• Results: In this study, we have developed a computational method that exploits the existing knowledge on protein-protein interactions in diverse species through orthologous relations on the one hand, and functional association data on the other hand to predict and filter protein-protein interactions in Arabidopsis thaliana. (ugent.be)
  • Arabidopsis thaliana is a first class model organism and the single most important species for fundamental research in plant molecular genetics. (wikipedia.org)
  • Surprisingly, except for Arabidopsis thaliana , virtually no other plant species have experimentally determined PPI data available. (nature.com)
  • Other representative plant species cover even less protein involved in known PPIs. (nature.com)
  • We also examine their occurrence in other organisms and have determined by phylogenetic analysis that, while they are limited to species that contain chloroplasts, their presence in algae and early branching land plant lineages indicates that the coupling of PPR motifs and an SMR domain into a single protein occurred early in the evolution of the Viridiplantae clade. (nih.gov)
  • In addition, we discuss their possible function and have examined conservation between SMR domains from Arabidopsis PPR proteins with those from other species that have been shown to possess endonucleolytic activity. (nih.gov)
  • Find NAPG Proteins for a variety of species such as anti-Human NAPG, anti-Arabidopsis thaliana NAPG, anti-Mouse NAPG. (antibodies-online.com)
  • Proteins that originate from plants species belonging to the genus ARABIDOPSIS. (bvsalud.org)
  • The most intensely studied species of Arabidopsis, Arabidopsis thaliana, is commonly used in laboratory experiments. (bvsalud.org)
  • Sphingolipids and microdomain-associated proteins that are associated with the plasma membrane and endomembrane system are important in plant growth and development. (umd.edu)
  • Identification of Candidate Ergosterol-Responsive Proteins Associated with the Plasma Membrane of Arabidopsis thaliana . (bvsalud.org)
  • The invention/discovery of this 'floral dip' method, published in 1998, made A. thaliana arguably the most easily transformed multicellular organism, and has been essential to many subsequent investigations. (wikipedia.org)
  • Elucidating functions of these proteins advance understanding of signal transduction from plasma membrane into cytosol and between different intracellular membrane compartments. (umd.edu)
  • Friedrich Laibach outlined why A. thaliana might be a good experimental system in 1943 and collected a large number of natural accessions.A. thaliana is largely self-pollinating, so these accessions represent inbred strains, with high homozygosity that simplifies genetic analysis. (wikipedia.org)
  • Indian Himalayan natural Arabidopsis thaliana accessions with abolished miR158 levels exhibit robust miR173-initiated trans-acting cascade silencing. (ncbs.res.in)
  • Here we show that in Himalayan Arabidopsis thaliana accessions having natural mutations in miR158 locus exhibit robust cascade silencing in pentatricopeptide (PPR)-like locus. (ncbs.res.in)
  • THA8L resembles THA8 (thylakoid assembly 8), a protein that is required for the splicing of specific group II introns of genes involved in biogenesis of chloroplast thylakoid membranes. (rcsb.org)
  • A cDNA from Arabidopsis thaliana similar to microbial photolyase genes, and designated AT-PHH1, was isolated using a photolyase-like cDNA from Sinapsis alba (SA-PHR1) as a probe. (oregonstate.edu)
  • Thus, stress response studies during these growth stages reveal novel differentially regulated genes or proteins with important functions in plant stress adaptation. (intechopen.com)
  • Discover related pathways, diseases and genes to TRIM50C Recombinant Protein (H00378108-P01). (novusbio.com)
  • Here, we use a computational approach to perform genome-wide identification and analysis of 611 orthologues of the Arabidopsis thaliana flowering genes. (springer.com)
  • Pentatricopeptide repeat (PPR) proteins are sequence-specific RNA-binding proteins that form a pervasive family of proteins conserved in yeast, plants, and humans. (rcsb.org)
  • A highly reliable set of protein-protein interactions is predicted through this integrative approach making use of existing protein-protein interaction data from yeast, human, C. elegans and D. melanogaster. (ugent.be)
  • ARPs, actin-related proteins) exist between different lineages, they are active in specific processes such as growth, cancer metastasis and trichome development in yeast, human and Arabidopsis, respectively. (ugent.be)
  • The absence of significant effects on resistance suggests either that any putative AT-PHH1 DNA repair activity requires cofactors/chromophores not present in yeast or E. coli, or that AT-PHH1 encodes a blue-light/ultraviolet-A receptor rather than a DNA repair protein. (oregonstate.edu)
  • Background: Plant bZIP proteins characteristically harbor a highly conserved bZIP domain with two structural features: a DNA-binding basic region and a leucine (Leu) zipper dimerization region. (datadryad.org)
  • The 14-3-3 proteins are highly conserved in all eukaryotes. (elifesciences.org)
  • Thus, endomembrane-modifying proteins within the endomembrane system will have an influence on the final grain quality/yield and recombinant protein production. (nature.com)
  • There are no publications for TRIM50C Recombinant Protein (H00378108-P01). (novusbio.com)
  • Cloning of an A. thaliana gene, an alcohol dehydrogenase-encoding locus, was described in 1986, by which time mutations at over 200 loci had been defined. (wikipedia.org)
  • A PPI network provides crucial information on how biological pathways are structured and coordinated from individual protein functions. (nature.com)
  • PPIs are essential for individual protein functions, forming various cellular pathways, and are also involved in the development of diseases. (nature.com)
  • Title: The mitochondrial proteins AtHscB and AtIsu1 involved in Fe-S cluster assembly interact with the Hsp70-type chaperon AtHscA2 and modulate its catalytic activity. (genscript.com)
  • Here, we developed a computational approach for detecting PPIs trained and tested on known PPIs of Arabidopsis thaliana and applied to three plants, Arabidopsis thaliana , Glycine max (soybean), and Zea mays (maize) to discover new PPIs on a genome-scale. (nature.com)
  • Lyophilized from a 0.2 μm filtered solution in Glycine, Sucrose, Tween® 80 and Glutamic Acid with BSA as a carrier protein. (novusbio.com)
  • This file includes the bZIPs protein sequences from Arabidopsis thaliana and six legume genomes (Glycine max,Medicago truncatula,Cajanus cajan,Cicer arietinum,Phaseolus vulgaris and Lotus japonicus). (datadryad.org)
  • The AT-PHH1 and SA-PHR1 cDNA sequences predict 89% identity at the protein level, except for an AT-PHH1 C-terminal extension (111 amino acids), also not seen in microbial photolyases. (oregonstate.edu)
  • member of Myosin-like proteins The mRNA is cell-to-cell mobile. (utoronto.ca)
  • Arabidopsis thaliana SufE/NifU family protein (ISU1), mRNA. (genscript.com)
  • Arabidopsis thaliana exocyst subunit exo70 family protein E1 (EXO70E1), mRNA. (genscript.com)
  • These strategies involve rearrangements at the molecular level starting from transcription, regulation of mRNA processing, translation, and protein modification or its turnover. (intechopen.com)
  • The plant PPR proteins are grouped mainly into the P and PLS classes. (rcsb.org)
  • Sequence alignments identified that prosaposin-like proteins are ubiquitous in plant kingdom. (umd.edu)
  • These results will broaden our understanding of the protein-lipid interaction in the cell and the biological functions of saposin-like proteins in plant growth and development. (umd.edu)
  • The functional repertoire of the identified interactome reveals interactions between proteins functioning in well-conserved as well as plant-specific biological processes. (ugent.be)
  • A. thaliana was the first plant for which a high-quality reference genome sequence was determined (see below), and a worldwide research community has developed many other genetic resources and tools. (wikipedia.org)
  • The A. thaliana subcommunity espoused an ethos of freely sharing information and materials, and investigators were attracted by the perceived wide-open nature of plant molecular genetics relative to other fields that were better established and thus more "crowded" and competitive. (wikipedia.org)
  • Pioneering A. thaliana studies have used its natural filamentous pathogen Hyaloperonospora arabidopsidis, the model plant-pathogenic bacterium Pseudomonas syringae, and many other microbes.A. thaliana roots are transparent and have a relatively simple radially symmetric cellular structure, facilitating analysis by microscopy. (wikipedia.org)
  • Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. (genscript.com)
  • The short-term protein trafficking inhibition and long-term effect on plant growth and survival caused by TE1 were fully reversible upon drug washout. (portlandpress.com)
  • For annual plants, such as Arabidopsis thaliana , proper determination of the flowering time is critical for plant reproductive success because a switch from vegetative to reproductive development is irreversible. (biomedcentral.com)
  • The HMW agents that were considered most relevant were flour dusts, enzymes (both plant and animal derived), gums, foods and tobacco, rubber-derived proteins, animal- and insect-derived allergens, and fish/ seafood-derived allergens ( Table 1 ). (cdc.gov)
  • Seeds of aspa1-2 aspa2-1 aspa3-3 triple mutant (aspa1 is knock-down, aspa2 and aspa3 are knock-out alleles) showed delayed germination rates and delayed seed storage proteins degradation. (umd.edu)
  • These results suggest that ASPAs process seed storage proteins during seed germination in vivo, and probably also involved in protein storage vacuolar fusion regulation. (umd.edu)
  • The significance of this dissertation is that it demonstrates that ASPAs process seed storage proteins during seed germination in vivo for the first time. (umd.edu)
  • Cereal endosperm is a short-lived tissue adapted for nutrient storage, containing specialized organelles, such as protein bodies (PBs) and protein storage vacuoles (PSVs), for the accumulation of storage proteins. (nature.com)
  • The starchy endosperm thereby is characterized as a storage site, accumulating starch and seed storage proteins (SSPs) 2 . (nature.com)
  • During development, protein trafficking and storage require an extensive reorganization of the endomembrane system. (nature.com)
  • Based on proteome annotation and a homology search, 94 proteins associated with the endomembrane system were identified that exhibited significant changes in abundance during grain development. (nature.com)
  • Consequently, A. thaliana cannot to be used as a model system to study the endomembrane system in grain endosperm. (nature.com)
  • Purification and characterization of two protein kinases acting on the aquaporin SoPIP2;1. (lu.se)
  • As in the case of ZmCRP1, AtCRP1 associates with the 5 0 UTRs of both psaC and, albeit very weakly, petA transcripts, indicating that the role of CRP1 as regulator of chloroplast protein synthesis has been conserved between maize and Arabidopsis. (fmach.it)
  • We predict this structure to be a membrane protein. (expasy.org)
  • Affinity tags can reduce merohedral twinning of membrane protein crystals. (lu.se)
  • The A. thaliana genome was shown to be relatively small and nonrepetitive, which was an important advantage for early molecular methods. (wikipedia.org)
  • An international consortium began developing a physical map for A. thaliana in 1990, and DNA sequencing and assembly efforts were formalized in the Arabidopsis Genome Initiative (AGI) in 1996. (wikipedia.org)
  • In this review, we summarize current knowledge of PPR-SMR proteins focusing on Arabidopsis and maize proteomic and mutant studies. (nih.gov)
  • Robust classification of protein variation using structural modelling and large-scale data integration. (lu.se)
  • All plastid protein complexes are composed of subunits encoded by the nucleus and chloroplast genomes, which require a coordinated gene expression to produce the correct concentrations of organellar proteins and to maintain organelle function. (fmach.it)
  • PPR proteins represent a large family in plants, and the extent to which PPR functions are conserved between dicots and monocots deserves evaluation, in light of differences in photosynthetic metabolism (C3 vs. C4) and localization of chloroplast biogenesis (mesophyll vs. bundle sheath cells). (fmach.it)
  • In this work we investigated the role played in the process of chloroplast biogenesis by At5g42310, a member of the Arabidopsis PPR family which we here refer to as AtCRP1 (Chloroplast RNA Processing 1), providing a comparison with the orthologous ZmCRP1 protein from Zea mays. (fmach.it)
  • Conclusion: We conclude that the integration of orthology with functional association data is adequate to predict protein-protein interactions. (ugent.be)
  • Our method considers a variety of features including protein sequences, gene co-expression, functional association, and phylogenetic profiles. (nature.com)
  • In these reactions, precursor proteins converted themselves into active enzymes that were not peptidases. (ebi.ac.uk)
  • Enzymes are proteins used as biocatalysts to reduce or replace the use of chemi- cals in a variety of processes.9 As catalysts, enzymes are used in a variety of indus- tries, including cleaning, food processing, animal feed, fuel alcohol, textile, paper, and pharmaceuticals. (cdc.gov)
  • Laibach had earlier (1907) determined the A. thaliana chromosome number (5) as part of his PhD research. (wikipedia.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)
  • These sequences represent the protein coding region of the ISU1 cDNA ORF which is encoded by the open reading frame (ORF) sequence. (genscript.com)
  • Phylogeny of major intrinsic proteins. (lu.se)
  • Background: Large-scale identification of the interrelationships between different components of the cell, such as the interactions between proteins, has recently gained great interest. (ugent.be)
  • Identification of protein-protein interactions (PPIs) is important for understanding how proteins work together in a coordinated fashion in a cell to perform cellular functions. (nature.com)
  • Blocking the interaction between PIF7 and 14-3-3 proteins or reducing the expression of 14-3-3 proteins accelerates shade-induced nuclear localization and de-phosphorylation of PIF7, and enhances the shade phenotype. (elifesciences.org)
  • We functionally validated the tertiary phasiRNA that targets NHX2 a Na -K /H antiporter protein thereby regulating transpiration and stomatal conductance. (ncbs.res.in)
  • In plants, two types of proteins contain saposin B-like domains (SapB-like domains): saposin-domain containing aspartic proteases (ASPAs) and prosaposin-like proteins (PSAPLIPs). (umd.edu)
  • George Rédei pioneered the use of A. thaliana for fundamental studies, mutagenizing plants with ethyl methanesulfonate (EMS) and then screening them for auxotrophic defects and writing an influential review in 1975. (wikipedia.org)
  • A small subset of the large pentatricopeptide repeat (PPR) protein family in higher plants contain a C-terminal small MutS-related (SMR) domain. (nih.gov)
  • Shade-intolerant plants, such as Arabidopsis thaliana , sense this reduction and initiate the shade avoidance syndrome (SAS). (elifesciences.org)
  • The main aim of our research is to understand the molecular details and physiological roles of the multitude of water channel-like proteins present in plants and animals. (lu.se)
  • Annotation of Selaginella moellendorffii major intrinsic proteins and the evolution of the protein family in terrestrial plants. (lu.se)
  • Together, these results further our understanding of the mechanism of PPR protein-RNA interactions. (rcsb.org)
  • Localization, biological process, and co-expression data are used as powerful indicators for protein-protein interactions. (ugent.be)
  • Overall, we have predicted a reliable set of protein-protein interactions suitable for further computational as well as experimental analyses. (ugent.be)
  • De Bodt S, Proost S, Vandepoele K, Rouzé P, Van de Peer Y. Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression. (ugent.be)
  • Protein-protein interactions (PPIs) play essential roles in many biological processes. (nature.com)
  • Even for Arabidopsis , known PPI data cover interactions with only about 34.55% of proteins. (nature.com)
  • Among these factors, members of the Pentatricopeptide Repeat (PPR) containing protein family have emerged as key regulators of the organellar post-transcriptional processing. (fmach.it)
  • Loss-of-function atcrp1 mutants are characterized by yellow-albinotic cotyledons and leaves owing to defects in the accumulation of subunits of the thylakoid protein complexes. (fmach.it)
  • Together our data identified promising targets to be genetically engineered to modulate seed storage protein accumulation that have a growing role in health and nutritional issues. (nature.com)
  • Moreover, endosomal sorting complex required for transport (ESCRT)-related proteins and their transcripts are most abundant at early and mid-development. (nature.com)
  • Localization of organelle proteins by isotope tagging (LOPIT). (joplink.net)
  • These studies have revealed that 14-3-3 proteins can interact with the phosphorylated forms of their client proteins in response to certain signals, and that this binding finalizes the signaling event by enabling a change in the subcellular localization, protein stability or intrinsic enzymatic activity of the client, or by promoting an association between the client and other proteins. (elifesciences.org)
  • The experimental advantages of A. thaliana have enabled many important discoveries. (wikipedia.org)
  • GenScript guarantees 100% sequence accuracy of all synthetic DNA constructs we deliver, but we do not guarantee protein expression in your experimental system. (genscript.com)
  • Disclaimer note: The observed molecular weight of the protein may vary from the listed predicted molecular weight due to post translational modifications, post translation cleavages, relative charges, and other experimental factors. (novusbio.com)
  • notably, integration of proteomics data with in situ subcellular microscopic analyses showed a high abundance of cytoskeleton proteins associated with acidified PBs at the early development stages. (nature.com)
  • The only peptidase reactions known to be catalysed by proteins in the family at the time were autolytic cleavage events. (ebi.ac.uk)
  • Protein fold of the peptidase unit for members of this family resembles that of archaean proteasome subunit B, the type example of clan PB. (ebi.ac.uk)
  • This protein was produced in an in vitro wheat germ expression system that should preserve correct conformational folding that is necessary for biological function. (novusbio.com)
  • Is there any database about the abundance of proteins in urine of healthy patients? (stackexchange.com)