Genomes and Genes
Experts and Doctors on saccharomyces cerevisiae proteins in Dallas, Texas, United States
Locale: Dallas, Texas, United States
Topic: saccharomyces cerevisiae proteins
Publications114 found, 100 shown here
- Wang Y, Dulubova I, Rizo J, Sudhof T. Functional analysis of conserved structural elements in yeast syntaxin Vam3p. J Biol Chem. 2001;276:28598-605 pubmed..Our data suggest that in contrast to previously characterized syntaxins, Vam3p contains only two domains essential for fusion, the SNARE motif and the TMR, and these domains have to be closely coupled to function in fusion. ..
- Cao X, Sudhof T. A transcriptionally [correction of transcriptively] active complex of APP with Fe65 and histone acetyltransferase Tip60. Science. 2001;293:115-20 pubmed..This complex potently stimulates transcription via heterologous Gal4- or LexA-DNA binding domains, suggesting that release of the cytoplasmic tail of APP by gamma-cleavage may function in gene expression. ..
- Jeong C, Yang S, Xie Y, Zhang L, Johnston S, Kodadek T. Evidence that Gal11 protein is a target of the Gal4 activation domain in the mediator. Biochemistry. 2001;40:9421-7 pubmed
- Liu Z, Sekito T, Epstein C, Butow R. RTG-dependent mitochondria to nucleus signaling is negatively regulated by the seven WD-repeat protein Lst8p. EMBO J. 2001;20:7209-19 pubmed..These data, together with genome-wide transcription profiling, reveal pathways regulated by glutamate, and provide insight into the regulation of cellular responses to mitochondrial dysfunction. ..
- Liu B, Han Y, Ferdous A, Corey D, Kodadek T. Transcription activation by a PNA-peptide chimera in a mammalian cell extract. Chem Biol. 2003;10:909-16 pubmed
- Huang J, Wu S, Barrera J, Matthews K, Pan D. The Hippo signaling pathway coordinately regulates cell proliferation and apoptosis by inactivating Yorkie, the Drosophila Homolog of YAP. Cell. 2005;122:421-34 pubmed..Thus, Yki is a critical target of the Wts/Lats protein kinase and a potential oncogene. ..
- Ferdous A, Sikder D, Gillette T, Nalley K, Kodadek T, Johnston S. The role of the proteasomal ATPases and activator monoubiquitylation in regulating Gal4 binding to promoters. Genes Dev. 2007;21:112-23 pubmed..The fact that monoubiquitylated activator is resistant to the "stripping" activity of the proteasomal ATPases may explain, in part, why some activators require this modification in order to function efficiently. ..
- Sohaee N, Forst C. Identification of functional modules in a PPI network by bounded diameter clustering. J Bioinform Comput Biol. 2010;8:929-43 pubmed..This algorithm is tested on the yeast PPI graph and the results are compared with MCL, Core-Attachment, and MCODE algorithms. ..
- Adeyo O, Horn P, Lee S, Binns D, Chandrahas A, Chapman K, et al. The yeast lipin orthologue Pah1p is important for biogenesis of lipid droplets. J Cell Biol. 2011;192:1043-55 pubmed publisher..Overall, this study provides strong evidence that DAG generated by Pah1p is important for droplet biogenesis. ..
- Rothermel B, Shyjan A, Etheredge J, Butow R. Transactivation by Rtg1p, a basic helix-loop-helix protein that functions in communication between mitochondria and the nucleus in yeast. J Biol Chem. 1995;270:29476-82 pubmed..The Gal4-Rtg1p fusion was unable to transactivate the LacZ reporter gene in a strain deleted for RTG2, suggesting that the RTG2 product does not act independently of Rtg1p in the rho degree/rho + transcriptional response. ..
- Siede W, Friedberg A, Dianova I, Friedberg E. Characterization of G1 checkpoint control in the yeast Saccharomyces cerevisiae following exposure to DNA-damaging agents. Genetics. 1994;138:271-81 pubmed..We suggest that an intermediate of nucleotide excision repair, such as DNA strand breaks or single-stranded DNA tracts, is required to activate RAD9-dependent G1 and G1/S checkpoint controls. ..
- Okamoto M, Sudhof T. Mints, Munc18-interacting proteins in synaptic vesicle exocytosis. J Biol Chem. 1997;272:31459-64 pubmed..F. J. (1995) Nature 374, 173-177). Our data suggest a model whereby local production of phosphatidylinositol phosphates may trigger the binding of vesicles to the active zone via the Mint.Munc18-1 complex in conjunction with syntaxin 1. ..
- Chang C, Gonzalez F, Rothermel B, Sun L, Johnston S, Kodadek T. The Gal4 activation domain binds Sug2 protein, a proteasome component, in vivo and in vitro. J Biol Chem. 2001;276:30956-63 pubmed
- Wu S, Huang J, Dong J, Pan D. hippo encodes a Ste-20 family protein kinase that restricts cell proliferation and promotes apoptosis in conjunction with salvador and warts. Cell. 2003;114:445-56 pubmed..A human homolog of hpo completely rescues the overgrowth phenotype of Drosophila hpo mutants, suggesting that hpo might play a conserved role for growth control in mammals. ..
- Liu Z, Sekito T, Spirek M, Thornton J, Butow R. Retrograde signaling is regulated by the dynamic interaction between Rtg2p and Mks1p. Mol Cell. 2003;12:401-11 pubmed..Point mutations in the Rtg2p ATP binding domain simultaneously block RS and Mks1p-Rtg2p interaction. We propose that activation of RS via mitochondrial dysfunction and TOR inhibition intersect at the Rtg2p-Mks1p switch. ..
- Chen X, Wang X, Kaufman B, Butow R. Aconitase couples metabolic regulation to mitochondrial DNA maintenance. Science. 2005;307:714-7 pubmed..When constitutively expressed, Aco1p can replace the mtDNA packaging function of the high-mobility-group protein Abf2p. Thus, Aco1p may integrate metabolic signals and mtDNA maintenance. ..
- Gillette T, Yu S, Zhou Z, Waters R, Johnston S, Reed S. Distinct functions of the ubiquitin-proteasome pathway influence nucleotide excision repair. EMBO J. 2006;25:2529-38 pubmed..These studies reveal that, following UV radiation, NER is mediated by nonproteolytic activities of the UPP, via the ubiquitin-like domain of Rad23 and UV radiation-induced ubiquitination of Rad4. ..
- Binns D, Januszewski T, Chen Y, Hill J, Markin V, Zhao Y, et al. An intimate collaboration between peroxisomes and lipid bodies. J Cell Biol. 2006;173:719-31 pubmed..Our results suggest that the extensive physical contact between peroxisomes and lipid bodies promotes the coupling of lipolysis within lipid bodies with peroxisomal fatty acid oxidation. ..
- Kinch L, Grishin N. Longin-like folds identified in CHiPS and DUF254 proteins: vesicle trafficking complexes conserved in eukaryotic evolution. Protein Sci. 2006;15:2669-74 pubmed
- Archer C, Burdine L, Liu B, Ferdous A, Johnston S, Kodadek T. Physical and functional interactions of monoubiquitylated transactivators with the proteasome. J Biol Chem. 2008;283:21789-98 pubmed publisher..A model is proposed in which activator monoubiquitylation serves to limit the lifetime of the activator-ATPase complex interaction and thus the ability of the ATPases to unfold the activator and dissociate the protein-DNA complex. ..
- Wu X, Tu B. Selective regulation of autophagy by the Iml1-Npr2-Npr3 complex in the absence of nitrogen starvation. Mol Biol Cell. 2011;22:4124-33 pubmed publisher..Collectively, our findings have revealed the existence of additional mechanisms that regulate autophagy under previously unrecognized conditions, in response to relatively more subtle changes in metabolic and nutritional state. ..
- Marshall P, Dyer J, Quick M, Goodman J. Redox-sensitive homodimerization of Pex11p: a proposed mechanism to regulate peroxisomal division. J Cell Biol. 1996;135:123-37 pubmed..We propose that the active species is the "monomeric" form, and that the increasing oxidative metabolism within maturing peroxisomes causes dimer formation and inhibition of further organelle division...
- Horazdovsky B, Davies B, Seaman M, McLaughlin S, Yoon S, Emr S. A sorting nexin-1 homologue, Vps5p, forms a complex with Vps17p and is required for recycling the vacuolar protein-sorting receptor. Mol Biol Cell. 1997;8:1529-41 pubmed..On the basis of these and other observations, we propose that the Vps17p protein complex may participate in the intracellular trafficking of the Vps10p-sorting receptor, as well as other later-Golgi proteins. ..
- Wei S, Friedberg E. A fragment of the yeast DNA repair protein Rad4 confers toxicity to E. coli and is required for its interaction with Rad7 protein. Mutat Res. 1998;400:127-33 pubmed..The smallest Rad4 fragment that is toxic to E. coli consists of 336 amino acids with a calculated pI=9.99. ..
- Melcher K, Xu H. Gal80-Gal80 interaction on adjacent Gal4p binding sites is required for complete GAL gene repression. EMBO J. 2001;20:841-51 pubmed..Cooperative binding experiments indicate that Gal80p dimer-dimer interaction probably does not lead to a stronger Gal4p-Gal80p interaction, but most likely to a more complete shielding of the Gal4p activation domain. ..
- Tomkinson A, Bardwell A, Tappe N, Ramos W, Friedberg E. Purification of Rad1 protein from Saccharomyces cerevisiae and further characterization of the Rad1/Rad10 endonuclease complex. Biochemistry. 1994;33:5305-11 pubmed..In these pathways, the specificity and reactivity of the Rad1/Rad10 endonuclease will probably be modulated by further protein-protein interactions. ..
- Tall G, Hama H, DeWald D, Horazdovsky B. The phosphatidylinositol 3-phosphate binding protein Vac1p interacts with a Rab GTPase and a Sec1p homologue to facilitate vesicle-mediated vacuolar protein sorting. Mol Biol Cell. 1999;10:1873-89 pubmed..We propose that activated-Vps21p interacts with its effector, Vac1p, which interacts with Vps45p to regulate the Golgi to endosome SNARE complex. ..
- Duncan J, Gilman A. Characterization of Saccharomyces cerevisiae acyl-protein thioesterase 1, the enzyme responsible for G protein alpha subunit deacylation in vivo. J Biol Chem. 2002;277:31740-52 pubmed..We conclude that native APT1 is the enzyme responsible for G alpha subunit deacylation in S. cerevisiae and presumably other eukaryotes as well. ..
- Otomo T, Tomchick D, Otomo C, Panchal S, Machius M, Rosen M. Structural basis of actin filament nucleation and processive capping by a formin homology 2 domain. Nature. 2005;433:488-94 pubmed..Kinetic and/or thermodynamic differences in the conformational and binding equilibria can explain the variable activity of different FH2 domains as well as the effects of the actin-binding protein profilin on FH2 function. ..
- Süel K, Gu H, Chook Y. Modular organization and combinatorial energetics of proline-tyrosine nuclear localization signals. PLoS Biol. 2008;6:e137 pubmed publisher..The modular organization of the PY-NLS coupled with its combinatorial energetics lays a path to decode this diverse and evolvable signal for future comprehensive genome-scale identification of nuclear import substrates. ..
- Zelenaya Troitskaya O, Perlman P, Butow R. An enzyme in yeast mitochondria that catalyzes a step in branched-chain amino acid biosynthesis also functions in mitochondrial DNA stability. EMBO J. 1995;14:3268-76 pubmed..We suggest that ILV5 encodes a bifunctional protein required for branched-chain amino acid biosynthesis and for the maintenance of rho+ mtDNA. ..
- Zheng W, Xu H, Johnston S. The cysteine-peptidase bleomycin hydrolase is a member of the galactose regulon in yeast. J Biol Chem. 1997;272:30350-5 pubmed..Neither the peptidase nor the nucleic acid binding activity of Gal6p as assayed is apparently required to convey this regulation, implying yet another function for this new member of the GAL regulon. ..
- Zelenaya Troitskaya O, Newman S, Okamoto K, Perlman P, Butow R. Functions of the high mobility group protein, Abf2p, in mitochondrial DNA segregation, recombination and copy number in Saccharomyces cerevisiae. Genetics. 1998;148:1763-76 pubmed..These findings are discussed in the context of a model relating mtDNA copy number control and stability to mtDNA recombination. ..
- Yamaguchi T, Dulubova I, Min S, Chen X, Rizo J, Sudhof T. Sly1 binds to Golgi and ER syntaxins via a conserved N-terminal peptide motif. Dev Cell. 2002;2:295-305 pubmed..These data suggest a potentially general mechanism by which SM proteins could interact with peptides in target proteins independent of core complex assembly and suggest that munc18 binding to syntaxin is an exception. ..
- Chen W, Yazicioglu M, Cobb M. Characterization of OSR1, a member of the mammalian Ste20p/germinal center kinase subfamily. J Biol Chem. 2004;279:11129-36 pubmed..Replacement of threonine 84 with glutamate reduced the activation of PAK1 by an active form of the small G protein Cdc42, suggesting that phosphorylation by OSR1 modulates the G protein sensitivity of PAK isoforms. ..
- Archer C, Delahodde A, Gonzalez F, Johnston S, Kodadek T. Activation domain-dependent monoubiquitylation of Gal4 protein is essential for promoter binding in vivo. J Biol Chem. 2008;283:12614-23 pubmed publisher..This study validates the physiological importance of Gal4 monoubiquitylation and clarifies its major role as that of protecting the activator from being destabilized by the proteasomal ATPases. ..
- Ding W, Johnston S. The DNA binding and activation domains of Gal4p are sufficient for conveying its regulatory signals. Mol Cell Biol. 1997;17:2538-49 pubmed..Our observations imply that the internal region of Gal4 protein may serve as a spacer to augment transcription and/or may be involved in intramolecular or Gal4p-Gal4p interactions. ..
- Feaver W, Huang W, Gileadi O, Myers L, Gustafsson C, Kornberg R, et al. Subunit interactions in yeast transcription/repair factor TFIIH. Requirement for Tfb3 subunit in nucleotide excision repair. J Biol Chem. 2000;275:5941-6 pubmed..These interactions have facilitated a more complete model of the structure of TFIIH and the nucleotide excision repairosome. ..
- Shelton S, Barylko B, Binns D, Horazdovsky B, Albanesi J, Goodman J. Saccharomyces cerevisiae contains a Type II phosphoinositide 4-kinase. Biochem J. 2003;371:533-40 pubmed..Lsb6p-green fluorescent protein was found both on vacuolar membranes and on the plasma membrane, suggesting a role in endocytic or exocytic pathways. ..
- Marshall P, Krimkevich Y, Lark R, Dyer J, Veenhuis M, Goodman J. Pmp27 promotes peroxisomal proliferation. J Cell Biol. 1995;129:345-55 pubmed..In contrast, cells in a strain in which Pmp27 was overexpressed contained an increased number of normal-sized peroxisomes. We suggest that Pmp27 promotes peroxisomal proliferation by participating in peroxisomal elongation or fission. ..
- Chen J, Sutter B, Shi L, Tu B. GATOR1 regulates nitrogenic cataplerotic reactions of the mitochondrial TCA cycle. Nat Chem Biol. 2017;13:1179-1186 pubmed publisher..Our findings revealed that negative regulators of TORC1, such as GATOR1 (SEACIT), regulate the cataplerotic synthesis of these amino acids from the TCA cycle, in tune with the amino acid and nitrogen status of cells. ..
- Liu Z, Spirek M, Thornton J, Butow R. A novel degron-mediated degradation of the RTG pathway regulator, Mks1p, by SCFGrr1. Mol Biol Cell. 2005;16:4893-904 pubmed..We propose that Mks1p is a central player of RS and is acted upon by multiple regulators of the pathway. ..
- Xu H, Johnston S. Yeast bleomycin hydrolase is a DNA-binding cysteine protease. Identification, purification, biochemical characterization. J Biol Chem. 1994;269:21177-83 pubmed..This protein may represent the first example of a eukaryotic DNA-binding protease. The discovery of a DNA binding activity for BLM hydrolase suggests an in vivo interaction between it and BLM on DNA. ..
- Bardwell A, Bardwell L, Johnson D, Friedberg E. Yeast DNA recombination and repair proteins Rad1 and Rad10 constitute a complex in vivo mediated by localized hydrophobic domains. Mol Microbiol. 1993;8:1177-88 pubmed..We conclude that Rad1 and Rad10 operate in DNA repair and mitotic recombination as a constitutive complex. ..
- McKinsey T, Zhang C, Olson E. Control of muscle development by dueling HATs and HDACs. Curr Opin Genet Dev. 2001;11:497-504 pubmed..We describe the molecules and mechanisms involved in chromatin remodeling during skeletal muscle development. ..
- Tall G, Barbieri M, Stahl P, Horazdovsky B. Ras-activated endocytosis is mediated by the Rab5 guanine nucleotide exchange activity of RIN1. Dev Cell. 2001;1:73-82 pubmed..We conclude that Ras-activated endocytosis is facilitated, in part, by the ability of Ras to directly regulate the Rab5 nucleotide exchange activity of RIN1. ..
- Dulubova I, Yamaguchi T, Arac D, Li H, Huryeva I, Min S, et al. Convergence and divergence in the mechanism of SNARE binding by Sec1/Munc18-like proteins. Proc Natl Acad Sci U S A. 2003;100:32-7 pubmed
- Melcher K, Johnston S. GAL4 interacts with TATA-binding protein and coactivators. Mol Cell Biol. 1995;15:2839-48 pubmed..This suggests that these two prototypic activators make similar contacts with TBP. ..
- Swaffield J, Melcher K, Johnston S. A highly conserved ATPase protein as a mediator between acidic activation domains and the TATA-binding protein. Nature. 1995;374:88-91 pubmed..Sug1 is a member of a large, highly conserved family of ATPases, implying a role for ATP hydrolysis in the activation of transcription. ..
- Huang W, Feaver W, Tomkinson A, Friedberg E. The N-degron protein degradation strategy for investigating the function of essential genes: requirement for replication protein A and proliferating cell nuclear antigen proteins for nucleotide excision repair in yeast extracts. Mutat Res. 1998;408:183-94 pubmed..We also demonstrate a physical interaction between RPA1 protein and subunits of the RNA polymerase II basal transcription factor IIH (TFIIH). ..
- Sekito T, Thornton J, Butow R. Mitochondria-to-nuclear signaling is regulated by the subcellular localization of the transcription factors Rtg1p and Rtg3p. Mol Biol Cell. 2000;11:2103-15 pubmed..Our data show that Rtg1p acts as both a positive and negative regulator of the retrograde response and that Rtg2p acts to transduce mitochondrial signals affecting the phosphorylation state and subcellular localization of Rtg3p. ..
- Xie Y, Denison C, Yang S, Fancy D, Kodadek T. Biochemical characterization of the TATA-binding protein-Gal4 activation domain complex. J Biol Chem. 2000;275:31914-20 pubmed..The kinetics of the formation and dissociation of the AAD(2)-TBP complex is also probed. The impact of these findings on models for Gal4-mediated transcriptional activation is considered. ..
- Nalley K, Johnston S, Kodadek T. Proteolytic turnover of the Gal4 transcription factor is not required for function in vivo. Nature. 2006;442:1054-7 pubmed..These studies, combined with earlier data, show that the lifetimes of different transactivator-promoter complexes in vivo can vary widely and that proteasome-mediated turnover is not a general requirement for transactivator function. ..
- Soniat M, Sampathkumar P, Collett G, Gizzi A, Banu R, Bhosle R, et al. Crystal structure of human Karyopherin ?2 bound to the PY-NLS of Saccharomyces cerevisiae Nab2. J Struct Funct Genomics. 2013;14:31-5 pubmed publisher..05-Å resolution. A seven-residue segment of the PY-NLS of Nab2 is observed to bind Kap?2 in an extended conformation and occupies the same PY-NLS binding site observed in other Kap?2·PY-NLS structures. ..
- Margossian S, Li H, Zassenhaus H, Butow R. The DExH box protein Suv3p is a component of a yeast mitochondrial 3'-to-5' exoribonuclease that suppresses group I intron toxicity. Cell. 1996;84:199-209 pubmed..These findings account for group I intron overaccumulation in cells lacking Suv3p and define a novel function for putative RNA helicases in direct RNA degradation. ..
- Jia Y, Rothermel B, Thornton J, Butow R. A basic helix-loop-helix-leucine zipper transcription complex in yeast functions in a signaling pathway from mitochondria to the nucleus. Mol Cell Biol. 1997;17:1110-7 pubmed..The basic region of Rtg3p conforms well to the basic region of most bHLH proteins, whereas the basic region of Rtg1p does not. These findings suggest that the Rtg1p-Rtg3p complex interacts in a novel way with its DNA target sites. ..
- Sun L, Johnston S, Kodadek T. Physical association of the APIS complex and general transcription factors. Biochem Biophys Res Commun. 2002;296:991-9 pubmed..These data add to the growing body of evidence that the APIS complex has a role in transcription, independent of its role in proteolysis and, furthermore, argues that it functions in association with the general transcription complex. ..
- Bembenek J, Kang J, Kurischko C, Li B, Raab J, Belanger K, et al. Crm1-mediated nuclear export of Cdc14 is required for the completion of cytokinesis in budding yeast. Cell Cycle. 2005;4:961-71 pubmed..Our results suggest a requirement for Crm1p-dependent nuclear export of Cdc14p in coordinating mitotic exit and cytokinesis in budding yeast. ..
- Xu D, Farmer A, Collett G, Grishin N, Chook Y. Sequence and structural analyses of nuclear export signals in the NESdb database. Mol Biol Cell. 2012;23:3677-93 pubmed publisher..Finally, we also tested CRM1-binding of 40 NESs that were found in the 56 structures. We found that 16 of the NES peptides did not bind CRM1, hence illustrating how NESs are easily misidentified...
- Burnaevskiy N, Fox T, Plymire D, Ertelt J, Weigele B, Selyunin A, et al. Proteolytic elimination of N-myristoyl modifications by the Shigella virulence factor IpaJ. Nature. 2013;496:106-9 pubmed publisher..Taken together, these findings show a previously unrecognized pathogenic mechanism for the site-specific elimination of N-myristoyl protein modification...
- 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. ..
- Bardwell L, Bardwell A, Feaver W, Svejstrup J, Kornberg R, Friedberg E. Yeast RAD3 protein binds directly to both SSL2 and SSL1 proteins: implications for the structure and function of transcription/repair factor b. Proc Natl Acad Sci U S A. 1994;91:3926-30 pubmed..We present genetic evidence suggesting that the DNA-repair function of SSL2 protein is not dependent on its essential function. ..
- Gonzalez F, Delahodde A, Kodadek T, Johnston S. Recruitment of a 19S proteasome subcomplex to an activated promoter. Science. 2002;296:548-50 pubmed..These data indicate that in vivo, the base of the 19S complex functions independently of the larger complex and plays a direct, nonproteolytic role in RNA polymerase II transcription. ..
- Guaragnella N, Butow R. ATO3 encoding a putative outward ammonium transporter is an RTG-independent retrograde responsive gene regulated by GCN4 and the Ssy1-Ptr3-Ssy5 amino acid sensor system. J Biol Chem. 2003;278:45882-7 pubmed publisher..We propose that ATO3 is induced in rhoo cells to eliminate the excess ammonia that arises because of a potential defect in ammonia assimilation in those cells...
- Han S, Bahmanyar S, Zhang P, Grishin N, Oegema K, Crooke R, et al. Nuclear envelope phosphatase 1-regulatory subunit 1 (formerly TMEM188) is the metazoan Spo7p ortholog and functions in the lipin activation pathway. J Biol Chem. 2012;287:3123-37 pubmed publisher..The nuclear fraction of lipin-1b is increased when CTDNEP1 and NEP1-R1 are co-expressed. Therefore, NEP1-R1 is functionally conserved from yeast to humans and functions in the lipin activation pathway. ..
- Ayaz P, Ye X, Huddleston P, Brautigam C, Rice L. A TOG:??-tubulin complex structure reveals conformation-based mechanisms for a microtubule polymerase. Science. 2012;337:857-60 pubmed publisher..Conformation-selective interactions with ??-tubulin explain how TOG-containing polymerases discriminate between unpolymerized and polymerized forms of ??-tubulin and how they selectively recognize the growing end of the microtubule. ..
- Cai L, McCormick M, Kennedy B, Tu B. Integration of multiple nutrient cues and regulation of lifespan by ribosomal transcription factor Ifh1. Cell Rep. 2013;4:1063-71 pubmed publisher..However, instead of modulating overall rates of RP gene transcription or cell growth, the nutrient-responsive phosphorylation of Ifh1p plays a more prominent role in the regulation of cellular replicative lifespan. ..
- Chen X. Sal1p, a calcium-dependent carrier protein that suppresses an essential cellular function associated With the Aac2 isoform of ADP/ATP translocase in Saccharomyces cerevisiae. Genetics. 2004;167:607-17 pubmed..On the basis of these observations, it is proposed that Aac2p and Sal1p may define two parallel pathways that transport a nucleotide substrate in an operational mode distinct from ADP/ATP exchange. ..
- Hou F, Zou H. Two human orthologues of Eco1/Ctf7 acetyltransferases are both required for proper sister-chromatid cohesion. Mol Biol Cell. 2005;16:3908-18 pubmed..We propose that EFO1 and EFO2 are targeted to different chromosome structures to help establish or maintain sister-chromatid cohesion. ..
- Sun Q, Carrasco Y, Hu Y, Guo X, Mirzaei H, MacMillan J, et al. Nuclear export inhibition through covalent conjugation and hydrolysis of Leptomycin B by CRM1. Proc Natl Acad Sci U S A. 2013;110:1303-8 pubmed publisher..The nuclear export signal (NES)-binding groove of CRM1 is able to drive a chemical reaction in addition to binding protein cargoes for transport through the nuclear pore complex. ..
- Sutter B, Wu X, Laxman S, Tu B. Methionine inhibits autophagy and promotes growth by inducing the SAM-responsive methylation of PP2A. Cell. 2013;154:403-15 pubmed publisher..Thus, methionine and SAM levels represent a critical gauge of amino acid availability that is sensed via the methylation of PP2A to reciprocally regulate cell growth and autophagy. ..
- Tomkinson A, Bardwell A, Bardwell L, Tappe N, Friedberg E. Yeast DNA repair and recombination proteins Rad1 and Rad10 constitute a single-stranded-DNA endonuclease. Nature. 1993;362:860-2 pubmed
- Siede W, Friedl A, Dianova I, Eckardt Schupp F, Friedberg E. The Saccharomyces cerevisiae Ku autoantigen homologue affects radiosensitivity only in the absence of homologous recombination. Genetics. 1996;142:91-102 pubmed
- Reed S, You Z, Friedberg E. The yeast RAD7 and RAD16 genes are required for postincision events during nucleotide excision repair. In vitro and in vivo studies with rad7 and rad16 mutants and purification of a Rad7/Rad16-containing protein complex. J Biol Chem. 1998;273:29481-8 pubmed..We conclude that the products of the RAD7 and RAD16 genes are involved in a postincision event(s) during NER in yeast. ..
- Margraf L, Boriack R, Routheut A, Cuppen I, Alhilali L, Bennett C, et al. Tissue expression and subcellular localization of CLN3, the Batten disease protein. Mol Genet Metab. 1999;66:283-9 pubmed..PPT was most abundant in brain and visceral macrophages where it displayed a coarse granular staining pattern typical of lysosomal distribution. Immunoelectron microscopy confirmed that PPT immunoreactivity was limited to lysosomes. ..
- Russell S, Johnston S. Evidence that proteolysis of Gal4 cannot explain the transcriptional effects of proteasome ATPase mutations. J Biol Chem. 2001;276:9825-31 pubmed..These findings suggest that the 19S regulatory complex may play a more direct role in transcription. ..
- Gillette T, Huang W, Russell S, Reed S, Johnston S, Friedberg E. The 19S complex of the proteasome regulates nucleotide excision repair in yeast. Genes Dev. 2001;15:1528-39 pubmed..The 19S regulatory complex of the yeast proteasome functions in nucleotide excision repair independent of proteolysis. ..
- Wang L, Ding L, Jones C, Jones R. Drosophila Enhancer of zeste protein interacts with dSAP18. Gene. 2002;285:119-25 pubmed..These studies provide support for a model in which dSAP18 contributes to the activities of multiple protein complexes, and potentially may mediate interactions between distinct proteins and/or protein complexes. ..
- Huang H, Chao M, Armstrong B, Wang Y, Lambowitz A, Perlman P. The DIVa maturase binding site in the yeast group II intron aI2 is essential for intron homing but not for in vivo splicing. Mol Cell Biol. 2003;23:8809-19 pubmed..Replacing the DIVa of aI2 with that of the closely related intron aI1 improves in vivo splicing but not homing, indicating that DIVa contributes to the specificity of the maturase-RNA interaction needed for homing. ..
- Giannattasio S, Liu Z, Thornton J, Butow R. Retrograde response to mitochondrial dysfunction is separable from TOR1/2 regulation of retrograde gene expression. J Biol Chem. 2005;280:42528-35 pubmed
- Xiao F, Widlak P, Garrard W. Engineered apoptotic nucleases for chromatin research. Nucleic Acids Res. 2007;35:e93 pubmed..cerevisiae. We further demonstrate the excellence of the synthetic gene products for in vitro mapping of the nucleosome positions and hypersensitive sites in specific genes such as the yeast PHO5. ..
- Reed S, Akiyama M, Stillman B, Friedberg E. Yeast autonomously replicating sequence binding factor is involved in nucleotide excision repair. Genes Dev. 1999;13:3052-8 pubmed..These studies define a novel and unexpected role for ABF1 protein during NER in yeast. ..
- Ferdous A, Gonzalez F, Sun L, Kodadek T, Johnston S. The 19S regulatory particle of the proteasome is required for efficient transcription elongation by RNA polymerase II. Mol Cell. 2001;7:981-91 pubmed..Inhibition of the 20S proteolytic core of the proteasome has no effect on elongation. This work defines a nonproteolytic role for the 19S complex in RNAP II transcription. ..
- Guo C, Fischhaber P, Luk Paszyc M, Masuda Y, Zhou J, Kamiya K, et al. Mouse Rev1 protein interacts with multiple DNA polymerases involved in translesion DNA synthesis. EMBO J. 2003;22:6621-30 pubmed..Our observations suggest that Rev1 plays a role(s) in mediating protein-protein interactions among DNA polymerases required for TLS. The precise function(s) of these interactions during TLS remains to be determined. ..
- Xiao G, Reilly C, Khodursky A. Improved detection of differentially expressed genes through incorporation of gene locations. Biometrics. 2009;65:805-14 pubmed publisher..coli and yeast Saccharomyces cerevisiae show that the proposed method outperforms the commonly used significant analysis of microarray (SAM) t-statistic in detecting DE genes. ..
- Chook Y, Süel K. Nuclear import by karyopherin-?s: recognition and inhibition. Biochim Biophys Acta. 2011;1813:1593-606 pubmed publisher..This article is part of a Special Issue entitled: Regulation of Signaling and Cellular Fate through Modulation of Nuclear Protein Import. ..
- Laxman S, Sutter B, Wu X, Kumar S, Guo X, Trudgian D, et al. Sulfur amino acids regulate translational capacity and metabolic homeostasis through modulation of tRNA thiolation. Cell. 2013;154:416-29 pubmed publisher..Thus, tRNA thiolation enables cells to modulate translational capacity according to the availability of sulfur amino acids, establishing a functional significance for this conserved tRNA nucleotide modification in cell growth control. ..
- Chen W, Andres D, Goldstein J, Russell D, Brown M. cDNA cloning and expression of the peptide-binding beta subunit of rat p21ras farnesyltransferase, the counterpart of yeast DPR1/RAM1. Cell. 1991;66:327-34 pubmed..The rat beta subunit shows 37% sequence identity with the protein encoded by the yeast DPR1/RAM1 gene, indicating that DPR1/RAM1 is the yeast counterpart of the peptide-binding subunit of the mammalian farnesyltransferase. ..
- Mori K, Ma W, Gething M, Sambrook J. A transmembrane protein with a cdc2+/CDC28-related kinase activity is required for signaling from the ER to the nucleus. Cell. 1993;74:743-56 pubmed..We postulate that Ern1p is the proximal sensor of events in the ER and that binding of ligand causes transduction of information across the ER membrane, leading to activation of a specific set of transcription factors. ..
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