• It is the most prevalent member of the eIF4A family of ATP-dependant RNA helicases, and plays a critical role in the initiation of cap-dependent eukaryotic protein translation as a component of the eIF4F translation initiation complex. (wikipedia.org)
  • eIF4A1 is a component of the eIF4F translation initiation complex, along with eIF4E, the 5'-terminal cap binding protein, and eIF4G, the scaffold protein that holds eIF4A and eIF4E together. (wikipedia.org)
  • The regulation of the translation of mRNA transcripts into protein is one of the best ways that a cell can alter its response to its environment, as changes to the transcription of genes often takes considerably more time to be enacted. (wikipedia.org)
  • ferrivorans SS3 to culture at 8 A degrees C compared to 20 A degrees C. Analysis revealed 373 differentially expressed genes of which, the majority were of unknown function. (diva-portal.org)
  • We identified multiple genes and proteins, including known and putative regulators, that reported significant proteomic and transcriptomic changes between primed and nonprimed plants. (bvsalud.org)
  • DDX5 is required for cell proliferation by controlling the transcription of genes expressing DNA replication proteins in cancer cells in which the DDX5 locus is amplified, and this has uncovered a dependence on DDX5 for cell proliferation. (aacrjournals.org)
  • In most eukaryotes studied, ubiquitin is encoded by two classes of genes: (i) The first comprises genes coding for a single copy of ubiquitin fused to ribosomal proteins (r-proteins), most commonly eL40 and eS31. (123dok.net)
  • Twenty-three genes, which were differentially expressed between adjacent normal and tumor samples, were selected and analyzed using 24 paired lung adenocarcinoma samples by Q-RT-PCR using two internal controls, DDX5 and GAPDH . (biomedcentral.com)
  • From the functional enrichment analyses results and the differently spatio-temporal expression patterns of transcriptional factors(TFs), protein kinases(PKs) and several plant hormone-related genes, plant hormone related stress signal construction pathways, ion and protein kinases related signaling pathways and transcriptional regulation were predicted to participate in regulating cold stress response in Arabidopsis . (nefu.edu.cn)
  • The molecular functions of upregulated genes in MZ-2 were mainly enriched for protein degradation and amino acid metabolism. (biomedcentral.com)
  • Low temperature-adapted microorganisms have strategies to grow at cold temperatures such as the production of cold acclimation proteins, DEAD/DEAH box helicases, and compatible solutes plus increasing their cellular membrane fluidity. (diva-portal.org)
  • DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases which are implicated in a number of cellular procsses involving RNA binding and alteration of RNA secondary structure. (nih.gov)
  • DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp, are putative RNA helicases. (thermofisher.com)
  • This antigen is also known as Probable ATP-dependent RNA helicase DDX41. (uiowa.edu)
  • Modeling small-molecule interactions in the nucleotide cleft of eIF4A1, therefore, assesses the ability of molecules to lock eIF4A1 in a conformation unable to cycle through ATPase and helicase activities. (miami.edu)
  • loop_ _audit_author.name _audit_author.pdbx_ordinal 'Montpetit, B.' 1 'Thomsen, N.D.' 2 'Helmke, K.J.' 3 'Seeliger, M.A.' 4 'Berger, J.M.' 5 'Weis, K.' 6 # _citation.id primary _citation.title 'A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export. (rcsb.org)
  • eIF4A1 unwinds the secondary structure of RNA within the 5'-UTR of mRNA, a critical step necessary for the recruitment of the 43S preinitiation complex, and thus the translation of protein in eukaryotes. (wikipedia.org)
  • Here, we highlight that an important RNA sequence region, encompassing an exon-intron hairpin loop (also called IDX-rasISS1), of the H-Ras pre-mRNA may encode an ncRNA that regulates p68 RNA helicase. (lidsen.com)
  • The proteome and transcriptome abundance atlas uncovered alterations between mRNA and protein quantities within tissues and salinity conditions. (bvsalud.org)
  • Conservation of the RNA helicases suggests that mRNA structurome remodelling is a general mechanism for stress-induced translation across kingdoms. (biorxiv.org)
  • After translation of their mRNA-sense genomic RNA(s), the viral RNA and the viral replication proteins are recruited to the site of viral replication in membranous compartments. (prolekarniky.cz)
  • Homo sapiens BUB3 mitotic checkpoint protein (BUB3), transcript variant 2, mRNA. (dbcls.jp)
  • Homo sapiens CGG triplet repeat binding protein 1 (CGGBP1), transcript variant 1, mRNA. (dbcls.jp)
  • To examine the involvement of interchromatin granule clusters (IGCs) in transcription and pre-mRNA splicing in mammalian cell nuclei, the serine-arginine (SR) protein kinase cdc2-like kinase (Clk)/STY was used as a tool to manipulate IGC integrity in vivo. (rupress.org)
  • Some neoplasm proteins are tumor antigens (ANTIGENS, NEOPLASM), i.e. they induce an immune reaction to their tumor. (lookformedical.com)
  • Many neoplasm proteins have been characterized and are used as tumor markers (BIOMARKERS, TUMOR) when they are detectable in cells and body fluids as monitors for the presence or growth of tumors. (lookformedical.com)
  • The DEAD box family is marked by a structurally highly conserved helicase core consisting of two RecA-like domains joined by a flexible hinge region around which the protein can open and close upon hydrolysis of ATP. (wikipedia.org)
  • Ubiquitin is a highly conserved small eukaryotic protein. (123dok.net)
  • Aliquot and store at ≤ -20°C for long term storage. (antibodiesinc.com)
  • For long term storage, divide the solution into volumes of no less than 20 ul for freezing at -20°C or -80°C. The small volume aliquot should provide sufficient reagent for short term use. (uiowa.edu)
  • Among the identified host proteins are RNA-binding proteins, such as translation factors, ribosomal proteins and RNA-modifying enzymes [1] . (prolekarniky.cz)
  • It is generated by proteolytic cleavage of precursor proteins in which it is fused either to itself, constituting a polyubiquitin precursor of head-to-tail monomers, or as a single N-terminal moiety to ribosomal proteins. (123dok.net)
  • Understanding the role of the ubiquitin fused to ribosomal proteins becomes relevant, as these proteins are practically invariably eS31 and eL40 in the different eukaryotes. (123dok.net)
  • Herein, we used the amenable yeast Saccharomyces cerevisiae to study whether ubiquitin facilitates the expression of the fused eL40 (Ubi1 and Ubi2 precursors) and eS31 (Ubi3 precursor) ribosomal proteins. (123dok.net)
  • We conclude that ubiquitin might serve as a cis-acting molecular chaperone that assists in the folding and synthesis of the fused eL40 and eS31 ribosomal proteins. (123dok.net)
  • Ubiquitin fusion to other r-proteins, such as P1 or P2, and even to non-ribosomal proteins such as actin, has been reported in diverse genera of rare single-celled algae as, for example, Bigelowiella [6]. (123dok.net)
  • The name "DEAD box" refers the key D-E-A-D amino acid sequence on motif II of the helicase that participates in nucleoside triphosphate binding (in the instance of eIF4A1, ATP). (wikipedia.org)
  • The non-covalent binding of Trf4 ( P53632 ) and the DExH-helicase core of Mtr4 ( P47047 , PF00270 ) is mediated by the described motif, which is conserved in both Trf4 ( P53632 ) and Trf5 ( P48561 ) in Fungi . (eu.org)
  • Li, S.C., Chung, M.C. and Chen, C.S. Cloning and characterization of a DEAD box RNA helicase from the viable seedlings of aged mung bean. (enzyme-database.org)
  • This gene encodes a DEXD/H box RNA helicase that functions as an antiviral factor and promotes RIG-I-like receptor-mediated signaling. (nih.gov)
  • Glomerular endothelial expression of type I IFN-stimulated gene, DExD/H-Box helicase 60 via toll-like receptor 3 signaling: possible involvement in the pathogenesis of lupus nephritis. (nih.gov)
  • DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting RIG-I-like receptor-mediated signaling. (nih.gov)
  • Furthermore, chromatophore-localized biosynthetic pathways as well as multiprotein complexes include proteins of dual genetic origin, suggesting that mechanisms evolved that coordinate gene expression levels between chromatophore and nucleus. (frontiersin.org)
  • The eIF4F complex is often accompanied by the accessory proteins eIF4B and eIF4H, either of which can differentially enhance the activity of eIF4A1. (wikipedia.org)
  • A total of 257 differentially expressed proteins (DEPs) were identified by iTRAQ, which provided a comprehensive overview on the functional protein profile changes of tuber development regulated by JA. (biomedcentral.com)
  • In response to immune induction, uORF-inhibition is alleviated by three Ded1p/DDX3X-homologous RNA helicases which unwind the RNA structures, allowing ribosomes to bypass the inhibitory uORFs and upregulate defence protein production. (biorxiv.org)
  • In this paper, we show that an essential translation factor, Ded1p DEAD-box RNA helicase of yeast, directly affects replication of Tomato bushy stunt virus (TBSV). (prolekarniky.cz)
  • To separate the role of Ded1p in viral protein translation from its putative replication function, we utilized a cell-free TBSV replication assay and recombinant Ded1p. (prolekarniky.cz)
  • In addition, we have developed an in vitro assay for Flock house virus (FHV), a small RNA virus of insects, that also demonstrated positive effect on FHV replicase activity by the added Ded1p helicase. (prolekarniky.cz)
  • This gene is a member of the protein-tyrosine kinase oncogene family. (cancerindex.org)
  • The protein associates with the p85 subunit of phosphatidylinositol 3-kinase and interacts with the fyn-binding protein. (cancerindex.org)
  • Together with B cell lymphoma (Bcl)10 and the paracaspase, mucosa-associated lymphoid tissue lymphoma translocation protein (Malt)1, Card9 links spleen-tyrosine kinase (Syk)-coupled C-type lectin receptors to inflammatory responses. (nih.gov)
  • In Fungi , it is formed by a RNA Helicase, Mtr4, in addition with a poly(A)polymerase, Trf4 or Trf5 and a RNA-binding zinc knuckle protein, Air1/2. (eu.org)
  • The TRAMP complex consists of a RNA helicase (MTR4), a poly(A)polymerase (Trf4 or Trf5) and a RNA-binding zinc knuckle protein (Air1 or Air2). (eu.org)
  • The duplication of the polymerase Trf and the zinc knuckle protein Air arose due to a whole genome duplication event in Saccharomyces cerevisiae ( 15004568 ). (eu.org)
  • Protein-protein interactions were identified using the STRING database and were visualized using Cytoscape. (csu.edu.cn)
  • Our data suggest that the protein-protein interactions responsible for the clustering of interchromatin granules are disrupted when SR proteins are hyperphosphorylated and stabilized when SR proteins are hypophosphorylated. (rupress.org)
  • It encodes a large nuclear protein that is a component of DNA repair pathways. (lookformedical.com)
  • It encodes a large, nuclear protein that is an essential component of DNA repair pathways, suppressing the formation of gross chromosomal rearrangements. (lookformedical.com)
  • This gene encodes a DEAD box protein, which is a homolog of VASA proteins in Drosophila and several other species. (thermofisher.com)
  • Gross, C.H. and Shuman, S. The nucleoside triphosphatase and helicase activities of vaccinia virus NPH-II are essential for virus replication. (enzyme-database.org)
  • Bioinformatics , 28 (20), 2691-2692. (au.dk)
  • Altogether, the two host factors enhance TBSV replication synergistically by interacting with the viral (−)RNA and the replication proteins. (prolekarniky.cz)
  • The single genomic RNA codes for two replication proteins, p33 and p92 pol , which are sufficient to support TBSV replicon (rep)RNA replication in yeast ( Saccharomyces cerevisiae ) model host [13] , [14] . (prolekarniky.cz)
  • A C-terminal ataxin-2 disordered region promotes Huntingtin protein aggregation and neurodegeneration in Drosophila models of Huntington's disease. (tcd.ie)
  • A genome-wide resource for the analysis of protein localisation in Drosophila. (tcd.ie)
  • And, a large number of protein biosynthesis, degradation and assembly-related were up-regulated by JA to promote tuber protein biosynthesis and maintain strict protein quality control during tuber development. (biomedcentral.com)
  • Ubiquitin functions as a reversible post-translational modifier of proteins to regulate many different cellular processes such as DNA repair, chromatin dynamics, cell cycle regulation, membrane and protein trafficking, endocytosis, autophagy, but most notably proteasome-dependent protein degradation [2-4]. (123dok.net)
  • Eukaryotic initiation factor 4A-I (also known as eIF4A1 or DDX2A) is a 46 kDa cytosolic protein that, in humans, is encoded by the EIF4A1 gene, which is located on chromosome 17. (wikipedia.org)
  • eIF4A1 and eIF4A2 share 90% sequence similarity, and are both cytoplasmic proteins, while eIF4A3 is localized to the nucleus, and shares only 60% homology. (wikipedia.org)
  • eIF4A1 is a member of the DEAD box family of RNA helicases. (wikipedia.org)
  • eIF4A1 is an ATP-dependent RNA helicase, however the exact nature of its dependence on ATP for its function is still debated. (wikipedia.org)
  • Although after ATP binding, the subsequent hydrolysis induces conformational changes in eIF4A1, other DEAD-box RNA helicases have been shown to possess helicase activity in the presence of nonhydrolyzable analogues of ATP, suggesting that binding, and not hydrolysis, is the more important element in regulating activity. (wikipedia.org)
  • To discover new, specific and tractable inhibitors of eIF4A1 that are more drug-like, we have constructed several molecular models that we used to virtually screen more than 20 million compounds. (miami.edu)
  • eIF4A1 is the founding member of the DEAD-box RNA helicases, which include its paralogs eIF4A2 (91% amino-acid identity with eIF4A1) and eIF4A3 (60% identity). (miami.edu)
  • RNA helicases are enzymes that use the energy released from the hydrolysis of ATP to manipulate the secondary structure of RNA, and the DEAD box family is the largest family of RNA helicases. (wikipedia.org)
  • The cleft between these domains is lined with helicase motifs that mediate nucleotide binding and hydrolysis. (miami.edu)
  • The results revealed that the levels of a number of proteins involved in various cellular processes were regulated by JA during tuber development. (biomedcentral.com)
  • We have analyzed the phenotypic effects of a genomic ubi1∆ub-HA ubi2∆ mutant, which expresses a ubiquitin-free HA-tagged eL40A protein as the sole source of cellular eL40. (123dok.net)
  • It is the rate limiting step of protein synthesis, controlled by a myriad of proteins known as the eukaryotic initiation factors, or eIFs. (wikipedia.org)
  • Relative abundance of these factors or their relative individual activities afford eukaryotic cells broad control over the rate of initiation and thus protein synthesis. (wikipedia.org)
  • Some cell wall polysaccharide synthesis and cytoskeleton formation-related proteins were up-regulated by JA to promote tuber cell expansion. (biomedcentral.com)
  • Under stress conditions, such as nutrition depletion 8 , hypoxia 9 , 10 , or pathogen challenge 11 , global translation is reprogrammed, leading to elevated stress-responsive protein production, but repressed growth-related protein synthesis, which is crucial to the survival and adaptation to stress. (biorxiv.org)
  • The co-opted host proteins likely affect several steps in viral RNA replication, including the assembly of the replicase complex and/or viral RNA synthesis. (prolekarniky.cz)
  • IGCs are composed of particles measuring 20-25 nm in diameter, and they contain numerous factors that are involved in RNA synthesis and processing. (rupress.org)
  • The risk is increased 1000-fold for squamous cell carcinoma, basal cell carcinoma, malignant melanoma, and fibrosarcoma and is increased 10-fold to 20-fold for other tumors. (medscape.com)
  • Ubiquitin is a small eukaryotic protein of 76 amino acids whose name (i.e., it occurs ubiquitously) results from its remarkable evolutionary conservation [1]. (123dok.net)
  • A beta-hairpin comprising the nuclear localization sequence sustains the self-associated states of nucleosome assembly protein 1. (colorado.edu)
  • Two critical factors during this dauntingly complex process appear to be the establishment of metabolic connectivity between the symbiotic partners, and the evolution of nuclear control over protein expression levels within the organelle. (frontiersin.org)
  • Conversely, overexpression of a catalytically inactive mutant, Clk/STY(K190R), causes retention of hypophosphorylated SR proteins in nuclear speckles. (rupress.org)
  • Taking into account a crystal structure of Mtr4 interacting with a truncated, short Trf4 fragment (interaction of Mtr4 and short Air2 fragment is shown as well), one can argue for ring-interaction between the phenylalanine position and a tyrosine on the interacting protein (Mtr4). (eu.org)
  • Glial fibrillary acidic protein (GFAP) is an intermediate filament with many different isoforms, and acts as a structural protein in the cytoskeleton. (antibodiesinc.com)
  • Moreover, a similar effect on p68 RNA helicase-mediated interference is observed during the upregulation of the hairpin loop. (lidsen.com)
  • Initially, two observations prompted the present study: i) previous results revealed down-regulation of p68 RNA helicase resulting from overexpression of the IDX hairpin loop in HeLa cells, and ii) the secondary structure of the IDX hairpin loop resembles pri-miRNAs, implying that an miRNA could be processed from the hairpin loop-containing pri-miRNA and regulate 68 RNA helicase. (lidsen.com)
  • Furthermore, RNAi assays containing the hairpin loop as an miRNA precursor were conducted, using the pTer vector, to explore the effects on 68 RNA helicase expression levels. (lidsen.com)
  • The Ataxin-2 protein is required for miRNA function and synapse-specific, long-term olfactory habituation. (tcd.ie)
  • Caspase recruitment domain-containing protein (Card)9 is a nonredundant adapter protein that functions in the innate immune system in the assembly of multifunctional signaling complexes. (nih.gov)
  • Proteins whose abnormal expression (gain or loss) are associated with the development, growth, or progression of NEOPLASMS. (lookformedical.com)
  • Abnormal expression of ONCOGENE PROTEINS is involved in neoplastic transformation, whereas the loss of expression of TUMOR SUPPRESSOR PROTEINS is involved with the loss of growth control and progression of the neoplasm. (lookformedical.com)
  • Scope includes mutations and abnormal protein expression. (cancerindex.org)
  • Repression of Pumilio Protein Expression by Rbfox1 Promotes Germ Cell Differentiation. (tcd.ie)
  • Rodamilans, B. and Montoya, G. Expression, purification, crystallization and preliminary X-ray diffraction analysis of the DDX3 RNA helicase domain. (enzyme-database.org)
  • These proteins show similar domain architectures as known organelle-targeted expression regulators of the octotrico peptide repeat type in algae and plants. (frontiersin.org)
  • Apparently these chromatophore-targeted proteins evolved convergently to plastid-targeted expression regulators and are likely involved in gene expression control in the chromatophore. (frontiersin.org)
  • Altered Ribostasis: RNA-Protein Granules in Degenerative Disorders. (tcd.ie)
  • Normally, the conjugation of ubiquitin to other proteins involves the formation of an isopeptide bond between the α-carboxyl group of the C-terminal glycine of a ubiquitin molecule with an ε-amino group of a specific lysine residue within the target protein [2,3]. (123dok.net)