the expression of the mRNAs encoded by these gen...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Ombra MN,Perfetto C,Autiero M,Anzisi AM,Pasquinelli R,Maffei A,Del Pozzo G,Guardiola J

    更新日期:1993-02-11 00:00:00

  • Regulation of yeast DNA polymerase δ-mediated strand displacement synthesis by 5'-flaps.

    abstract::The strand displacement activity of DNA polymerase δ is strongly stimulated by its interaction with proliferating cell nuclear antigen (PCNA). However, inactivation of the 3'-5' exonuclease activity is sufficient to allow the polymerase to carry out strand displacement even in the absence of PCNA. We have examined in ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Koc KN,Stodola JL,Burgers PM,Galletto R

    更新日期:2015-04-30 00:00:00

  • Characterisation of membrane oligonucleotide-binding proteins and oligonucleotide uptake in keratinocytes.

    abstract::Inadequate cellular compartmentalisation of plasmid DNA and antisense oligodeoxynucleotides (ODNs) is generally considered as a major limitation in their use. In this study, an approach combining in situ visual-isation of rhodamine-labelled ODNs and affinity modification of proteins by radiolabelled-alkylating ODN der...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Laktionov PP,Dazard JE,Vives E,Rykova EY,Piette J,Vlassov VV,Lebleu B

    更新日期:1999-06-01 00:00:00

  • CD studies of conformational changes of DNA upon photosensitized UV-irradiation at 313 nm.

    abstract::The role of thymine dimerization for previously reported U.V. induced conformational changes has been proved using acetophenone as sensitizer for the specific thymine dimerization upon irradiation at 313 nm. CD results demonstrate that formation of pyrimidine dimers cause typical conformational changes of the DNA B he...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Lang H

    更新日期:1975-02-01 00:00:00

  • Comparison of antiparallel A.AT and T.AT triplets within an alternate strand DNA triple helix.

    abstract::We have examined the formation of alternate strand triple-helices at the target sequence A11(TC)6.(GA)6T11 using the oligonucleotides T11(AG)6 and T11(TG)6, by DNase I footprinting. These third strands were designed so as to form parallel T.AT triplets together with antiparallel G.GC and A.AT or T.AT triplets. We find...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Washbrook E,Fox KR

    更新日期:1994-09-25 00:00:00

  • miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments.

    abstract::Next-generation sequencing allows now the sequencing of small RNA molecules and the estimation of their expression levels. Consequently, there will be a high demand of bioinformatics tools to cope with the several gigabytes of sequence data generated in each single deep-sequencing experiment. Given this scene, we deve...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Hackenberg M,Sturm M,Langenberger D,Falcón-Pérez JM,Aransay AM

    更新日期:2009-07-01 00:00:00