1998 nucleic acid sequences peptide nucleic acids. Medical search. Frequent questions

the creation of a large number of compounds (usually proteins or peptides) through technologies such as phage display . (genomicglossaries.com)
Replacements L38E and L41E, involving charge acquisition at residues predicted to contribute to the hydrophobic interface, reduced the dimerization signal in the protein ligation assay and prevented the detection of dimer/multimer species in both transiently expressed 3A proteins and in synthetic peptides reproducing the N terminus of 3A. (asm.org)
Protein location can be predicted either from the sequence of a protein alone by identification of targeting peptide sequences and motifs, or by homology to proteins of known location. (biomedcentral.com)
A third approach, which is complementary, exploits the differences in amino acid composition of proteins associated to different cellular locations, and can be useful if motif and homology information are missing. (biomedcentral.com)
For stage one, we trained multiple Support Vector Machines (SVMs) to score eukaryotic protein sequences for membership to each of three categories: nuclear, cytoplasmic and extracellular, plus extra category nucleocytoplasmic, accounting for the fact that a large number of proteins shuttles between those two locations. (biomedcentral.com)
Calibration of the method using predicted values of amino acid exposure allows classifying proteins without 3D-information with an accuracy of 62% and discerning proteins in different locations even if they shared high levels of identity. (biomedcentral.com)
Therefore computational prediction of protein features from their sequence is often used for designing strategies for experimental characterization of proteins and is also important for genome annotation and drug target identification [ 4 , 5 ]. (biomedcentral.com)
Cysteine-Selective Modification of Peptides and Proteins via Desulfurative C-C Bond Formation CHEMISTRY-A EUROPEAN JOURNAL. (nottingham.ac.uk)

Double-stranded nucleic acid molecules (DNA-DNA or DNA-RNA) which contain regions of nucleotide mismatches (non-complementary). (umassmed.edu)
On the basis of nucleotide sequence diversity in the viral protein (VP)1 capsid gene, 7 EV-71 genogroups (A-G) have been defined ( 2 , 3 ). (cdc.gov)
Derwahl M, Seto P, Rapoport B. Complete nucleotide sequence of the cDNA for thyroid peroxidase in FRTL5 rat thyroid cells. (rusmedserv.com)
Nucleotide sequence of the cDNA encoding mouse thyroid peroxidase. (rusmedserv.com)
The considerable number of HBV isolates with rather divergent nucleotide sequences and the partially double-stranded characteristic of HBV impose the need for extreme care in the choice of primers for both full length and fragment amplification. (biomedcentral.com)
We have determined the nucleotide sequence of the C gene. (shengsci.com)

Mouse M-CSF receptor cDNA encodes a 977 amino acid (aa) type I membrane protein with a 19 aa signal peptide, a 492 aa extracellular region containing the ligand-binding domain, a 25 aa transmembrane domain and a 441 aa cytoplasmic domain. (rndsystems.com)
The NH 2 terminus of the protein may function as a signal peptide in the export of extracellular β-agarase. (worthington-biochem.com)

Reconstitution of hmtRNAMet from U8 and 8U→C D-half-molecules with T-half-molecules required Mg2+ and was assessed by gel mobility shift assays using native 15% PAGE in Tris borate buffer (89 mm Tris base, 89 mm boric acid, pH 8.3) with and without 3 mm Mg2+ at 4 °C (25Jones C. Spencer A.C. Hsu J. Spremulli L.L. Martinis S.A. DeRider M. Agris P.F. J. Mol. (ncsu.edu)
Isolated nucleic acid molecules encoding the peptides are also disclosed. (justia.com)
MHC class II molecules are specialized peptide receptors that play a critical role in initiating and regulating immune responses by binding peptide fragments that are 10-30 amino acids long [ 1 ] and present them on the surface of antigen-presenting cells for recognition by CD4 + T cells. (biomedcentral.com)
The use of computational techniques has been instrumental in advancing epitope-based vaccine research, with much work focusing on predicting the binding specificities of peptides to MHC molecules. (biomedcentral.com)
Sequence-based predictive systems, based on identifying patterns in peptides with experimentally determined binding strength, are widely used to facilitate the identification of binding peptides to MHC class II molecules. (biomedcentral.com)
Deep sequencing of RNA molecules cross-linked to immunoprecipitated protein particles (CLIP-seq) revealed. (shengsci.com)

Electron microscopic analysis of the resulting heteroduplexes facilitates the mapping of regions of base sequence homology of nucleic acids. (umassmed.edu)
A total of 15 protein sequences with high homology to known eukaryotic TIMPs were predicted from the complement of sequence data available for parasitic helminths and subjected to in-depth bioinformatic analyses. (biomedcentral.com)

Genomic comparison revealed high conservation of key metabolic features in sublineage II Nitrospira , including respiratory complexes I-V and the machineries for nitrite oxidation and carbon fixation via the reductive tricarboxylic acid cycle. (osti.gov)
This entailed mining available transcriptomic and/or genomic sequence datasets for the presence of homologues of known TIMPs, predicting secondary structures of defined protein sequences, systematic phylogenetic analyses and assessment of differential expression of genes encoding putative TIMPs in the developmental stages of A. suum , N. americanus and Schistosoma haematobium which infect the mammalian hosts. (biomedcentral.com)
Currently, most protein sequences in databases are the result of translation of hypothetical transcripts derived from genomic sequencing data [ 3 ]. (biomedcentral.com)

The minor loop is short lacking the usual G47, and the T-stem has two adjacent pyrimidine:pyrimidine pairs (U-U and U-:). Furthermore, the T-loop lacks the T:C sequence and contains only six nucleotides instead of the normal seven. (ncsu.edu)

1987. Ammonia emissions and their role in acid deposition. (cdc.gov)

1993) Nucleic Acids Res. (rndsystems.com)

Peptide nucleic acid (PNA) amphiphiles: synthesis, self-assembly, and duplex stability. (umassmed.edu)
During her M.S., she focused on the development of fluorescent amino acids and peptide synthesis. (rsc.org)

Compounds comprising peptides and peptidomimetics capable of binding the C3 protein and inhibiting complement activation are disclosed. (justia.com)
This invention provides an APP-cleaving protein and related nucleic acid compounds. (everypatent.com)
Most antimicrobial peptides are cationic amphiphilic compounds that function by binding to the negatively charged lipids of bacterial membranes, followed by membrane disruption. (rsc.org)

One crucial determinant of host tropism is hemagglutinin (HA) receptor specificity, in particular, preference of specific species of sialic acid on host cells. (springer.com)

I have been intrigued by the activity of antimicrobial peptides for a long time, due to my interest in biological membranes. (rsc.org)
Antimicrobial peptides have long been hailed as a solution to the antibiotic resistance crisis, because they target the bacterial membrane and can cause quick bactericidal activity in bacterial cells. (rsc.org)
While binding to the lipid headgroup is detrimental for anion transport, I hypothesized that binding to the headgroup can provide membrane selectivity (e.g., bacterial membranes over human membranes) and can induce membrane perturbations similar to those observed for antimicrobial peptides. (rsc.org)

These replacements also led to production of infective viruses that replaced the acidic residues introduced (E) by nonpolar amino acids, indicating that preservation of the hydrophobic interface is essential for virus replication. (asm.org)
A peptide of 42 to 43 residues known as the .beta. (everypatent.com)

In particular, this invention provides peptides and peptidomimetics capable of binding the C3 protein and inhibiting complement activation. (justia.com)

Characterization of cDNA clones for human myeloperoxidase: predicted amino acid sequence and evidence for multiple mRNA species. (rusmedserv.com)

amyloid peptide (.beta. (everypatent.com)
All recognized mutations for AD are associated with increased deposition of amyloid-beta (Abeta), a peptide fragment comprising 39-43 amino acids that derive from the catabolism of the amyloid precursor protein (APP) molecule. (medscape.com)

They are isolated via SELEX (Systematic Evolution of Ligands by Exponential Enrichment), an evolutionary process that involves iterative rounds of selection and amplification before sequencing and aptamer characterization. (genomicglossaries.com)
Taking advantage of the large number of virus DNA sequences in public databases to select conserved sites for primer design is an optimal way to tackle the difficulties in virus genome amplification. (biomedcentral.com)
Because of the existence of quasispecies, the only way to obtain HBV haplotype sequences is through full length genome amplification and clone-sequencing instead of assembling the PCR sequences of several amplified fragments of the genome. (biomedcentral.com)

Today, recognition and classification of sequence motifs and protein folds is a mature field, thanks to the availability of numerous comprehensive and easy to use software packages and web-based services. (biomedcentral.com)

While whole gene duplications and deletions are relatively well-studied, the biology of subexonic ( i.e. , within coding exon sequences), copy number variation remains elusive. (nature.com)
The salivary MUC7 gene provides an opportunity for studying such variation, as it harbors copy number variable subexonic repeat sequences that encode for densely O-glycosylated domains (PTS-repeats) with microbe-binding properties. (nature.com)
Next, the isolates were differentiated by sequencing a specific region of the gene encoding the enzyme glucosyltransferase B ( gtfB ). (bvsalud.org)
Based on the genetic similarity of the isolates and pattern of amino acid variations identified by partial sequencing of the gtfB gene, base-pair changes were identified and correlated with different virulence patterns among the isolates. (bvsalud.org)
Conclusions: The partial sequencing of the gtfB gene can be a useful tool for elucidating the colonization patterns of S. mutans . (bvsalud.org)
In addition, IGS sequencing (e.g., sequencing of intergenic regions between the 16S and 23S rRNA genes) has been used to taxonomy studies, while partial sequencing of the gene gtfB , which encodes the enzyme glucosyltransferase B, has been used to investigate enzymatic activity and virulence 11-12 . (bvsalud.org)

describes the use of a phage-displayed combinatorial random peptide library to identify a 27-residue peptide that binds to C3 and inhibits complement activation. (justia.com)
C protein binds strongly to pifO, and weakly to sequences in the ori-1 region. (shengsci.com)

99% aa identity with rat and 60-63% aa identity with corresponding sequences in human, canine, feline and bovine M-CSF R. Activators of protein kinase C induce TACE/ADAM17 cleavage of the M-CSF receptor, releasing the functional ligand-binding extracellular domain (5). (rndsystems.com)
These peptides induce damage through their effects on neutrophils and mast cells. (justia.com)

in December 2006, UniMod lists 495 modifications including 144 amino acid substitutions [6]. (lu.se)

As amino acid variations are likely to be correlated with differences in biological risk, molecular characterization, such as that described in this paper, could be the key for assessing the development of dental caries in children. (bvsalud.org)

The UGT content of cells and tissues is a major determinant of our response to those chemicals that are primarily eliminated by conjugation with glucuronic acid. (aspetjournals.org)

The modification uridine-5-oxyacetic acid (cmo (5)U 34) is found at wobble position 34 in a single isoaccepting tRNA species for six amino acids, alanine, leucine, proline, serine, threonine, and valine, each having 4-fold degenerate codons. (ncsu.edu)
By sequencing the 16S-23S intergenic region, it was found that all of the isolates belonged to the species S. mutans . (bvsalud.org)

Functional recognition of the modified human tRNA(UUU)(Lys3) anticodon domain by HIV's nucleocapsid protein and a peptide mimic. (ncsu.edu)
1. A purified protease which comprises the amino acid sequence SEQ ID NO:1, or a functional equivalent thereof produced by conservative amino acid alterations which result in a protease which exhibits the same biological, biochemical, chemical, physical and structural properties of the protease of SEQ ID NO:1. (everypatent.com)

Cloning and sequence analysis of the human salivary peroxidase-encoding cDNA. (rusmedserv.com)

The primary translation product consists of 504 amino acids (Belas 1989). (worthington-biochem.com)

In order to identify optimal sites for primer design, we utilized 1020 whole genome sequences in public databases (NCBI, EMBL and DDBJ) and 103 sequences in our laboratory, and developed a program BxB to select conserved regions as candidates for primer design. (biomedcentral.com)
By offering empowerment and control, companies convince consumers to sequence their genome by granting the company access to their genetic data in exchange to results that are not always accurate. (bvsalud.org)

The method's focus is to globally detect mass differences, not to assign peptide sequences or modifications to individual spectra. (lu.se)

These investigations have resulted in reports of a partially purified 68 kilodalton (Kd) protease which cleaves at a Met-Asp bond of a synthetic peptide. (everypatent.com)

Formylation reactions (5 ;l) contained 20 mm Tris-HCl, pH 7.6, 100 ;m EDTA, 150 mm KCl, 7 mm MgCl2, 10 mm ;ME, 125 ;m folinic acid (Sigma), 100 nm normal or 8U→C mutated [35S]Met-hmtRNAMet and 8 nm MTFmt. (ncsu.edu)

Nine previously identified stimulatory Dsg3 peptides, Dsg3 96-112, Dsg3 191-205, Dsg3 206-220, Dsg3 252-266, Dsg3 342-356, Dsg3 380-394, Dsg3 763-777, Dsg3 810-824 and Dsg3 963-977, were docked into the binding groove of each model to analyze the structural aspects of allele-specific binding. (biomedcentral.com)

Consecutive pathway and cluster analysis led to the identification of biological processes, namely processes involving binding and processing of nucleic acids, LRP1-dependent endocytosis, and exosome formation. (degruyter.com)

In particular, the computational prediction of subcellular location from protein sequence information has been attempted mainly using three approaches. (biomedcentral.com)
These approaches depend on sequence databases that are used by the engines to match real spectra to theoretical in silico spectra. (lu.se)

Influence of acceptor peptides on cotranslational glycosylation of yeast invertase and site-directed mutagenesis around a sequon sequence. (rusmedserv.com)

Oxytocin (OT) is a highly conserved nonapeptide that was the first peptide hormone with determined molecular structure ( 1 ). (frontiersin.org)
To better understand the molecular mechanisms underlying its biology and ecology, we generated a reference transcriptome for H. coerulea using next-generation sequencing. (nature.com)
Aptamers are short nucleic acid sequences capable of specific, high-affinity molecular binding. (genomicglossaries.com)
Click molecule labels to explore molecular sequence information. (nih.gov)

1998. Analysis of ammonia and aerosol concentrations and deposition near the free troposphere at Mt. Mitchell, NC, USA. (cdc.gov)
1998. Ammonia: Emission, atmospheric transport and deposition. (cdc.gov)

The prediction models were trained on influenza protein sequences isolated from both avian and human samples, which were transformed into amino acid physicochemical properties feature vectors. (springer.com)

Its activation through the classical, alternative or lectin pathways leads to the generation of anaphylatoxic peptides C3a and C5a and formation of the C5b-9 membrane attack complex. (justia.com)

The development of sequence-based predictive algorithms to identify potential Dsg3 epitopes has encountered limited success due to the paucity of PV-associated allele-specific peptides as training data. (biomedcentral.com)
Our findings ascertain that DRB1*0402 plays a crucial role in the selection of specific self-peptides in DR4 PV. (biomedcentral.com)

Nucleic Acids Research. (wisc.edu)
Nucleic Acids Research, 38(9), 3094–3105. (ncsu.edu)
NUCLEIC ACIDS RESEARCH, 36(20), 6548–6557. (ncsu.edu)

Human thyroid peroxidase: complete protein sequence, chromosome mapping, and identification two alternately spliced mRNAs. (rusmedserv.com)
The miniF plasmid C protein: sequence, purification and DNA binding. (shengsci.com)
PTMs from this list in conjunction with a protein sequence and a few precursor masses. (lu.se)

Both OT/IT and AVP/AVT are nonapeptide hormones produced from a common precursor ( 21 ) and share seven out of nine amino acids in their primary structure ( 22 ). (frontiersin.org)

Finally, to our knowledge, the presented structure-search machinery is the only one to permit arbitrary combinations of amino-acid-type constraints, secondary structure constraints, distance constraints, and sequence separation constraints. (biomedcentral.com)

Kunitz-like domain"--A protease inhibitor similar to soybean trypsin inhibitor or a nucleic acid sequence encoding a protease inhibitor which is similar to the soybean trypsin inhibitor. (everypatent.com)
somewhat similar sequences of about 110 amino acids each. (wikipedia.org)

Methods: S. mutans samples were isolated from the saliva of 30 children with varying histories of dental caries, and they were characterized according to morphological and biochemical markers and the sequences of their 16S-23S intergenic spacer region. (bvsalud.org)

Recent studies have revealed an extensive superfamily of UDP-glucuronosyltransferases (UGTs), 2 previously termed glucuronyl transferases, which catalyze the conjugation of UDP-glucuronic acid with lipid-soluble substrates to form polar conjugates that are excreted in the urine and feces. (aspetjournals.org)
Studies on the physiological effects of sulfamic acid and ammonium sulfamate. (cdc.gov)

Metatranscriptome assembly yielded 90,817 sequences of which 71% (64,610) could be annotated by comparison to public databases. (nature.com)
Based on the alignment of HBV sequences in public databases and a program BxB in Perl script, our method selected several optimal sites for HBV primer design. (biomedcentral.com)
The matching is com- plicated by the fact that there are protein modifications and the sequence databases store the unmodified sequences. (lu.se)

Anatomy2

Organisms3

Diseases2

Chemicals and Drugs32

Analytical, Diagnostic and Therapeutic Techniques and Equipment15

Phenomena and Processes20

Anthropology, Education, Sociology and Social Phenomena1

Information Science10

Health Care2

Proteins8

Nucleotide6

Signal peptide2

Molecules6

Homology2

Genomic3

Nucleotides1

19871

19931

Synthesis2

Compounds3

Specificity1

Antimicrobial3

Residues2

Peptidomimetics1

MRNA1

Amyloid2

Amplification3

Motifs1

Gene6

Binds2

Induce2

Amino acid substitutions1

Characterization1

Chemicals1

Species2

Functional2

CDNA1

19891

Genome2

Differences1

Synthetic1

Reactions1

Structural1

Biological1

Approaches2

Yeast1

Molecular4

Deposition2

Vectors1

Membrane1

Specific2

Research3

Protein sequence3

Precursor1

Secondary1

Similar2

Region1

Studies2

Databases3