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Genes, HomeoboxHomeodomain ProteinsAmino AcidsSequence Homology, Amino AcidAmino Acid SequenceAntennapedia Homeodomain ProteinMolecular Sequence DataCloning, MolecularBase SequenceAmino Acid SubstitutionTranscription FactorsBinding SitesSequence AlignmentDNAMutationAmino Acids, EssentialDNA-Binding ProteinsProtein Structure, TertiaryProtein BindingAmino Acid MotifsAmino Acid Transport SystemsLIM-Homeodomain ProteinsDNA, ComplementaryGene Expression Regulation, DevelopmentalMutagenesis, Site-DirectedRecombinant Fusion ProteinsSequence Homology, Nucleic AcidEscherichia coliModels, MolecularTranscription, GeneticRecombinant ProteinsConserved SequenceStructure-Activity RelationshipRepressor ProteinsProtein ConformationCell LinePaired Box Transcription FactorsPeptide FragmentsKineticsLength of StayDNA PrimersPhylogenyRNA, MessengerDrosophila ProteinsAmino Acids, AromaticLeucinePromoter Regions, GeneticNuclear ProteinsSequence Analysis, DNAAmino Acids, Branched-ChainRestriction MappingPeptidesSubstrate SpecificityAmino Acids, SulfurDrosophilaProtein Structure, SecondaryTrans-ActivatorsPlasmidsBacterial ProteinsProteinsPolymerase Chain ReactionTransfectionMolecular WeightAlanineSequence DeletionMSX1 Transcription FactorElectrophoresis, Polyacrylamide GelLysineSpecies SpecificityCarrier ProteinsPhenotypeConsensus SequenceMutagenesisGene LibraryIn Situ HybridizationGenes, BacterialGene Expression RegulationNerve Tissue ProteinsGene ExpressionSequence AnalysisPoint MutationPlant ProteinsTranscriptional ActivationSaccharomyces cerevisiaePolymorphism, Restriction Fragment LengthEvolution, MolecularCattleProtein BiosynthesisMultigene FamilyCOS CellsAmino Acid Transport Systems, BasicTwo-Hybrid System TechniquesBiological TransportEye ProteinsGenesOctamer Transcription Factor-1Open Reading FramesIsoleucineChromatography, High Pressure LiquidAmino Acids, Basic
ProteinsTranscriptionNucleotide sequencesGenomeGenesHomeoboxLeucine zipperZinc-fingerHomologyMoleculeOrganismRepeatsProtein sequenceSimilarityMutationGeneSuperfamilySalicylicNucleotidesMotifsNuclearEncodeEnhancerBase SequencePolypeptide chainStrainCellsStructuresSpecificRecombinantMutationsBLASTWatersHumanShownStructureGenerallyTime
Proteins5
  • it has been known for forty years that the structures of proteins are determined by their amino acid sequences, but as recently as five or six years ago it was generally thought that the prediction problem was completely intractable as very little progress had been made. (bakerlab.org)
  • this goal remained elusive for the first few years, but about a year and a half ago we made a breakthrough and found that we could make very accurate predictions for some proteins using a trick that involves folding not only the sequence of the protein of interest but also the sequences of a large number of evolutionarily related homologs. (bakerlab.org)
  • so now, looking at David Kim's results and seeing that for quite a few proteins we are coming close to predicting structure from their amino acid sequences without any other information is pretty breathtaking. (bakerlab.org)
  • These proteins were efficiently degraded independent of the length of the polyGln repeat. (5dok.org)
  • A subfamily of HELIX-TURN-HELIX DNA-binding proteins that contain a variable length loop adjacent to the HTH motif. (bvsalud.org)
Transcription6
  • Most activators work by binding to a specific sequence located within or near an enhancer or promoter and facilitating the binding of RNA polymerase and other transcription machinery in the same region. (wikipedia.org)
  • OTX2 is a 289 amino acid containing protein encoding a member of the bicoid sub-family of homeodomain-containing transcription factors. (thermofisher.com)
  • Transcription factors (TFs), which bind to specific nucleotide sequences, have been shown to play important roles in the regulatory networks of numerous developmental processes in plants. (ashs.org)
  • HD-Zips (Homeodomain-Leucine Zippers) are a class of plant-specific transcription factors that play multiple roles in plant growth and development. (biomedcentral.com)
  • HD-Zip transcription factors belong to the Homeodomain (HD) transcription factor superfamily and are only found in plants. (biomedcentral.com)
  • Members of this subgroup share a conserved motif of 19 amino acids in the putative transcription activation domain at the C-terminal end. (gao-lab.org)
Nucleotide sequences1
  • Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories. (lookformedical.com)
Genome5
  • Large tumor genome sequencing projects have now uncovered a few hundred genes involved in the onset of tumorigenesis, or drivers, in some two dozen malignancies. (biomedcentral.com)
  • The full-length US11 gene, which is composed of 459 bp (base pairs) and predicted to encode a protein of 152 amino acids, was amplified successfully from the HSV-1 (strain F) genome (Figure 1 , lane 1). (biomedcentral.com)
  • Epigenetics is the study of how the environment, behavior, and other mechanisms cause changes to the genome that can contribute to the regulation of gene expression and other biological processes without changing to the underlying primary DNA sequences. (activemotif.com.cn)
  • Because these processes can't be explained solely by the primary DNA sequence of the genome there must be a second level of regulation at play. (activemotif.com.cn)
  • Reference Genome == '''Nucleotide View''' When zoomed in, the DNA sequence of the Release 6 (R6) [http://flybase.org/reports/FBrf0227719.html (Hoskins et al, 2015)] genome is shown as color-coded blocks, G-orange, A-green, T-red, C-blue. (flybase.org)
Genes8
  • The ms4 locus was fine mapped to a 216 kb region, which contains 23 protein-coding genes including Glyma.02G243200 , an ortholog of Arabidopsis MALE MEIOCYTE DEATH 1 ( MMD1 ), which is a Plant Homeodomain (PHD) protein involved in male fertility. (biomedcentral.com)
  • Based on previous phylogenetic analyses in arabidopsis ( Arabidopsis thaliana ), our results showed that some tomato SL-ZH ( S. lycopersicum zinc-finger homeodomain) genes cluster into the same neighbor-joining (NJ) branch as arabidopsis, indicating that these genes may share similar structures and functions in these plants. (ashs.org)
  • In contrast, the Fushi Tarazu homeodomain protein is an activator, both in cultured cells and in Drosophila embryos, where it activates several known target genes, including its own gene. (biologists.com)
  • Quantitative real-time PCR was used to test the expression of ZmCAMTA genes under several abiotic stresses (drought, salt, and cold), various stress-related hormones [abscisic acid, auxin, salicylic acid (SA), and jasmonic acid] and biotic stress [rice black-streaked dwarf virus (RBSDV) infection]. (frontiersin.org)
  • Eighty known hearing loss genes were selected and simultaneously sequenced by targeted next-generation sequencing (NGS) in 8 Korean families with autosomal dominant non-syndromic sensorineural hearing loss. (biomedcentral.com)
  • Due to the limitation of the Sanger sequencing method, which is highly expensive and time-consuming, it has been difficult to sequence the hundreds of genes in these candidate chromosomal loci. (biomedcentral.com)
  • Therefore, based on the hypothesis that causative mutations of hearing loss are more likely to exist in known hearing loss associated-genes than in novel genes, we performed exon capture and resequencing using Illumina library generation and Solexa sequencing methods. (biomedcentral.com)
  • It attempts to understand the mechanism by which the expression of particular genes is being modulated by some means other than the DNA sequence. (activemotif.com.cn)
Homeobox2
  • The homeodomain domain is generally composed of about 60 amino acids encoded homeobox, which form three alpha helices. (biomedcentral.com)
  • The homeodomain [of a Hox protein] is a 60-amino-acid-long DNA-binding domain (encoded by its corresponding 180-base-pair DNA sequence, the homeobox). (albertkharris.com)
Leucine zipper1
  • HD-Zip protein usually contain two highly conserved domains: homeodomain (HD) and leucine zipper (LZ) [ 1 ]. (biomedcentral.com)
Zinc-finger2
  • Members of the zinc-finger homeodomain (ZF-HD) family play a key role in the control of plant growth and development, which are involved in plant responses to stress. (ashs.org)
  • The RAG1 protein contains Basic domains I, IIa, IIb, III (B), a ring finger domain (R), a zinc finger domain A (A), a homeodomain (H), a core domain (C) and a zinc finger domain B (B). The RAG2 protein contains a core domain (C) and an acidic domain (D). (lu.se)
Homology3
  • The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. (lookformedical.com)
  • Structurally, Mage-D1 possesses the N-terminal sequence Mage homology domain 2 (MHD2), which is a highly conserved structure of the type II Mage gene family. (researchsquare.com)
  • The C-terminal sequence of 220 amino acids is named the Mage homology domain (MHD) and contains 25 repeats of a WQXPXX sequence in the middle region 7 - 10 . (researchsquare.com)
Molecule1
  • acetylation acetyl-CoA A molecule that participates in many biochemical reactions in protein, carbohydrate, and lipid metabolism, notably the citric acid cycle. (wikipedia.org)
Organism1
  • The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. (lookformedical.com)
Repeats2
  • The full-length p200 isoform contains four DNA binding motifs, three CUT repeats, and a homeodomain. (nature.com)
  • Repeat region''' Regions of genomic repeats and low complexity DNA sequences, as computed using RepeatMasker and RepeatRunner [http://{{flybaseorg}}/reports/FBrf0194515.html (Smith, et al. (flybase.org)
Protein sequence3
  • The predicted protein sequence contained a highly conserved homeodomain and the WUS-box domain, which is present in some members of the WOX protein family. (gc.ca)
  • Given that we previously defined the viral np9 gene, which is aberrantly activated in human leukemia, as a potent oncogene [ 1 ], we next attempted to search for cellular homologs of the viral oncogene np9 in NCBI database by performing alignment using Np9 protein sequence. (aging-us.com)
  • Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for STB5 . (yeastrc.org)
Similarity1
Mutation2
  • performed whole-exome sequencing in a Palestinian family with hereditary hearing loss and identified a novel mutation in the gene, GPSM2 , which had been hidden in the autosomal recessive hearing loss locus (DFNB32) first identified by Masmoudi et al. (biomedcentral.com)
  • The sequencing result also showed that there was no mutation of amino acid sequences (data not shown). (biomedcentral.com)
Gene3
  • All six exons of crystallin, beta A4 gene ( CRYBA4 ) were amplified by PCR methods and direct sequencing. (molvis.org)
  • Equatorial segment protein (ESP), a novel 349-amino acid concanavalin-A-binding protein encoded by a two-exon gene ( SP-ESP ) located on chromosome 15 at q22, has been localized to the equatorial segment of ejaculated human sperm. (bioone.org)
  • These gene sequences are conservative through evolution (for example have homologous sequences in flies and in vertebrates) although they don't necessarily have the same function. (albertkharris.com)
Superfamily1
  • 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)
Salicylic2
  • In addition to the control, the seeds were treated with salicylic and gibberellic acids and thiamethoxam. (bvsalud.org)
  • Seed pre-treatments with salicylic and gibberellic acids attenuate the effects of water salinity and promote growth modulations, resulting in more vigorous melon seedlings. (bvsalud.org)
Nucleotides2
  • Next-generation sequencing (NGS) can overcome these limitations through its ability to perform parallel sequencing of billions of nucleotides at a low cost and high speed[ 1 - 4 ]. (biomedcentral.com)
  • A sequence of amino acids in a polypeptide or of nucleotides in DNA or RNA that is similar across multiple species. (lookformedical.com)
Motifs1
Nuclear1
  • Np17 is located on chromosome 8, consists of 7 exons, and encodes a 16.8kDa nuclear protein with149 amino-acid residue. (aging-us.com)
Encode1
  • LIM-homeodomain component responses LHX2, LHX3, LHX4, LHX9 and ISL1 encode previously then reduced established in a host polymerase SLC17 cytokine of ROBO1, ROBO2, ROBO3 and SLIT2( Wilson et al. (erik-mill.de)
Enhancer1
  • This auto-activation has been shown to depend on targeting to a fushi tarazu enhancer by the Fushi Tarazu homeodomain. (biologists.com)
Base Sequence1
Polypeptide chain1
Strain1
  • Natural TE''' Shows the extent of a natural transposable element in the sequenced strain (at the time it was sequenced). (flybase.org)
Cells6
  • The full-length ORF was subcloned into prokaryotic expression vector pET-30a, and an approximately 34-kDa protein was expressed in Escherichia coli BL21 (DE3) cells with IPTG induction. (gc.ca)
  • The Engrailed homeodomain protein is an 'active' or dominant transcriptional repressor in cultured cells. (biologists.com)
  • The His-tagged US11 protein was then expressed in E. coli BL21 (DE3) cells and purified by a nickel-nitrilotriacetic acid (Ni 2+ -NTA) affinity resin under denaturing conditions. (biomedcentral.com)
  • Most people now agree that epigenetics is the study of heritable differences in genetic expression passed down through successive generations of cells or organisms, without any change in the primary DNA sequence. (activemotif.com.cn)
  • However, since all cells of the human body originate from this single-celled ancestor (except germ and immune cells), they have the same primary DNA sequence. (activemotif.com.cn)
  • 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)
Structures2
  • By convention, sequences and structures positioned nearer to the 3'-end relative to others are referred to as downstream. (wikipedia.org)
  • Despite containing the same sequence, all the information is contained therein to form the different tissues and structures of the human body. (activemotif.com.cn)
Specific4
  • One pathway, which has been extensively studied in yeast, is mainly guided by chromatin structure and the other, analyzed in detail in mice, is driven by the sequence-specific DNA-binding PR domain-containing protein 9 (PRDM9). (springer.com)
  • And the arrangement of the three helices determines the difference in the specific binding of homeodomain to DNA. (biomedcentral.com)
  • Contrary to previous predictions, the dimerization interface involves the carboxyl terminus of the DNA recognition helix of the homeodomain, which in an extended conformation interacts with specific residues at the amino terminus of helix alpha1 and in the loop between helices alpha3 and alpha4 of the POU-specific domain of the symmetry related monomer. (rcsb.org)
  • These different actions must depend on the combination of regulators acting on the respective position-specific cis-regulatory sequences. (sdbonline.org)
Recombinant1
  • Full length human recombinant protein of human OTX2 produced in E.coli. (thermofisher.com)
Mutations1
  • Therefore, it has been nearly impossible to identify the precise pathogenic mutations in affected individuals from small families who cannot be examined either through linkage analysis or standard capillary sequencing analysis. (biomedcentral.com)
BLAST1
Waters1
  • They are found in tropical and subtropical waters and characterized by short spines along the length of the tail and body. (lookformedical.com)
Human1
  • Schematic representation of the full-length human RAG1 (top) and RAG2 (bottom). (lu.se)
Shown1
  • Above and below the base representation, the three-frame translation for the plus and minus strands is shown using the single-letter amino acid code. (flybase.org)
Structure2
Generally2
  • Other SD variety Maryland Mammoth was obtained from generally day-neutral (DN) tobacco (plants flowering at their own particular time irrespective of day length). (jabonline.in)
  • A cephalopod arm is distinct from a tentacle, though the terms are often used interchangeably.Generally, cephalopod arms have suckers along most of their length, as opposed to tentacles, which have suckers only near their ends. (absoluteastronomy.com)
Time1
  • Floral inductive signals induce the transformation of SAM into a floral meristem, and plants' flowering time could be affected by growing them in varying day lengths such as shortening day length by shading or increasing the day length by incandescent light bulbs [ 5 ]. (jabonline.in)