• Amino acid sequences of predicted proteins and their annotation for 95 organism species. (biosciencedbc.jp)
  • The 37-Mb genome was predicted to contain a total of 12,074 genes encoding proteins with a length greater than 100 amino acid residues (see Methods). (nature.com)
  • In addition, NAC domain proteins have become a popular research topic for different plant species. (frontiersin.org)
  • 31). Vif targets APOBEC3G for proteasomal degradation by binding a complex of 3 human proteins called Cullin5, Elongin B, and Elongin C. The phosphorylation of a single amino acid (Ser 144) in Vif regulates this binding. (natap.org)
  • Proteins are made of twisting strands and sheets of a single line of amino acids, like beads strung onto a tangled but semi-predictable mess of yarn. (singularityhub.com)
  • This over produced AOS damages/ oxidizes to lipids, proteins and nucleic acids, and releases a number of cytotoxic intermediate/ end products thereby alterations in metabolic pathways and inactivation of key enzymes. (degruyter.com)
  • The initial release of the resource provides structure predictions for most of the proteins in the human proteome as well as for the proteomes of 20 other species of significant biological or medical interest. (embl.org)
  • It was subsequently realised that proteins (or domains) with similar amino-acid sequences have similar overall 3D structures, and that the degree of this similarity (measured by the root-mean-square distance, or RMSD, between corresponding atoms in the two models) is correlated with the degree of sequence similarity. (embl.org)
  • These types of RNA help assemble protein building blocks (amino acids) into functioning proteins. (medlineplus.gov)
  • The p40 subunit of IL-12 has been shown to have extensive amino acid sequence homology to the extracellular domain of the human IL-6 receptor while the p35 subunit shows distant but significant sequence similarity to IL-6, G-CSF, and chicken MGF. (rndsystems.com)
  • Human and murine IL-12 share 70% and 60% amino acid sequence homology in their p40 and p35 subunits, respectively. (rndsystems.com)
  • Corticotropin-releasing hormone (CRH) is a 41-amino acid peptide with noted sequence homology among species, specifically in the region required for biologic activity (amino-terminal region), and is a major secretagogue of pituitary corticotropin. (medscape.com)
  • 11] Because of homology among species, human and ovine sequences are both used to stimulate pituitary production and adrenal cortisol production. (medscape.com)
  • Studies of AMINO ACID SEQUENCE HOMOLOGY and NUCLEIC ACID SEQUENCE HOMOLOGY provide useful information about the genetic relatedness of genes, gene products, and species. (bvsalud.org)
  • Genogroup VIII, found in five of the six countries, had the highest degree of homology (up to 66% at the amino acid level) to human sapovirus strains. (lu.se)
  • Structurally based sequence alignment of DHFRs indicates the following levels of sequence identity and similarity for BsDHFR: 38 and 58% with Escherichia coli, 35 and 56% with Lactobacillus casei, and 23 and 40% with Thermotoga maritima, respectively. (duke.edu)
  • 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)
  • The degree of similarity between sequences. (bvsalud.org)
  • This is a subset of the DATASET1 obtained by clustering the protein sequences based on their sequence similarity to remove close homologues. (lu.se)
  • This is a subset of the DATASET 3 extracted by clustering the protein sequences based on their sequence similarity. (lu.se)
  • it also exposes computed nucleotide and amino acid variants, called from original sequences. (uni-hannover.de)
  • 3 In 2012, the virus was assigned as EV-C105 because subsequent sequencing showed that it had only 74.7% nucleotide and 82.5% amino acid identity to EV-109, thus satisfying the criteria for assignment of a new enterovirus serotype. (who.int)
  • 9 The sequence was compared to known VP1 sequences in GenBank using tblastx (which searches a translated nucleotide database using a translated nucleotide query). (who.int)
  • The genome of Aspergillus oryzae , a fungus important for the production of traditional fermented foods and beverages in Japan, has been sequenced. (nature.com)
  • Comparison of the three aspergilli species revealed the presence of syntenic blocks and A. oryzae -specific blocks (lacking synteny with A. nidulans and A. fumigatus ) in a mosaic manner throughout the genome of A. oryzae . (nature.com)
  • Sequencing of the A. oryzae genome was accomplished using the whole-genome shotgun (WGS) approach. (nature.com)
  • Thus, the increase in genome size seems to be due to an A. oryzae lineage-specific acquisition of sequence, rather than loss of sequence in A. nidulans and A. fumigatus . (nature.com)
  • This suggests that the genome size differences are largely due to sequence acquisition in A. oryzae . (nature.com)
  • Protein sequences are a far cry from the Jurassic Park vision of a genetic blueprint for dinosaurs, because they do not contain all the information in the genome. (newscientist.com)
  • the oldest DNA yet recovered comes from Neanderthals up to about 50,000 years old (see Neanderthals have genome chunk sequenced ). (newscientist.com)
  • Evidence of the long battle of the mammalian cell to protect its genetic material from the onslaught of viral parasites is the existence of hundreds of endogenous retroviruses within the human genome, archaic viral sequences which no longer produce viruses but continue to be handed down from generation to generation. (natap.org)
  • This protein-sequence information has also been generated by scientists all over the world, mainly through genome sequencing, and is made available through public resources, such as UniProt and Mgnify hosted at EMBL-EBI. (embl.org)
  • Current diagnostic PCR assays target a variety of SARS CoV-2 genes and the vast majority target sequences in regions of the SARS CoV-2 genome that are highly conserved. (who.int)
  • Enterovirus genotyping was performed by partial sequencing of the VP1 region of the enterovirus genome. (who.int)
  • Finally, although multiple amino acid substitutions of T4 abolished glycosylation at N2 but were not toxic, similar substitutions of T17 were not tolerated, suggesting that the carbohydrate moiety at N15 is critical for cell viability. (jneurosci.org)
  • PON-All predicts the tolerance (pathogenicity) of amino acid substitutions in multiple species. (lu.se)
  • Amino acid substitutions annotated to affect protein activity were collected from the Protein Mutant Database (PMD). (lu.se)
  • The Complementarity Between Protein-Specific and General Pathogenicity Predictors for Amino Acid Substitutions. (lu.se)
  • Disease-associated single amino acid substitutions. (lu.se)
  • Nucleic acids research, 44(6), 2501-13. (lu.se)
  • The blocks of A. oryzae -specific sequence are enriched for genes involved in metabolism, particularly those for the synthesis of secondary metabolites. (nature.com)
  • Specific expansion of genes for secretory hydrolytic enzymes, amino acid metabolism and amino acid/sugar uptake transporters supports the idea that A. oryzae is an ideal microorganism for fermentation. (nature.com)
  • The reports on base sequences of spider silk protein genes have gained importance as the mechanical properties of silk fibers have been revealed. (bioone.org)
  • The 37 amino acid peptides α-CGRP and β-CGRP are encoded by different genes on chromosome 11. (bachem.com)
  • 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)
  • Amino acid sequences of parvalbumins were retrieved from NCBI, and following alignment, the phylogenic tree was drawn and potential epitopes were determined and theirphysicochemical properties analyzed. (usda.gov)
  • Alignment of partial amino acid sequences of Ehrlichia isolates found in horses, Nicaragua and Brazil. (cdc.gov)
  • Thus, these mutations appear to limit the formation of aggregated PrP(Sc), giving rise to the accumulation of a relatively soluble, protease sensitive, prion species that is highly neurotoxic. (nih.gov)
  • Given that these mutations lie next to the glycine-rich region of PrP that can abrogate prion infection, these findings provide further support for small, protease-sensitive prion species having a significant role in the progression of prion disease and that the hydrophobic domain is an important determinant of PrP conversion. (nih.gov)
  • Mutations to a cholesterol-metabolism gene are responsible for restricting one species of fruit fly to life on a particularly rare cactus, according to a report in Science, out today (September 27). (the-scientist.com)
  • The four amino acid mutations in D. pachea had thus also impaired an ancestral lathosterol-converting capability. (the-scientist.com)
  • Complicating matters further, a sequence analysis indicated the mutations in D. pachea' s Neverland exhibited low sequence diversity between individuals, suggesting that the gene had undergone positive selection. (the-scientist.com)
  • The PRNP mutations alter the amino acid sequence of PrP C , causing it to misfold and become PrP Sc . (msdmanuals.com)
  • The protein sequence is predicted to contain a signal peptide (1 aa to 24 aa), an extracellular domain (25 aa to 100 aa), a transmembrane domain (101 aa to 121 aa), and a cytoplasmic domain (122 aa to 215 aa). (wikipedia.org)
  • The α-MSH peptide contains 13 amino acids , which are found in the same sequence in all species studied. (britannica.com)
  • In dogs, pigs and numerous other species, variants of the CGRP-like calcitonin receptor-stimulating peptide (CRSP) are expressed in place of β-CGRP. (bachem.com)
  • The synthesis of the peptide stem of bacterial peptidoglycan involves four enzymes, the Mur ligases (MurC, D, E and F). Among them, MurD is responsible for the ATP-dependent addition of d -glutamic acid to UDP-MurNAc- l -Ala, a reaction which involves acyl-phosphate and tetrahedral intermediates. (degruyter.com)
  • Using a gene editing tool to selectively substitute some of the building blocks, also known as amino acids, that make up the ATP5G1 protein revealed that improvements to the mitochondria were caused by switching specific amino acids. (elifesciences.org)
  • This gene is a member of the lipoxygenase family, which are catabolized by arachidonic acid-derived compounds. (prosci-inc.com)
  • Recurrence of AR leads an array of alterations in plants that includes inhibited seed germination, growth and productivity, biomass accumulation, photosynthesis, enzyme activities, protein synthesis, gene expression patterns, and over production of active oxygen species (AOS). (degruyter.com)
  • Mutation screening of all coding regions and flanking intron sequences of the RP1L1 gene were performed with DNA sequencing analysis in this case with OMD. (molvis.org)
  • Next, the isolates were differentiated by sequencing a specific region of the gene encoding the enzyme glucosyltransferase B ( gtfB ). (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)
  • It is a machine learning-based approach and utilizes amino acid features, Gene Ontology (GO) annotations, evolutionary conservation, and annotations of functional sites. (lu.se)
  • Parvalbumin has a highly conserved amino acid sequence and shows high percentage of identity among different fish species, making this protein the most common cause of cross reactivity in fish allergy. (usda.gov)
  • 142 species and 200 serotypes, many of which are like cardiovirus may have been involved in an apparently highly pathogenic for humans and animals. (cdc.gov)
  • but ViruSurf contains other virus species harmful to humans, including SARS-CoV, MERS-CoV, Ebola and Dengue. (uni-hannover.de)
  • On the plausibility front, Venters points to the lack of evidence that the BSE prion is infectious to humans: 'The idea that the BSE prion can cross the species barrier and cause disease in humans remains unproven. (spiked-online.com)
  • The BSE prion is known to produce prion encephalopathies when ingested by other species', says Venters, 'and, by analogy, it is just possible that such infection can also occur in humans. (spiked-online.com)
  • In humans, α- and β-CGRP differ by three amino acids, in rats, by two amino acids. (bachem.com)
  • Ectopic expression in mouse cells and CRISPR/Cas9 base editing of endogenous AGS loci revealed causal roles of one AGS-specific amino acid substitution in mediating cytoprotection by AGS ATP5G1. (elifesciences.org)
  • By sequencing the 16S-23S intergenic region, it was found that all of the isolates belonged to the species S. mutans . (bvsalud.org)
  • In addition, the analytical dimension characterizes the sequence in terms of its annotations and variants. (uni-hannover.de)
  • 21946 single amino acid variants that have been structurally characterized. (lu.se)
  • Owing to their highly plastic plant architecture and morphological similarities across the genus, barnyard grass species are very difficult to delimit on the basis of morphological criteria. (nature.com)
  • Similarities in amino acid sequences between various organisms also suggest common descent, and the fossil record also shows cases in which one plant or animal type evolved into different types over time. (rationalwiki.org)
  • The different amino-acid sequences of the MSH peptides are thought to account for their ability to activate different MCRs. (britannica.com)
  • At their N-terminus, these peptides have in common a characteristic disulfide loop structure, generally formed by six to seven amino acids. (bachem.com)
  • The amino acid sequences of CGRP peptides are well conserved among species, as illustrated in Scheme 1. (bachem.com)
  • Scheme 1: Amino acid sequences of various CGRP peptides. (bachem.com)
  • 6 A partial VP1 sequence was then obtained by amplification and sequencing of a 375bp region. (who.int)
  • Viral protein 1 amino acids were 67.9%-77.7% identical mouse models of either human acute poliomyelitis or dis- and had a distance of at least 39.4% from known cardio- seminated encephalomyelitis. (cdc.gov)
  • The heterodimeric glycoprotein hormones have only been identified in vertebrates and are highly conserved in organisms from primitive rayfin fish (Chondrostei) to human in both primary sequences and functional characteristics. (biovendor.com)
  • This is so despite the fact that human TRIM5a is 87% identical in amino acid sequence to the rhesus form. (natap.org)
  • Recombinant fusion protein containing a sequence corresponding to amino acids 1-140 of human WBP11 (NP_057396.1). (prosci-inc.com)
  • only a small the bodies of mites could cause allergic reactions like fraction of these species are linked to human health. (who.int)
  • Enterovirus C105 (EV-C105) is a member of the human enterovirus group C species and was first identified in the Democratic Republic of Congo in late 2010 in a faecal sample collected from a fatal acute flaccid paralysis patient during a poliomyelitis outbreak. (who.int)
  • Some porcine sapoviruses are genetically related to human caliciviruses, which has raised public health concerns over animal reservoirs and the potential cross-species transmission of sapoviruses. (lu.se)
  • Identifier submission, Sequence submission or Genomic submission (only Human). (lu.se)
  • It is difficult to tell the difference between various vertebrate species at this stage. (rationalwiki.org)
  • It is even more austere when we analytically examine population declines, rather than the complete loss of species, as 32% of known vertebrate species are showing substantial population deterioration [7]. (scirp.org)
  • The theory of Common Descent predicts that the species alive today can be organized into one single family tree, where each species is a descendant of a parent species. (don-lindsay-archive.org)
  • AlphaFold is an Artificial Intelligence (AI) system developed by DeepMind that predicts a protein's three-dimensional (3D) structure from its amino-acid sequence. (embl.org)
  • This metric predicts the regions of sequence where the model is likely to be of high quality and the regions where the model is probably less reliable. (embl.org)
  • Aim To test predictions of different large-scale biodiversity hypotheses by analysing species richness patterns of vascular plants in the Austrian Alps.Location The Austrian part of the Alps (c. 53,500 km2).Methods Within the floristic inventory of Central Europe the Austrian part of the Alps were systematically mapped for vascular plants. (researchgate.net)
  • 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)
  • The objective of this document is to outline the available methods and tools for screening and sequencing patient specimens for the detection of VOC or VOI, with a focus on those that offer a rapid turn-around time so as to support rapid implementation of public health actions for COVID 19 control. (who.int)
  • Regardless of the slight differences, all organisms use the same coding mechanism for translating the code into amino acid sequences. (rationalwiki.org)
  • YANG Y, SHAO A, VIHINEN M. PON-All: Amino Acid Substitution Tolerance Predictor for All Organisms [J]. Frontiers in Molecular Biosciences, 2022, 9. (lu.se)
  • It is meant to display the diversity of species for which orthologs are found. (wikipedia.org)
  • The importance of precipitation for driving global species diversity patterns is not necessarily reflected regionally. (researchgate.net)
  • Although it has been reported widely that the biogeographical history of mountains has shaped diversity patterns of cold-adapted plant species in alpine regions Harris, 2007;McGlone et al. (researchgate.net)
  • His research focuses on diversity and distributions of marine macroalgae, where he addresses questions ranging from purely descriptive taxonomic studies to more ecologically oriented studies forecasting the distribution of species in relation to environmental changes. (marinespecies.org)
  • Next to descriptive taxonomic work, he's intrigued by the effect of recent technological developments (e.g DNA-sequencing technology) on our understanding of algal species boundaries, global diversity estimates, biodiversity patterns and current taxonomic practices. (marinespecies.org)
  • A more recent line of interest concerns our focus on the interplay of algal community structure, evolutionary relatedness of the composing species and functional trait diversity. (marinespecies.org)
  • Since the beginning of this century, the loss of genetic diversity within this species has been a major concern as this could have serious consequences on the ability of this species to respond to future production constraints. (scirp.org)
  • 34 and 174) showed that minimal amino acid changes in a critical region of TRIM called the spry domain affected which type of retroviruses were blocked by TRIM5a. (natap.org)
  • RP1L1 encodes a protein with a minimal length of 2,400 amino acids and a predicted weight of 252 kDa. (molvis.org)
  • Accumulation of ascorbic acid, carotenoids, phenols and proline, and exogenous addition of calcium, polyamines, growth tonic, salicylic acid and, β-aminobutyric acid were shown to be the effective strategies to cope low-pH stress in plants. (degruyter.com)
  • Among the descriptors of heterogeneity, edaphic and land-use heterogeneity are more closely correlated with species numbers than topographic heterogeneity.Main conclusions The results support energy-driven processes as primary determinants of vascular plant species richness in temperate mountains. (researchgate.net)
  • 2004). Moreover, PAL activity was found to be enhanced in several plant species in response to wounding imposed by either harvest or other stresses during postharvest handling as observed in newly harvested asparagus spears (Bhowmik et al . (scialert.net)
  • Model results were evaluated by correlating modelled and observed species numbers.Results Our final multiple regression model explains c. 50% of the variance in species richness patterns. (researchgate.net)
  • Positions with high variance as well as amino acids, which differ from the majority of sequences, are highlighted. (bachem.com)
  • High variance was arbitrarily assigned to positions, where the major amino acid is present in less than 70% of all sequences. (bachem.com)
  • DNA sequencing did reveal several amino acid differences in the D. pachea Neverland protein, however. (the-scientist.com)
  • 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)
  • Consequently, species names are often used indiscriminately without standard identification criteria, leading to confusion in global species distribution patterns and impeding local precision weed control. (nature.com)
  • Emerging species richness patterns were correlated with several environmental factors using generalized linear models. (researchgate.net)
  • Annual range of temperature, an indicator of short-term climatic stability, proved to be of minor importance for the determination of regional species richness patterns. (researchgate.net)
  • In general, our study suggests environmental heterogeneity to be of rather low predictive value for species richness patterns regionally. (researchgate.net)
  • Protein sequences of a total of 95 organism species were obtained from NCBI, JGI and CGP. (biosciencedbc.jp)
  • The database is centered on sequences, described from their biological, technological and organizational dimensions. (uni-hannover.de)
  • The type species is Encephalomyocardi- dents, including diabetes, myocarditis, encephalomyelitis, tis virus , which includes strains of murine encephalomyo- and multiple sclerosis-like disseminated encephalomyeli- carditis virus (EMCV), Mengo virus, and Maus Eberfeld tis. (cdc.gov)
  • The species Theilovirus is represented by Theiler's termed Saffold virus, was sequenced and classifi ed as a murine encephalomyelitis virus (TMEV, also known as cardiovirus. (cdc.gov)
  • Analysis of expression and amino acid sequence of the allergen Mag 3 in two species of house dust mites-Dermatophagoides farinae and D. pteronyssinus (Acari: Astigmata: Pyroglyphidae). (aaem.pl)
  • In this work, we aimed to detect expression of this important allergen and for the first time analyze to the amino acid sequence in other species of house dust mite - Dermatophagoides pteronyssinus [DP]. (aaem.pl)
  • However, the presence of amino acid sequence difference in this allergen might suggest that there exist other isoforms which can make difficult both diagnosis as well as immunotherapy in persons who produce allergic response to this allergen. (aaem.pl)
  • Up to now several allergens have been identified and characterized form different fish species, parvalbumin was identified as a major allergen. (usda.gov)
  • In order to better understand the genomic forces driving the evolution of Echinochloa species toward weed and crop characteristics, we assemble genomes of three Echinochloa species (allohexaploid E. crus-galli and E. colona , and allotetraploid E. oryzicola ) and re-sequence 737 accessions of barnyard grasses and millets from 16 rice-producing countries. (nature.com)
  • In the 90's of the XX century, 2 new and important allergens of house dust mites mites were cloned and sequenced: Mag 1 and Mag 3. (aaem.pl)
  • This review aims to link recent molecular data, often translated into amino acid sequences and predicted three dimensional structural motifs, to known mechanical properties. (bioone.org)
  • This damage results from a buildup of harmful molecules called reactive oxygen species, which are byproducts of energy production in mitochondria. (medlineplus.gov)
  • For more than 30 years, his main research interests have been the functional and structural study of the enzymes of peptidoglycan biosynthesis, the determination of the structure of peptidoglycan from certain bacterial species, and the search for peptidoglycan biosynthesis inhibitors that could act as antibacterial agents. (degruyter.com)
  • AlphaFold builds on this huge body of experimental information and generates its predictions by analysing the relationship between these known protein structures and huge amounts of protein-sequence data. (embl.org)
  • As a result, AlphaFold is able to produce accurate structure predictions even for amino-acid sequences that it has never encountered before. (embl.org)
  • Her main research interests have been the study of Mur ligases from different bacterial species and the search for inhibitors of these enzymes. (degruyter.com)
  • Then came another surprise: the Neverland enzymes from other species were capable of utilizing lathosterol too. (the-scientist.com)
  • Not only that, the other species' enzymes were better at it. (the-scientist.com)
  • Our results provide genomic insights into the dual roles of Echinochloa species as weeds and crops as well as essential resources for studying plant polyploidization, adaptation, precision weed control and millet improvements. (nature.com)
  • There is a negative charge cluster from amino acid 149 to 172. (wikipedia.org)
  • 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)
  • Primary environmental variables like temperature, precipitation and evapotranspiration were used to test climate-related hypotheses of species richness. (researchgate.net)
  • Physical characterization of the protein (BsDHFR) indicates that it is a monomeric protein with a molecular mass of 18,694.6 Da (0.8), coincident with the mass of 18 694.67 Da calculated from the primary sequence. (duke.edu)
  • Effective search over large and curated sequence data may enable faster responses to future threats that could arise from new viruses. (uni-hannover.de)
  • Model evaluation results in a correlation coefficient of 0.64 between modelled and observed species numbers in an independent test data set. (researchgate.net)
  • This means that for every known sequence in the UniProt data resource there will be either an experimentally determined structure (in the Protein Data Bank, PDB), or a predicted structure in AlphaFold DB, or the structure can be readily modeled using traditional structure-prediction techniques based on models for similar sequences in PDB or AlphaFold DB. (embl.org)
  • 2 Due to a lack of sequence data this virus was initially identified as Enterovirus 109 (EV-109). (who.int)
  • This protein has 95% amino acid sequence identity to the mouse Wbp11 protein. (prosci-inc.com)
  • 10 It showed 99% amino acid identity to EV-C105 with sequence coverage of 100% (GenBank accession number: AFG25720), an EV-C105 strain that was identified in Cyprus in 2012. (who.int)
  • The next closest genotype was EV-109 with 89% amino acid identity (GenBank accession number: ADK22861), another group C enterovirus. (who.int)