Genomes and Genes
Experts and Doctors on saccharomyces cerevisiae proteins in Berkeley, California, United States
Locale: Berkeley, California, United States
Topic: saccharomyces cerevisiae proteins
Publications183 found, 100 shown here
- Onischenko E, Stanton L, Madrid A, Kieselbach T, Weis K. Role of the Ndc1 interaction network in yeast nuclear pore complex assembly and maintenance. J Cell Biol. 2009;185:475-91 pubmed publisher..Therefore, Ndc1 together with its interaction partners are collectively essential for the biosynthesis and structural integrity of yeast NPCs. ..
- Howes S, Geyer E, LaFrance B, Zhang R, Kellogg E, Westermann S, et al. Structural differences between yeast and mammalian microtubules revealed by cryo-EM. J Cell Biol. 2017;216:2669-2677 pubmed publisher..These differences may reflect adaptations to the demands of different cell size or range of physiological growth temperatures. ..
- Lim M, Dailey D, Martin G, Thorner J. Yeast MCK1 protein kinase autophosphorylates at tyrosine and serine but phosphorylates exogenous substrates at serine and threonine. J Biol Chem. 1993;268:21155-64 pubmed..These findings demonstrate that Mck1 is a member of a novel class of protein kinases that displays the ability to phosphorylate all three hydroxyamino acids in proteins. ..
- Pryer N, Salama N, Schekman R, Kaiser C. Cytosolic Sec13p complex is required for vesicle formation from the endoplasmic reticulum in vitro. J Cell Biol. 1993;120:865-75 pubmed..Overproduced, monomeric Sec13p was inactive in the Sec13p-dependent vesicle formation assay...
- Ziman M, Chuang J, Tsung M, Hamamoto S, Schekman R. Chs6p-dependent anterograde transport of Chs3p from the chitosome to the plasma membrane in Saccharomyces cerevisiae. Mol Biol Cell. 1998;9:1565-76 pubmed
- Littlefield O, Nelson H. A new use for the 'wing' of the 'winged' helix-turn-helix motif in the HSF-DNA cocrystal. Nat Struct Biol. 1999;6:464-70 pubmed..This dimer interface is likely important for increasing the DNA-binding specificity and affinity of the trimeric form of HSF, as well as for increasing cooperativity between adjacent trimers. ..
- Wang H, Boisvert D, Kim K, Kim R, Kim S. Crystal structure of a fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 A resolution. EMBO J. 2000;19:317-23 pubmed..Mapping temperature-sensitive mutations found in yeast fibrillarin Nop1 to the Methanococcus homologue structure reveals that many of the mutations cluster in the core of the methyltransferase-like domain. ..
- Pflumm M, Botchan M. Orc mutants arrest in metaphase with abnormally condensed chromosomes. Development. 2001;128:1697-707 pubmed..Thus, cells have a mitotic checkpoint that senses chromosome integrity. These studies also suggest that the density of functional replication origins and completion of S phase are requirements for proper chromosomal condensation. ..
- Enquist Newman M, Cheeseman I, Van Goor D, Drubin D, Meluh P, Barnes G. Dad1p, third component of the Duo1p/Dam1p complex involved in kinetochore function and mitotic spindle integrity. Mol Biol Cell. 2001;12:2601-13 pubmed..In addition, dad1-1 mutants undergo chromosome mis-segregation at the restrictive temperature, resulting in a dramatic decrease in viability. ..
- Westermann S, Wang H, Avila Sakar A, Drubin D, Nogales E, Barnes G. The Dam1 kinetochore ring complex moves processively on depolymerizing microtubule ends. Nature. 2006;440:565-9 pubmed..The Dam1 ring complex is a molecular device that can translate the force generated by microtubule depolymerization into movement along the lattice to facilitate chromosome segregation. ..
- Sanchatjate S, Schekman R. Chs5/6 complex: a multiprotein complex that interacts with and conveys chitin synthase III from the trans-Golgi network to the cell surface. Mol Biol Cell. 2006;17:4157-66 pubmed..Our results suggest a model of protein sorting at the TGN that involves a peripheral, possibly coat, complex that includes multiple related copies of a specificity determining subunit. ..
- Young T, Skordalakes E, Marqusee S. Comparison of proteolytic susceptibility in phosphoglycerate kinases from yeast and E. coli: modulation of conformational ensembles without altering structure or stability. J Mol Biol. 2007;368:1438-47 pubmed..coli PGK, while the characteristics defining the yeast homolog suggest that proteolysis occurs upon unfolding of only the C-domain, with the N-domain remaining folded and consequently resistant to cleavage. ..
- Jo W, Kim J, Oh E, Jaramillo D, Holman P, Loguinov A, et al. Novel insights into iron metabolism by integrating deletome and transcriptome analysis in an iron deficiency model of the yeast Saccharomyces cerevisiae. BMC Genomics. 2009;10:130 pubmed publisher..This should be taken into consideration when designing and analyzing data from these type of studies. We used this and other published data to develop a molecular interaction network of iron metabolism in yeast. ..
- Carroll J, Munchel S, Weis K. The DExD/H box ATPase Dhh1 functions in translational repression, mRNA decay, and processing body dynamics. J Cell Biol. 2011;194:527-37 pubmed publisher..Our results place Dhh1 at the interface of translation and decay controlling whether an mRNA is translated, stored, or decayed. ..
- Hutchison E, Bueche J, Glass N. Diversification of a protein kinase cascade: IME-2 is involved in nonself recognition and programmed cell death in Neurospora crassa. Genetics. 2012;192:467-82 pubmed publisher..Thus, IME2 kinase function has evolved following the divergence of S. cerevisiae and N. crassa and provides insight into the evolution of kinases and their regulatory targets. ..
- Holtzman D, Wertman K, Drubin D. Mapping actin surfaces required for functional interactions in vivo. J Cell Biol. 1994;126:423-32 pubmed
- Shimoni Y, Kurihara T, Ravazzola M, Amherdt M, Orci L, Schekman R. Lst1p and Sec24p cooperate in sorting of the plasma membrane ATPase into COPII vesicles in Saccharomyces cerevisiae. J Cell Biol. 2000;151:973-84 pubmed..By changing the geometry of COPII coat polymerization, Lst1p may allow the transport of bulky cargo molecules, polymers, or particles...
- McMurray M, Thorner J. Septin stability and recycling during dynamic structural transitions in cell division and development. Curr Biol. 2008;18:1203-8 pubmed publisher..Thus, mechanisms governing septin incorporation are specific to each subunit and to the developmental state of the cell. ..
- Scott D, Schekman R. Role of Sec61p in the ER-associated degradation of short-lived transmembrane proteins. J Cell Biol. 2008;181:1095-105 pubmed publisher..We show that the substrate protein forms a disulfide-linked complex to Sec61p, suggesting that at least part of the retrotranslocation process involves Sec61p. ..
- Lila T, Drubin D. Evidence for physical and functional interactions among two Saccharomyces cerevisiae SH3 domain proteins, an adenylyl cyclase-associated protein and the actin cytoskeleton. Mol Biol Cell. 1997;8:367-85 pubmed..Overall, work presented here illustrates how SH3 domains can integrate the activities of multiple actin cytoskeleton proteins in response to varying environmental conditions. ..
- Shulewitz M, Inouye C, Thorner J. Hsl7 localizes to a septin ring and serves as an adapter in a regulatory pathway that relieves tyrosine phosphorylation of Cdc28 protein kinase in Saccharomyces cerevisiae. Mol Cell Biol. 1999;19:7123-37 pubmed..Furthermore, like septins and Hsl1, homologs of Hsl7 are found in fission yeast, flies, worms, and humans, suggesting that its function in this control mechanism may be conserved in all eukaryotes. ..
- Cook J, Bardwell L, Kron S, Thorner J. Two novel targets of the MAP kinase Kss1 are negative regulators of invasive growth in the yeast Saccharomyces cerevisiae. Genes Dev. 1996;10:2831-48 pubmed..Collectively, these findings indicate that Dig1, and most likely Dig2, are physiological substrates of Kssl and suggest that they regulate Ste12 function by direct protein-protein interaction. ..
- Engqvist Goldstein A, Kessels M, Chopra V, Hayden M, Drubin D. An actin-binding protein of the Sla2/Huntingtin interacting protein 1 family is a novel component of clathrin-coated pits and vesicles. J Cell Biol. 1999;147:1503-18 pubmed..These data show that mHip1R is a component of clathrin-coated pits and vesicles and suggest that it might link the endocytic machinery to the actin cytoskeleton. ..
- Madrid A, Mancuso J, Cande W, Weis K. The role of the integral membrane nucleoporins Ndc1p and Pom152p in nuclear pore complex assembly and function. J Cell Biol. 2006;173:361-71 pubmed..Electron microscopy studies reveal that the absence of Ndc1p and Pom152p results in aberrant pores that have enlarged diameters and lack proteinaceous material, leading to an increased diffusion between the cytoplasm and the nucleus. ..
- Ramey V, Wong A, Fang J, Howes S, Barnes G, Nogales E. Subunit organization in the Dam1 kinetochore complex and its ring around microtubules. Mol Biol Cell. 2011;22:4335-42 pubmed publisher..Integrating this information with previously published data, we generated a structural model for the Dam1 complex assembly that advances our understanding of its function and will direct future experiments. ..
- Montpetit B, Thomsen N, Helmke K, Seeliger M, Berger J, Weis K. A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export. Nature. 2011;472:238-42 pubmed publisher..These findings explain how Gle1(InsP6), Nup159 and Dbp5 collaborate in mRNA export and provide a general mechanism for DEAD-box ATPase regulation by Gle1/eIF4G-like activators. ..
- Bohmann D, Bos T, Admon A, Nishimura T, Vogt P, Tjian R. Human proto-oncogene c-jun encodes a DNA binding protein with structural and functional properties of transcription factor AP-1. Science. 1987;238:1386-92 pubmed
- Weiss E, Bishop A, Shokat K, Drubin D. Chemical genetic analysis of the budding-yeast p21-activated kinase Cla4p. Nat Cell Biol. 2000;2:677-85 pubmed..Our data indicate that CLA4 PAK activity is required at an early stage of budding, after actin polarization and coincident with formation of the septin ring, for early bud morphogenesis and assembly of a cytokinesis site. ..
- Strahl T, Grafelmann B, Dannenberg J, Thorner J, Pongs O. Conservation of regulatory function in calcium-binding proteins: human frequenin (neuronal calcium sensor-1) associates productively with yeast phosphatidylinositol 4-kinase isoform, Pik1. J Biol Chem. 2003;278:49589-99 pubmed..We propose, therefore, that the function of NCS-1 in mammals may closely resemble that of Frq1 in S. cerevisiae and, hence, that frequenins in general may serve as regulators of certain isoforms of phosphatidylinositol 4-kinase. ..
- Weirich C, Erzberger J, Flick J, Berger J, Thorner J, Weis K. Activation of the DExD/H-box protein Dbp5 by the nuclear-pore protein Gle1 and its coactivator InsP6 is required for mRNA export. Nat Cell Biol. 2006;8:668-76 pubmed..Our results define specific functions for Gle1 and InsP6 in mRNA export and suggest that local activation of Dbp5 at the nuclear pore is critical for mRNA export. ..
- Cyert M, Kunisawa R, Kaim D, Thorner J. Yeast has homologs (CNA1 and CNA2 gene products) of mammalian calcineurin, a calmodulin-regulated phosphoprotein phosphatase. Proc Natl Acad Sci U S A. 1991;88:7376-80 pubmed..Thus, calcineurin action antagonizes the mating-pheromone response pathway. ..
- Michelot A, Grassart A, Okreglak V, Costanzo M, Boone C, Drubin D. Actin filament elongation in Arp2/3-derived networks is controlled by three distinct mechanisms. Dev Cell. 2013;24:182-95 pubmed publisher..Thus, three distinct mechanisms control filament elongation in different regions of Arp2/3 networks, maintaining pools of assembly-competent actin species while ensuring proper filament polarity and facilitating force production...
- Schulze J, Kane C, Ruiz Manzano A. The YEATS domain of Taf14 in Saccharomyces cerevisiae has a negative impact on cell growth. Mol Genet Genomics. 2010;283:365-80 pubmed publisher..Thus, this highly conserved domain should be considered part of a negative regulatory loop in cell growth. ..
- Matyskiela M, Lander G, Martin A. Conformational switching of the 26S proteasome enables substrate degradation. Nat Struct Mol Biol. 2013;20:781-8 pubmed publisher..Notably, Rpn11 moves from an occluded position to directly above the central pore, thus facilitating substrate deubiquitination concomitant with translocation. ..
- Ehrenhofer Murray A, Kamakaka R, Rine J. A role for the replication proteins PCNA, RF-C, polymerase epsilon and Cdc45 in transcriptional silencing in Saccharomyces cerevisiae. Genetics. 1999;153:1171-82 pubmed..Restoration of silencing by PCNA and CDC45 mutations required the origin recognition complex binding site of the HMR-E silencer. Several models for the precise role of these replication proteins in silencing are discussed. ..
- Lim C, Mian I, Dernburg A, Campisi J. C. elegans clk-2, a gene that limits life span, encodes a telomere length regulator similar to yeast telomere binding protein Tel2p. Curr Biol. 2001;11:1706-10 pubmed..In mammals, telomere length and structure can influence cellular, and possibly organismal, aging. Here, we show that clk-2 encodes a regulator of telomere length in C. elegans. ..
- Wang H, Ramey V, Westermann S, Leschziner A, Welburn J, Nakajima Y, et al. Architecture of the Dam1 kinetochore ring complex and implications for microtubule-driven assembly and force-coupling mechanisms. Nat Struct Mol Biol. 2007;14:721-6 pubmed..One of Ipl1's roles might be to fine-tune the coupling of the microtubule interaction with the conformational change required for oligomerization, with phosphorylation resulting in ring breakdown. ..
- Bertin A, McMurray M, Grob P, Park S, Garcia G, Patanwala I, et al. Saccharomyces cerevisiae septins: supramolecular organization of heterooligomers and the mechanism of filament assembly. Proc Natl Acad Sci U S A. 2008;105:8274-9 pubmed publisher..Shs1 may be able to replace Cdc11 at the end of the rod. Our findings provide insights into the molecular mechanisms underlying the function and regulation of cellular septin structures. ..
- Jakobsen M, Cheng Z, Lam S, Roth Johnson E, Barfield R, Schekman R. Phosphorylation of Chs2p regulates interaction with COPII. J Cell Sci. 2013;126:2151-6 pubmed publisher..Our data suggest that dephosphorylation functions as a molecular switch for regulated ER exit of Chs2p. ..
- Brodsky J, Schekman R. A Sec63p-BiP complex from yeast is required for protein translocation in a reconstituted proteoliposome. J Cell Biol. 1993;123:1355-63 pubmed..We conclude that the purified Sec63p complex is active and required for protein translocation, and that the association of BiP with the complex may be regulated in vivo. ..
- Sandler S, Satin L, Samra H, Clark A. recA-like genes from three archaean species with putative protein products similar to Rad51 and Dmc1 proteins of the yeast Saccharomyces cerevisiae. Nucleic Acids Res. 1996;24:2125-32 pubmed..coli and S.cerevisiae. Hence it is likely that radA in this organism is a constitutively expressed gene and we discuss possible implications of the lack of UV-inducibility...
- Vik A -, Rine J. Upc2p and Ecm22p, dual regulators of sterol biosynthesis in Saccharomyces cerevisiae. Mol Cell Biol. 2001;21:6395-405 pubmed..These results suggest that Saccharomyces cerevisiae and human cells regulate sterol synthesis by different mechanisms. ..
- Wintz H, Vulpe C. Plant copper chaperones. Biochem Soc Trans. 2002;30:732-5 pubmed..In this paper we present our current knowledge of copper chaperones in A. thaliana based on the information available from the complete sequence of its genome. ..
- Coyle S, Gilbert W, Doudna J. Direct link between RACK1 function and localization at the ribosome in vivo. Mol Cell Biol. 2009;29:1626-34 pubmed publisher..These results provide the first direct evidence that RACK1 functions from the ribosome, implying a physical link between the eukaryotic ribosome and cell signaling pathways in vivo. ..
- Cormier A, Drubin D, Barnes G. Phosphorylation regulates kinase and microtubule binding activities of the budding yeast chromosomal passenger complex in vitro. J Biol Chem. 2013;288:23203-11 pubmed publisher..Thus, we conclude that this INCENP/Sli15 linker domain plays a largely regulatory function and is not essential for complex formation or microtubule binding. ..
- Pierstorff E, Kane C. Genetic interactions between an RNA polymerase II phosphatase and centromeric elements in Saccharomyces cerevisiae. Mol Genet Genomics. 2004;271:603-15 pubmed..The mechanism of suppression and regulation of Fcp1-2 protein activity by centromeric DNA is discussed. ..
- Roelants F, Torrance P, Thorner J. Differential roles of PDK1- and PDK2-phosphorylation sites in the yeast AGC kinases Ypk1, Pkc1 and Sch9. Microbiology. 2004;150:3289-304 pubmed
- Wang H, Wang J, Ding F, Callahan K, Bratkowski M, Butler J, et al. Architecture of the yeast Rrp44 exosome complex suggests routes of RNA recruitment for 3' end processing. Proc Natl Acad Sci U S A. 2007;104:16844-9 pubmed..The Rrp44-exosome (RE) architecture suggests an active site sequestration mechanism for strict control of 3' exoribonuclease activity in the RE complex. ..
- McMurray M, Bertin A, Garcia G, Lam L, Nogales E, Thorner J. Septin filament formation is essential in budding yeast. Dev Cell. 2011;20:540-9 pubmed publisher..Conversely, Cdc10 or Cdc11 mutants that cannot self-associate, but "cap" Cdc3 or Cdc12, respectively, prevent filament formation, block cortical localization, and kill cells. ..
- Bahrami A, Lin M, Ren X, Hurley J, Hummer G. Scaffolding the cup-shaped double membrane in autophagy. PLoS Comput Biol. 2017;13:e1005817 pubmed publisher..Fusion of a small number of vesicles followed by Atg17-guided membrane shape-remodeling thus emerges as a viable route to phagophore formation. ..
- Rockwell N, Wolfger H, Kuchler K, Thorner J. ABC transporter Pdr10 regulates the membrane microenvironment of Pdr12 in Saccharomyces cerevisiae. J Membr Biol. 2009;229:27-52 pubmed publisher..Pdr10 therefore acts as a negative regulator for incorporation of Pdr12 into detergent-resistant membranes, a novel role for members of the ABC transporter superfamily...
- Roelants F, Breslow D, Muir A, Weissman J, Thorner J. Protein kinase Ypk1 phosphorylates regulatory proteins Orm1 and Orm2 to control sphingolipid homeostasis in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2011;108:19222-7 pubmed publisher..Thus, Ypk1 is both a sensor and effector of sphingolipid level, and reduction in sphingolipids stimulates Ypk1, at least in part, via TORC2-dependent phosphorylation. ..
- Lander G, Estrin E, Matyskiela M, Bashore C, Nogales E, Martin A. Complete subunit architecture of the proteasome regulatory particle. Nature. 2012;482:186-91 pubmed publisher..We provide a structural basis for the ability of the proteasome to degrade a diverse set of substrates and thus regulate vital cellular processes. ..
- Erzberger J, Pirruccello M, Berger J. The structure of bacterial DnaA: implications for general mechanisms underlying DNA replication initiation. EMBO J. 2002;21:4763-73 pubmed
- Spang A, Schekman R. Reconstitution of retrograde transport from the Golgi to the ER in vitro. J Cell Biol. 1998;143:589-99 pubmed..Putative retrograde carriers (COPI vesicles) generated from Golgi-enriched membranes contain v-SNAREs as well as Emp47p as cargo...
- Bardwell L, Cook J, Zhu Shimoni J, Voora D, Thorner J. Differential regulation of transcription: repression by unactivated mitogen-activated protein kinase Kss1 requires the Dig1 and Dig2 proteins. Proc Natl Acad Sci U S A. 1998;95:15400-5 pubmed
- Huttner I, Strahl T, Osawa M, King D, Ames J, Thorner J. Molecular interactions of yeast frequenin (Frq1) with the phosphatidylinositol 4-kinase isoform, Pik1. J Biol Chem. 2003;278:4862-74 pubmed..This study defines the segment of Pik1 required for high affinity binding of Frq1. ..
- Brune C, Munchel S, Fischer N, Podtelejnikov A, Weis K. Yeast poly(A)-binding protein Pab1 shuttles between the nucleus and the cytoplasm and functions in mRNA export. RNA. 2005;11:517-31 pubmed..Therefore, nuclear Pab1 may be required for efficient mRNA export and may function in the quality control of mRNA in the nucleus. ..
- Kamakaka R, Rine J. Sir- and silencer-independent disruption of silencing in Saccharomyces by Sas10p. Genetics. 1998;149:903-14 pubmed..These data implied that Sas10p function was intimately connected with the structure of silenced chromatin. ..
- Näär A, Lemon B, Tjian R. Transcriptional coactivator complexes. Annu Rev Biochem. 2001;70:475-501 pubmed..The extent of functional interplay between these different activities in gene-specific transcriptional regulation is only now becoming apparent, and will remain an active area of research for years to come. ..
- Okreglak V, Drubin D. Cofilin recruitment and function during actin-mediated endocytosis dictated by actin nucleotide state. J Cell Biol. 2007;178:1251-64 pubmed..These results suggest that cofilin-mediated actin filament flux is required for the multiple steps of endocytic trafficking. ..
- Woodruff J, Drubin D, Barnes G. Spindle assembly requires complete disassembly of spindle remnants from the previous cell cycle. Mol Biol Cell. 2012;23:258-67 pubmed publisher..Therefore we propose that spindle disassembly is essential for regeneration of the intracellular pool of assembly-competent tubulin required for efficient spindle assembly during subsequent mitoses of daughter cells. ..
- Wells S, Hillner P, Vale R, Sachs A. Circularization of mRNA by eukaryotic translation initiation factors. Mol Cell. 1998;2:135-40 pubmed..Our results suggest that formation of circular mRNA by translation factors could contribute to the control of mRNA expression in the eukaryotic cell. ..
- Bardwell L, Cook J, Voora D, Baggott D, Martinez A, Thorner J. Repression of yeast Ste12 transcription factor by direct binding of unphosphorylated Kss1 MAPK and its regulation by the Ste7 MEK. Genes Dev. 1998;12:2887-98 pubmed
- Loots G, Locksley R, Blankespoor C, Wang Z, Miller W, Rubin E, et al. Identification of a coordinate regulator of interleukins 4, 13, and 5 by cross-species sequence comparisons. Science. 2000;288:136-40 pubmed..Characterization of the largest element in yeast artificial chromosome transgenic mice revealed it to be a coordinate regulator of three genes, interleukin-4, interleukin-13, and interleukin-5, spread over 120 kilobases. ..
- Truckses D, Bloomekatz J, Thorner J. The RA domain of Ste50 adaptor protein is required for delivery of Ste11 to the plasma membrane in the filamentous growth signaling pathway of the yeast Saccharomyces cerevisiae. Mol Cell Biol. 2006;26:912-28 pubmed..Thus, Ste50 serves as an adaptor to tether Ste11 to the plasma membrane and can do so via association with Cdc42, thereby permitting the encounter of Ste11 with activated Ste20. ..
- Nakajima Y, Tyers R, Wong C, Yates J, Drubin D, Barnes G. Nbl1p: a Borealin/Dasra/CSC-1-like protein essential for Aurora/Ipl1 complex function and integrity in Saccharomyces cerevisiae. Mol Biol Cell. 2009;20:1772-84 pubmed publisher..Our biological and computational analyses therefore establish that the fundamental design of the CPC is conserved from Fungi to Animalia. ..
- Whistler J, Rine J. Ras2 and Ras1 protein phosphorylation in Saccharomyces cerevisiae. J Biol Chem. 1997;272:18790-800 pubmed..This site, when mutated to alanine, led to promiscuous phosphorylation of Ras2 protein on nearby serine residues. A decrease in phosphorylation may lead to a decrease in signaling through the Ras-cAMP pathway. ..
- Strahl T, Hama H, DeWald D, Thorner J. Yeast phosphatidylinositol 4-kinase, Pik1, has essential roles at the Golgi and in the nucleus. J Cell Biol. 2005;171:967-79 pubmed..Catalytically inactive derivatives of these compartment-restricted Pik1 constructs indicated that PtdIns4P must be generated both in the nucleus and at the Golgi for normal cell function. ..
- Strahl T, Huttner I, Lusin J, Osawa M, King D, Thorner J, et al. Structural insights into activation of phosphatidylinositol 4-kinase (Pik1) by yeast frequenin (Frq1). J Biol Chem. 2007;282:30949-59 pubmed..Frq1 may activate Pik1 by facilitating membrane targeting via the exposed N-myristoyl group and by imposing a structural transition that promotes association of the lipid kinase unique motif with the kinase domain. ..
- Zill O, Rine J. Interspecies variation reveals a conserved repressor of alpha-specific genes in Saccharomyces yeasts. Genes Dev. 2008;22:1704-16 pubmed publisher..cerevisiae. We suggest that a comprehensive understanding of some genetic pathways may be best attained through the expanded phenotypic space provided by study of those pathways in multiple related organisms. ..
- Worden E, Padovani C, Martin A. Structure of the Rpn11-Rpn8 dimer reveals mechanisms of substrate deubiquitination during proteasomal degradation. Nat Struct Mol Biol. 2014;21:220-7 pubmed publisher..These findings explain how Rpn11 functions as a promiscuous deubiquitinase for cotranslocational substrate deubiquitination during proteasomal degradation. ..
- Fox C, Ehrenhofer Murray A, Loo S, Rine J. The origin recognition complex, SIR1, and the S phase requirement for silencing. Science. 1997;276:1547-51 pubmed..Thus, the role of ORC in silencing was separable from its role in initiation, and the role of S phase in silencing was independent of replication initiation at the silencers. ..
- Roelants F, Torrance P, Bezman N, Thorner J. Pkh1 and Pkh2 differentially phosphorylate and activate Ypk1 and Ykr2 and define protein kinase modules required for maintenance of cell wall integrity. Mol Biol Cell. 2002;13:3005-28 pubmed..Thus, Pkh1-Ypk1 and Pkh2-Ykr2 function in a novel pathway for cell wall integrity that acts in parallel with the Pkc1-dependent pathway. ..
- Zeitler B, Weis K. The FG-repeat asymmetry of the nuclear pore complex is dispensable for bulk nucleocytoplasmic transport in vivo. J Cell Biol. 2004;167:583-90 pubmed..These findings suggest that the biased distribution of FG repeats is not required for major nucleocytoplasmic trafficking events across the NPC. ..
- Lombardi L, Ellahi A, Rine J. Direct regulation of nucleosome density by the conserved AAA-ATPase Yta7. Proc Natl Acad Sci U S A. 2011;108:E1302-11 pubmed publisher..Further, local loss of Yta7 activity at a long inducible gene resulted in accumulation of H3 at the 3' end upon transcriptional activation, implying Yta7 may regulate H3 cotranscriptionally. ..
- Denby C, Im J, Yu R, Pesce C, Brem R. Negative feedback confers mutational robustness in yeast transcription factor regulation. Proc Natl Acad Sci U S A. 2012;109:3874-8 pubmed publisher..We suggest that regulatory feedback may be an important element of the network architectures that confer mutational robustness across biology. ..
- Worden E, Dong K, Martin A. An AAA Motor-Driven Mechanical Switch in Rpn11 Controls Deubiquitination at the 26S Proteasome. Mol Cell. 2017;67:799-811.e8 pubmed publisher..The AAA+ motor-driven acceleration of Rpn11 is therefore important to ensure that poly-ubiquitin chains are removed only from committed substrates and fast enough to prevent their co-degradation. ..
- Pak D, Pflumm M, Chesnokov I, Huang D, Kellum R, Marr J, et al. Association of the origin recognition complex with heterochromatin and HP1 in higher eukaryotes. Cell. 1997;91:311-23 pubmed..These results indicate that ORC may play a widespread role in packaging chromosomal domains through interactions with heterochromatin-organizing factors. ..
- Trueblood C, Boyartchuk V, Picologlou E, Rozema D, Poulter C, Rine J. The CaaX proteases, Afc1p and Rce1p, have overlapping but distinct substrate specificities. Mol Cell Biol. 2000;20:4381-92 pubmed..The isolation of mutations in RCE1 that improved proteolysis of a-factor-CAMQ, indicated that amino acid substitutions E139K, F189L, and Q201R in Rce1p affected its substrate specificity. ..
- Westfall P, Thorner J. Analysis of mitogen-activated protein kinase signaling specificity in response to hyperosmotic stress: use of an analog-sensitive HOG1 allele. Eukaryot Cell. 2006;5:1215-28 pubmed..Finally, our results demonstrate a role for active Hog1 in maintaining signaling specificity under conditions of persistently high external osmolarity. ..
- Barlowe C, Orci L, Yeung T, Hosobuchi M, Hamamoto S, Salama N, et al. COPII: a membrane coat formed by Sec proteins that drive vesicle budding from the endoplasmic reticulum. Cell. 1994;77:895-907 pubmed..Because the overall cycle of budding driven by these two types of coats appears mechanistically similar, we propose that the coat structures be called COPI and COPII. ..
- Weilbaecher R, Awrey D, Edwards A, Kane C. Intrinsic transcript cleavage in yeast RNA polymerase II elongation complexes. J Biol Chem. 2003;278:24189-99 pubmed..A mutant RNA polymerase previously shown to be refractory to TFIIS-induced transcript cleavage is essentially identical to the wild type polymerase in all tested aspects of intrinsic cleavage. ..
- Futai E, Schekman R. Purification and functional properties of yeast Sec12 GEF. Methods Enzymol. 2005;404:74-82 pubmed..As a result, the entire COPII coat remains stable in the presence of GTP. Here, we describe methods to purify Sec12p, real-time fluorescence assays to evaluate COPII coat formation, and the relevant kinetic analyses. ..
- Sharp J, Krawitz D, Gardner K, Fox C, Kaufman P. The budding yeast silencing protein Sir1 is a functional component of centromeric chromatin. Genes Dev. 2003;17:2356-61 pubmed
- Osborne E, Dudoit S, Rine J. The establishment of gene silencing at single-cell resolution. Nat Genet. 2009;41:800-6 pubmed publisher..Our findings showed that removal of methyl modifications at H3K4 and H3K79 were important steps in silent chromatin formation and that Jhd2 and Set1 had competing roles in the process. ..
- Galazka J, Tian C, Beeson W, Martinez B, Glass N, Cate J. Cellodextrin transport in yeast for improved biofuel production. Science. 2010;330:84-6 pubmed publisher..In simultaneous saccharification and fermentation experiments, the engineered yeast strains more rapidly convert cellulose to ethanol when compared with yeast lacking this system. ..
- Ã‡amdere G, Guacci V, Stricklin J, Koshland D. The ATPases of cohesin interface with regulators to modulate cohesin-mediated DNA tethering. elife. 2015;4: pubmed publisher..Furthermore, our results also suggest that Eco1 promotes cohesion by modulating the ATPase cycle of DNA-bound cohesin in a state that is permissive for DNA tethering and refractory to Wpl1 inhibition. ..