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Saccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsFungal ProteinsGenes, FungalMolecular Sequence DataGene Expression Regulation, FungalAmino Acid SequenceDNA, FungalMutationSequence Homology, Amino AcidBase SequenceCloning, MolecularSaccharomycesDNA-Binding ProteinsCell Cycle ProteinsProtein BindingRecombinant Fusion ProteinsRNA, FungalChromosomes, FungalGenome, FungalPhenotypePlasmidsGenetic Complementation TestTemperatureGene DeletionCarrier ProteinsTranscription, GeneticSuppression, GeneticSpores, FungalRestriction Mappingbeta-FructofuranosidaseTranscription FactorsMutagenesisGenes, SuppressorHaploidyVacuolesKineticsTransformation, GeneticFermentationRecombination, GeneticDiploidyMitochondriaSilent Information Regulator Proteins, Saccharomyces cerevisiaeSequence AlignmentSchizosaccharomycesGlucoseMembrane ProteinsAllelesMeiosisEscherichia coliGenes, Mating Type, FungalNuclear ProteinsDNA RepairSaccharomycetalesRecombinant ProteinsKluyveromycesAdenosine TriphosphatasesRNA, MessengerCDC28 Protein Kinase, S cerevisiaeSpheroplastsDNA PrimersBinding SitesGalactoseRepressor ProteinsCell CycleSubstrate SpecificityCell WallErgosterolCandida albicansKiller Factors, YeastPheromonesBiological TransportPromoter Regions, GeneticGenesProtein Structure, TertiaryOpen Reading FramesSequence DeletionCulture MediaDNA ReplicationXyloseGenes, LethalSirtuin 2Sequence Homology, Nucleic AcidModels, BiologicalMembrane Transport ProteinsChitin SynthaseSchizosaccharomyces pombe ProteinsMitosisCathepsin AChromosome MappingMutagenesis, Site-DirectedCell NucleusSpecies SpecificityEthanolConserved SequenceModels, GeneticWineMannosyltransferasesTelomereGenotype
Cell BiolYeast Saccharomyces cerevisiaeMethods MolChemGeneOrganismMass spectrometryMammalianStruct Mol BiolUbiquitinRibosomal proteinsOverexpressionKinaseRibosomeTranscriptional repressorChromatinPathwayDegradationResidues2001Peroxisomal membraneReplicationSequenceHomologRecombinantPurificationStrainDefectiveMotor proteinsCharacterizationEscherichiaComplexesFamily of proteinsPlasma-membraneCellular proteinsMembrane proteinsArchaealActivatorVitroEukaryotesToxicityTransport proteinsInteractionsSequencesTelomeresExpressesFunctionalAlbicansTMSsOxidative
Cell Biol4
Yeast Saccharomyces cerevisiae7
  • To understand the molecular biology of peptide hormone action, we studied response of budding yeast ( Saccharomyces cerevisiae ) to its peptide mating pheromones ( a -factor and α-factor). (berkeley.edu)
  • Most of our current knowledge concerning this highly dynamic multistep process comes from studies with the yeast Saccharomyces cerevisiae . (silverchair.com)
  • These same principles of mechanistic enzymology, in combination with the powerful approaches of yeast genetics and molecular biology, also allow the lab to investigate the biological function of enzymes in living cells, including a tRNA splicing enzyme and a tRNA methyltransferase whose biological roles in the yeast Saccharomyces cerevisiae are well-defined, but whose possible role(s) in other organisms remain a mystery. (osu.edu)
  • The origin recognition complex (ORC) was originally identified in the yeast Saccharomyces cerevisiae as a protein that specifically binds to origins of DNA replication. (embl.de)
  • 1989. Characterization of genes required for protein sorting and vacuolar function in the yeast Saccharomyces cerevisiae. . (ucsb.edu)
  • 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)
  • The yeast Saccharomyces cerevisiae is commonly used to interrogate and screen protein variants and to perform directed evolution studies to develop proteins with enhanced features. (bvsalud.org)
Methods Mol3
  • Methods Mol Biol. (ouhsc.edu)
  • Methods Mol Biol (2018) 1779:313-339. (nih.gov)
  • Methods Mol Biol (2012) 849:321-46. (nih.gov)
Chem1
  • J Biol Chem 270:18491-18499. (ymdb.ca)
Gene11
  • A novel cross-phylum family of proteins comprises a KRR1 (YCL059c) gene which is essential for viability of Saccharomyces cerevisiae cells. (nih.gov)
  • The Hansenula polymorpha PER9 gene encodes a peroxisomal membrane protein essential for peroxisome assembly and integrity. (microbiologyresearch.org)
  • Cloning and characterization of a Saccharomyces cerevisiae gene encoding the low molecular weight protein-tyrosine phosphatase. (ymdb.ca)
  • These relationships may reflect gene co-expression/regulation, protein-protein interactions (PPIs) or information about production or consumption of metabolites [ 14 ]. (biomedcentral.com)
  • In the current study, extensive chromatin immunoprecipitation (ChIP) and ChIP-sequencing analyses revealed that Fpr1 associates specifically with the upstream activating sequences of nearly all RPG (ribosomal protein gene) promoters, presumably in a manner dependent on Rap1 (repressor/activator site binding protein 1). (prolekarniky.cz)
  • Challice JM, Segall J. Transcription of the 5 S rRNA gene of Saccharomyces cerevisiae requires a promoter element at +1 and a 14-base pair internal control region. (utoronto.ca)
  • Reardon BJ, Gordon D, Ballard MJ, Winter E. DNA binding properties of the Saccharomyces cerevisiae DAT1 gene product. (utoronto.ca)
  • A second group of methods, which includes DNA microarrays and proteomics, have advantages that overcome the limitations implicit in signature-tagged mutagenesis and in vivo expression technology, namely, the ability to directly measure expression (gene or protein) levels on a true genome-wide scale, but their application to analysis of bacterial pathogens during real infections is still in its infancy. (cdc.gov)
  • The furry ( fry ) gene encodes an evolutionarily conserved protein with a wide variety of cellular functions, including cell polarization and morphogenesis in invertebrates. (nature.com)
  • The Furry (Fry) gene encodes a large protein (~ 330 kDa) that is evolutionarily conserved from yeast to humans. (nature.com)
  • This gene provides instructions for making a protein called the lamin B receptor. (medlineplus.gov)
Organism1
Mass spectrometry1
Mammalian3
  • They are members of the rBAT family of mammalian proteins (TC #8.A.9). (tcdb.org)
  • Isolation of a protein target of the FKBP12-rapamycin complex in mammalian cells. (prolekarniky.cz)
  • Using both yeast and mammalian cells as model organisms, my lab is focused on understanding the biological functions of protein arginine methylation at the molecular level using cell biological, biochemistry, proteomics, and genomics approaches. (buffalo.edu)
Struct Mol Biol1
Ubiquitin13
  • Probing the effects of double mutations on the versatile protein ubiquitin in Saccharomyces cerevisiae. (yeastgenome.org)
  • Innate immunity to yeast prions: Btn2p and Cur1p curing of the [URE3] prion is prevented by 60S ribosomal protein deficiency or ubiquitin/proteasome system overactivity. (nih.gov)
  • Hermes Transposon Mutagenesis Shows [URE3] Prion Pathology Prevented by a Ubiquitin-Targeting Protein: Evidence for Carbon/Nitrogen Assimilation Cross Talk and a Second Function for Ure2p in Saccharomyces cerevisiae. (nih.gov)
  • Ubiquitin is a highly conserved small eukaryotic protein. (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)
  • 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)
  • This mutant shows a severe slow-growth phenotype, which could be fully suppressed by increased dosage of the ubi1∆ub-HA allele, or partially by the replacement of ubiquitin by the ubiquitin-like Smt3 protein. (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 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)
  • 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)
  • 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)
  • 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)
  • 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)
Ribosomal proteins2
Overexpression2
  • Overexpression of Pex15p, a phosphorylated peroxisomal integral membrane protein required for peroxisome assembly in S. cerevisiae , causes proliferation of the endoplasmic reticulum membrane. (microbiologyresearch.org)
  • Overexpression of the yeast proteins, Al R 1p and Mn R 2p, overcomes toxicity to aluminum and manganese, respectively. (tcdb.org)
Kinase5
  • AMP-activated protein kinase (AMPK) is a master metabolic regulator for controlling cellular energy homeostasis. (rcsb.org)
  • The Wee1 class of protein-tyrosine kinase has an important role in cell cycle control. (berkeley.edu)
  • We investigated control mechanisms that regulate the activity, localization, and stability of Wee1, especially the bud neck-localized protein kinase Hsl1 and its more distant paralogs (Gin4 and Kcc4), in particular their recruitment to septin filaments, which assemble at the presumptive site of cell division. (berkeley.edu)
  • Activation of the pheromone receptor-coupled G protein initiates a four-tiered cascade of protein kinases, ultimately resulting in stimulation of a messenger-activated protein kinase or MAPK (Fus3) that translocates into the nucleus. (berkeley.edu)
  • Dodou E, Treisman R. The Saccharomyces cerevisiae MADS-box transcription factor Rlm1 is a target for the Mpk1 mitogen-activated protein kinase pathway. (utoronto.ca)
Ribosome4
  • Yeast Krr1p physically and functionally interacts with a novel essential Kri1p, and both proteins are required for 40S ribosome biogenesis in the nucleolus. (nih.gov)
  • Among these are energy-consuming enzymes such as GTPases, protein kinases, ATP-dependent RNA helicases, and AAA-type (ATPases associated with various cellular activities) ATPases, which suggests that the energy derived from nucleotide hydrolysis confers directionality to ribosome assembly. (silverchair.com)
  • Therefore, to unravel the mechanisms of ribosome formation, it is essential to identify the substrate proteins of these energy-consuming enzymes. (silverchair.com)
  • In a hmo1 Δ (high mobility group family 1-deleted) yeast strain, deletion of FPR1 induced severe growth defects, which could be alleviated by increasing the copy number of RPL25 (ribosome protein of the large subunit 25), suggesting that RPL25 expression was affected in hmo1 Δ fpr1 Δ cells. (prolekarniky.cz)
Transcriptional repressor2
  • Mai B, Breeden L. Xbp1, a stress-induced transcriptional repressor of the Saccharomyces cerevisiae Swi4/Mbp1 family. (utoronto.ca)
  • In lower multicellular fungi, the C2H2 zinc finger CreA/CRE1 protein has been shown to act as the transcriptional repressor in this process. (biomedcentral.com)
Chromatin2
  • The N-terminal domain contains nine copies of the AT-hook motif found in a number of DNA-binding proteins, including the members of the HMG-I(Y) family of chromatin proteins. (embl.de)
  • Furthermore, AT-hook motifs are frequently associated with known functional domains seen in chromatin proteins and in DNA-binding proteins (e.g. histone folds, homeodomains and zinc fingers). (embl.de)
Pathway2
  • We have recently shown that this same pathway modulates the content of integral membrane proteins and, in collaborative studies, that it is also involved in maintenance of the sterol composition of the plasma membrane. (berkeley.edu)
  • A multi-pathway perspective on protein aggregation: implications for control of the rate and extent of amyloid formation. (nih.gov)
Degradation1
Residues5
  • Histone methyltransferases (HMT) are histone-modifying enzymes (e.g., histone-lysine N-methyltransferases and histone-arginine N-methyltransferases), that catalyze the transfer of one, two, or three methyl groups to lysine and arginine residues of histone proteins. (wikipedia.org)
  • There are three different types of protein arginine methyltransferases (PRMTs) and three types of methylation that can occur at arginine residues on histone tails. (wikipedia.org)
  • The yeast metal resistance proteins, which are 850-900 amino acyl residues in length, also exhibit two or three putative TMSs. (tcdb.org)
  • Highly conserved acidic residues found in the short periplasmic loop are not essential for CorA function or Mg 2+ selectivity but may be required for proper protein folding and stability. (tcdb.org)
  • The CorA proteins of E. coli and S. typhimurium are each 316 amino acyl residues in length. (tcdb.org)
20011
Peroxisomal membrane2
Replication7
Sequence7
  • The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI. (ymdb.ca)
  • Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae. (ymdb.ca)
  • 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)
  • The C-terminal domain shows strong sequence similarity to human, frog, and yeast Orc4 proteins, including conserved ATP-binding motifs. (embl.de)
  • Using pattern searches and position-dependent matrices, we have extracted the AT-hook motifs present in a non-redundant protein sequence database. (embl.de)
  • We have classified these motifs into three types according to their sequence similarity and have found that they are prevalent in many eukaryotic nuclear proteins in single or multiple copies. (embl.de)
  • Hagen DC, Bruhn L, Westby CA, Sprague GF Jr. Transcription of alpha-specific genes in Saccharomyces cerevisiae: DNA sequence requirements for activity of the coregulator alpha 1. (utoronto.ca)
Homolog2
  • A possible homolog of Dot1 was found in archaea which shows the ability to methylate archaeal histone-like protein in recent studies. (wikipedia.org)
  • Background S. cerevisiae Rad 51 protein (400 aa, 43 kDa) is a functional and structural homolog of E.coli RecA and human Rad51 proteins and plays a central role in DNA homologous recombination and recombination repair by promoting homologous DNA strand exchange reaction. (agrisera.com)
Recombinant1
Purification2
Strain1
  • Lactose regulatory protein LAC9 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / N. (yeastrc.org)
Defective3
  • Here, a Saccharomyces cerevisiae sod1 Δ mutant (defective for the Cu,Zn-superoxide dismutase) was found to be hypersensitive to Cr(VI) toxicity under aerobic conditions, but this phenotype was suppressed under anaerobic conditions. (microbiologyresearch.org)
  • In contrast, S. cerevisiae msra Δ ( mxr1 Δ) and msrb Δ ( ycl033c Δ) mutants defective for peptide methionine sulfoxide reductase (MSR) activity exhibited a Cr sensitivity phenotype, and cells overexpressing these enzymes were Cr-resistant. (microbiologyresearch.org)
  • Autophagy is the main cellular process responsible for degrading defective organelles and long-lived proteins. (frontiersin.org)
Motor proteins1
  • Kinesin-8s are dual-activity motor proteins that can move processively on microtubules and depolymerize microtubule plus-ends, but their mechanism of combining these distinct activities remains unclear. (nature.com)
Characterization1
  • Initial characterization of Trm10 yielded the surprising result that up to three different Trm10 homologs exist simultaneously in several metazoans, including mouse and humans, while in yeast, the single Trm10 protein catalyzes all known m1G9 modifications. (osu.edu)
Escherichia1
  • Mechanism of chromate reduction by the Escherichia coli protein, NfsA, and the role of different chromate reductases in minimizing oxidative stress during chromate reduction. (microbiologyresearch.org)
Complexes5
  • Identifying conserved protein complexes between species by constructing interolog networks. (yeastgenome.org)
  • This process is carried out by the human spliceosome machinery, in which over 300 proteins sequentially assemble with uridine-rich small nuclear RNA molecules (U snRNAs) to form distinct small nuclear ribonucleoprotein complexes (snRNPs). (biomedcentral.com)
  • Computed structures of core eukaryotic protein complexes. (ifom.eu)
  • Small angle neutron scattering (SANS) provides unique insight into biomacromolecular complexes by combining solvent contrast variation (H2O:D2O exchange) with either natural contrast between different classes of biomolecules (proteins, RNA/DNA, lipids/detergents) and/or by applying artificial contrast, i.e. deuteration of specific biomolecules. (lu.se)
  • In a first couple of examples, I will show how distance and shape restraints from SANS have helped to improve the uniqueness of structural models for two multi-protein-RNA complexes, in combination with NMR restraints and building blocks from crystallography [1, 2]. (lu.se)
Family of proteins1
  • 2003). Trm10, like Thg1, is a member of a previously undescribed family of proteins with no identifiable homology to any other enzyme family, including other S-adenosyl-methionine (SAM)-dependent methyltransferases. (osu.edu)
Plasma-membrane1
  • We have shown that Ypk1, a member of the AGC class of protein kinases conserved from yeast to humans, is the essential target of and activated via phosphorylation by the plasma membrane-associated TORC2 complex. (berkeley.edu)
Cellular proteins2
  • This study establishes an oxidative mode of Cr toxicity in S. cerevisiae , which primarily involves oxidative damage to cellular proteins. (microbiologyresearch.org)
  • A majority of cellular proteins undergo post-translational modifications. (buffalo.edu)
Membrane proteins1
Archaeal2
  • The larger eukaryotic and archaeal proteins possess N- and C-terminal hydrophilic extensions. (tcdb.org)
  • The archaeal CorA protein is functionally similar to the CorA homologues of enteric bacteria. (tcdb.org)
Activator1
Vitro2
  • Apart from the purified proteins, Cytoskeleton also provides some innovative kits for studying these proteins in cells and in vitro , see related products below for more information. (cytoskeleton.com)
  • Most of the seminal studies on the regulatory mechanisms of autophagosome biogenesis were conducted on Saccharomyces cerevisiae or culture cells in vitro ( Hamasaki and Yoshimori, 2010 ). (frontiersin.org)
Eukaryotes2
  • A protein involved in minichromosome maintenance in yeast binds a transcriptional enhancer conserved in eukaryotes. (utoronto.ca)
  • In eukaryotes, G protein-coupled receptors (GPCRs) are the largest and most diverse group of membrane receptors and these receptors play an important role in mediating a variety of physiological responses such as responses to hormones, neurotransmitters, and environmental stimulants. (buffalo.edu)
Toxicity1
  • The inference that protein oxidation is a primary mechanism of Cr toxicity was corroborated by an observed ∼20-fold increase in the cellular levels of protein carbonyls within 30 min of Cr exposure. (microbiologyresearch.org)
Transport proteins1
  • Among CRE1 repressed transcripts, genes encoding unknown proteins and transport proteins were overrepresented. (biomedcentral.com)
Interactions1
  • Interactions of the human MCM-BP protein with MCM complex components and Dbf4. (yeastgenome.org)
Sequences1
  • Within the resolution of these immunodetection techniques, we show that proteins encoded by the SIR3, SIR4, and RAP1 genes colocalize in a statistically significant manner with Y' telomere-associated DNA sequences. (rupress.org)
Telomeres2
  • The clustering of telomeres and colocalization with Rap1, Sir3, and Sir4 proteins in wild-type Saccharomyces cerevisiae. (rupress.org)
  • This suggests that telomeres are clustered in vegetatively growing cells, and that proteins essential for telomeric silencing are concentrated at their sites of action, i.e., at telomeres and/or subtelomeric regions. (rupress.org)
Expresses1
Functional1
  • Fry protein is composed of an N-terminal Furry domain (FD) with HEAT/Armadillo repeats followed by five regions without any recognizable functional domains. (nature.com)
Albicans5
  • Moreover, C. albicans Hom6p affects expression of the cell wall protein Xog1p which is a major exoglucanase and is found to be involved in cell adhesion. (ncl.edu.tw)
  • C. albicans Hom6p thus had an effect on cell survival and cell adhesion by maintaining protein synthesis and cell wall function. (ncl.edu.tw)
  • The protein Hwp1 is vital for C albicans to form attachments to host tissue, as is CaMnt1p, a mannosyl transferase. (medscape.com)
  • [ 6 ] Additionally, C albicans aborts the expression of interferon-gamma-inducible protein-10 in human keratinocytes. (medscape.com)
  • [ 7 ] Once C albicans invades the keratinocytes, the host cells express host defense proteins and secrete chemokines and cytokines. (medscape.com)
TMSs3
  • Some of these proteins exhibit 11 TMSs. (tcdb.org)
  • The greatest degree of conservation between homologues is found in TMSs 1 and 2 of the Thermotoga maritima protein. (tcdb.org)
  • Hydropathy analysis had predicted two transmembrane α-helical spanners (TMSs) in the C-terminal regions of these proteins. (tcdb.org)
Oxidative1