Experts and Doctors on saccharomyces cerevisiae proteins in Salt Lake City, Utah, United States


Locale: Salt Lake City, Utah, United States
Topic: saccharomyces cerevisiae proteins

Top Publications

  1. Fukushima N, Brisch E, Keegan B, Bleazard W, Shaw J. The GTPase effector domain sequence of the Dnm1p GTPase regulates self-assembly and controls a rate-limiting step in mitochondrial fission. Mol Biol Cell. 2001;12:2756-66 pubmed
    ..Here we show that expression of the Dnm1 K705A protein in yeast enhances mitochondrial fission. Our results provide evidence that the GED region of a dynamin-related protein modulates a rate-limiting step in membrane fission. ..
  2. Chen Y, Beck A, Davenport C, Chen Y, Shattuck D, Tavtigian S. Characterization of TRZ1, a yeast homolog of the human candidate prostate cancer susceptibility gene ELAC2 encoding tRNase Z. BMC Mol Biol. 2005;6:12 pubmed
    ..Our results provide genetic evidence that prostate cancer susceptibility gene ELAC2 may be involved in RNA processing, especially rRNA processing and mitochondrial function. ..
  3. Biswas D, Dutta Biswas R, Stillman D. Chd1 and yFACT act in opposition in regulating transcription. Mol Cell Biol. 2007;27:6279-87 pubmed
    ..Although human Chd1 has been shown to bind to H3-K4-Me, we discuss evidence arguing that yeast Chd1 binds to neither H3-K4-Me nor H3-K36-Me. ..
  4. Dimaano C, Jones C, Hanono A, Curtiss M, Babst M. Ist1 regulates Vps4 localization and assembly. Mol Biol Cell. 2008;19:465-74 pubmed
    ..The activity of the MVB pathway might be in part determined by outcome of these two competing activities. ..
  5. González Bardeci N, Caramelo J, Blumenthal D, Rinaldi J, Rossi S, Moreno S. The PKA regulatory subunit from yeast forms a homotetramer: Low-resolution structure of the N-terminal oligomerization domain. J Struct Biol. 2016;193:141-54 pubmed publisher
    ..These findings indicate that the oligomerization states of PKA R subunits is more diverse than previously thought, and suggest that this might allow some forms of PKA to interact with a wide range of intracellular partners. ..
  6. Clemons W, Gowda K, Black S, Zwieb C, Ramakrishnan V. Crystal structure of the conserved subdomain of human protein SRP54M at 2.1 A resolution: evidence for the mechanism of signal peptide binding. J Mol Biol. 1999;292:697-705 pubmed
  7. Chen O, Hemenway S, Kaplan J. Inhibition of Fe-S cluster biosynthesis decreases mitochondrial iron export: evidence that Yfh1p affects Fe-S cluster synthesis. Proc Natl Acad Sci U S A. 2002;99:12321-6 pubmed
    ..These results demonstrate a direct role of Yfh1p in the formation of Fe-S clusters and indicate that mitochondrial iron export requires Fe-S cluster biosynthesis. ..
  8. Rong Y, Golic K. The homologous chromosome is an effective template for the repair of mitotic DNA double-strand breaks in Drosophila. Genetics. 2003;165:1831-42 pubmed
    ..We also find that Drosophila mitotic cells of the germ line, like yeast, employ the homologous recombinational repair pathway more often than imperfect nonhomologous end joining. ..
  9. Kasten M, Szerlong H, Erdjument Bromage H, Tempst P, Werner M, Cairns B. Tandem bromodomains in the chromatin remodeler RSC recognize acetylated histone H3 Lys14. EMBO J. 2004;23:1348-59 pubmed
    ..Taken together, Rsc4 bears essential tandem bromodomains that rely on H3 Lys14 acetylation to assist RSC complex for gene activation. ..

More Information

Publications171 found, 100 shown here

  1. Formosa T, Nittis T. Suppressors of the temperature sensitivity of DNA polymerase alpha mutations in Saccharomyces cerevisiae. Mol Gen Genet. 1998;257:461-8 pubmed
    ..We also describe a transposon-mediated strategy that should be generally effective for rapid characterization of multicopy suppressors. ..
  2. Keller G, Bird A, Winge D. Independent metalloregulation of Ace1 and Mac1 in Saccharomyces cerevisiae. Eukaryot Cell. 2005;4:1863-71 pubmed
    ..Likewise, high expression of a copper-binding, non-DNA-binding Mac1 mutant is without effect on the copper activation of Ace1. Thus, metalloregulation of Ace1 and Mac1 occurs independently. ..
  3. Biswas D, Takahata S, Xin H, Dutta Biswas R, Yu Y, Formosa T, et al. A role for Chd1 and Set2 in negatively regulating DNA replication in Saccharomyces cerevisiae. Genetics. 2008;178:649-59 pubmed publisher
    ..The pob3 defect in S-phase progression is suppressed by set2 or chd1 mutations, suggesting that Set2 and Chd1 have specific roles in negatively regulating DNA replication. ..
  4. Parnell K, Bass B. Functional redundancy of yeast proteins Reh1 and Rei1 in cytoplasmic 60S subunit maturation. Mol Cell Biol. 2009;29:4014-23 pubmed publisher
    ..We observe that strains lacking both Reh1 and Rei1 accumulate salt-labile 60S subunits, suggesting that Reh1/Rei1 is necessary for the cytoplasmic 60S subunit to adopt its mature, stable form. ..
  5. Kemble D, Whitby F, Robinson H, McCullough L, Formosa T, Hill C. Structure of the Spt16 middle domain reveals functional features of the histone chaperone FACT. J Biol Chem. 2013;288:10188-94 pubmed publisher
    ..Our structure provides a framework for interpreting a large body of genetic data regarding the physiological functions of FACT, including the identification of potential interaction surfaces for binding histones or other proteins. ..
  6. Ferrell K, Deveraux Q, van Nocker S, Rechsteiner M. Molecular cloning and expression of a multiubiquitin chain binding subunit of the human 26S protease. FEBS Lett. 1996;381:143-8 pubmed
    ..Moreover, expression of the isolated cDNA in E. coli results in a recombinant protein with an apparent molecular mass and multiubiquitin binding properties that match those of human S5a obtained from the purified 26S enzyme. ..
  7. Keller G, Gross C, Kelleher M, Winge D. Functional independence of the two cysteine-rich activation domains in the yeast Mac1 transcription factor. J Biol Chem. 2000;275:29193-9 pubmed
    ..Thus, the two Cys-rich motifs appear to function independently. The C1 motif appears to be a functional copper-regulatory domain. ..
  8. Heaton D, Nittis T, Srinivasan C, Winge D. Mutational analysis of the mitochondrial copper metallochaperone Cox17. J Biol Chem. 2000;275:37582-7 pubmed
    ..Thus, only three cysteinyl residues are important for the ligation of three Cu(I) ions. A novel mode of Cu(I) binding is predicted. ..
  9. Keller G, Ray E, Brown P, Winge D. Haa1, a protein homologous to the copper-regulated transcription factor Ace1, is a novel transcriptional activator. J Biol Chem. 2001;276:38697-702 pubmed
    ..Overexpression of Haa1 does not compensate for cells lacking a functional Ace1. The lack of metalloregulation of Haa1 despite the strong sequence similarity to the copper regulatory domain of Ace1 is discussed. ..
  10. McBride H, Sil A, Measday V, Yu Y, Moffat J, Maxon M, et al. The protein kinase Pho85 is required for asymmetric accumulation of the Ash1 protein in Saccharomyces cerevisiae. Mol Microbiol. 2001;42:345-53 pubmed
    ..We observe that Ash1 protein is phosphorylated by Pho85 in vitro and that Ash1 stability increases in a pho85 mutant. These data suggest that phosphorylation of Ash1 by Pho85 governs stability of Ash1 protein. ..
  11. Stuchell M, Garrus J, Muller B, Stray K, Ghaffarian S, McKinnon R, et al. The human endosomal sorting complex required for transport (ESCRT-I) and its role in HIV-1 budding. J Biol Chem. 2004;279:36059-71 pubmed
    ..Taken together, these experiments define new components of the human ESCRT-I complex and characterize several TSG101 protein/protein interactions required for HIV-1 budding and infectivity. ..
  12. Li L, Bagley D, Ward D, Kaplan J. Yap5 is an iron-responsive transcriptional activator that regulates vacuolar iron storage in yeast. Mol Cell Biol. 2008;28:1326-37 pubmed
    ..These results show that Yap5 is an iron-sensing transcription factor and that iron regulates transcriptional activation. ..
  13. Biswas D, Takahata S, Stillman D. Different genetic functions for the Rpd3(L) and Rpd3(S) complexes suggest competition between NuA4 and Rpd3(S). Mol Cell Biol. 2008;28:4445-58 pubmed publisher
    ..Our results suggest that the Rpd3(L) and Rpd3(S) complexes have distinct functions in vivo and that the relative amounts of the two forms alter the effectiveness of other chromatin-altering complexes, such as FACT and NuA4. ..
  14. Gonciarz M, Whitby F, Eckert D, Kieffer C, Heroux A, Sundquist W, et al. Biochemical and structural studies of yeast Vps4 oligomerization. J Mol Biol. 2008;384:878-95 pubmed publisher
    ..Our mutational analyses demonstrate that pore loop 2 residues Arg241 and Arg251 are required for efficient HIV-1 budding, thereby supporting a role for this "arginine collar" in Vps4 function. ..
  15. Kim H, Winge D. Emerging concepts in the flavinylation of succinate dehydrogenase. Biochim Biophys Acta. 2013;1827:627-36 pubmed publisher
    ..This article is part of a Special Issue entitled: Respiratory complex II: Role in cellular physiology and disease. ..
  16. Heo J, Nielson J, Dephoure N, Gygi S, Rutter J. Intramolecular interactions control Vms1 translocation to damaged mitochondria. Mol Biol Cell. 2013;24:1263-73 pubmed publisher
    ..These studies define cellular and biochemical mechanisms by which Vms1 locali-zation to mitochondria is controlled to enable an efficient protein quality control system. ..
  17. Radisky D, Snyder W, Emr S, Kaplan J. Characterization of VPS41, a gene required for vacuolar trafficking and high-affinity iron transport in yeast. Proc Natl Acad Sci U S A. 1997;94:5662-6 pubmed
  18. Kasten M, Dorland S, Stillman D. A large protein complex containing the yeast Sin3p and Rpd3p transcriptional regulators. Mol Cell Biol. 1997;17:4852-8 pubmed
    ..We show that Rpd3p is present in the Sin3p complex and that an rpd3 mutation eliminates SIN3-dependent repression. Thus, Sin3p may function as a bridge to recruit the Rpd3p histone deacetylase to specific promoters. ..
  19. Hermann G, Thatcher J, Mills J, Hales K, Fuller M, Nunnari J, et al. Mitochondrial fusion in yeast requires the transmembrane GTPase Fzo1p. J Cell Biol. 1998;143:359-73 pubmed
    ..We propose that the fuzzy onions family of transmembrane GTPases act as molecular switches to regulate a key step in mitochondrial membrane docking and/or fusion. ..
  20. Schlesinger M, Formosa T. POB3 is required for both transcription and replication in the yeast Saccharomyces cerevisiae. Genetics. 2000;155:1593-606 pubmed
    ..Direct examination of DNA contents by flow cytometry showed that S phase onset and progression were delayed when POB3 was mutated. We conclude that Pob3 is required for normal replication as well as for transcription. ..
  21. Mozdy A, McCaffery J, Shaw J. Dnm1p GTPase-mediated mitochondrial fission is a multi-step process requiring the novel integral membrane component Fis1p. J Cell Biol. 2000;151:367-80 pubmed
    ..We propose that mitochondrial fission in yeast is a multi-step process, and that membrane-bound Fis1p is required for the proper assembly, membrane distribution, and function of Dnm1p-containing complexes during fission. ..
  22. Bricker D, Taylor E, Schell J, Orsak T, Boutron A, Chen Y, et al. A mitochondrial pyruvate carrier required for pyruvate uptake in yeast, Drosophila, and humans. Science. 2012;337:96-100 pubmed publisher
    ..These data demonstrate that Mpc1 and Mpc2 form an essential part of the mitochondrial pyruvate carrier. ..
  23. Lewandowska A, Macfarlane J, Shaw J. Mitochondrial association, protein phosphorylation, and degradation regulate the availability of the active Rab GTPase Ypt11 for mitochondrial inheritance. Mol Biol Cell. 2013;24:1185-95 pubmed publisher
    ..We present a model that synthesizes these new features of Ypt11 function and regulation in mitochondrial inheritance. ..
  24. McCullough L, Poe B, Connell Z, Xin H, Formosa T. The FACT histone chaperone guides histone H4 into its nucleosomal conformation in Saccharomyces cerevisiae. Genetics. 2013;195:101-13 pubmed publisher
    ..FACT can therefore destabilize nucleosomes by favoring the reorganized state, but it can also promote assembly by tethering histones and DNA together and maintaining them in conformations that promote canonical nucleosome formation. ..
  25. Cui T, Conte A, Fox J, Zara V, Winge D. Modulation of the respiratory supercomplexes in yeast: enhanced formation of cytochrome oxidase increases the stability and abundance of respiratory supercomplexes. J Biol Chem. 2014;289:6133-41 pubmed publisher
    ..This study presents the first evidence showing that supercomplexes can be stabilized by the stimulated formation of CcO. ..
  26. Witter D, Poulter C. Yeast geranylgeranyltransferase type-II: steady state kinetic studies of the recombinant enzyme. Biochemistry. 1996;35:10454-63 pubmed
    ..The mass of the fragment is consistent with the 12-mer C-terminal amino acid fragment predicted from proteolysis by trypsin with both cysteine residues modified by geranylgeranyl moieties. ..
  27. Cao Y, Traer E, Zimmerman G, McIntyre T, Prescott S. Cloning, expression, and chromosomal localization of human long-chain fatty acid-CoA ligase 4 (FACL4). Genomics. 1998;49:327-30 pubmed
    ..Finally, this gene was localized to chromosome Xq23 in human by FISH analysis. ..
  28. Rutherford J, Ojeda L, Balk J, Muhlenhoff U, Lill R, Winge D. Activation of the iron regulon by the yeast Aft1/Aft2 transcription factors depends on mitochondrial but not cytosolic iron-sulfur protein biogenesis. J Biol Chem. 2005;280:10135-40 pubmed
    ..Although Aft1 and Aft2 sense a signal emanating from the Fe-S cluster biogenesis pathway, there is no indication that the proteins are inhibited by direct binding of an Fe-S cluster. ..
  29. Davis Kaplan S, Compton M, Flannery A, Ward D, Kaplan J, Stevens T, et al. PKR1 encodes an assembly factor for the yeast V-type ATPase. J Biol Chem. 2006;281:32025-35 pubmed
    ..Our data indicate that Pkr1p functions together with the other V-ATPase assembly factors in the ER to efficiently assemble the V-ATPase membrane sector. ..
  30. Nguyen T, Lewandowska A, Choi J, Markgraf D, Junker M, Bilgin M, et al. Gem1 and ERMES do not directly affect phosphatidylserine transport from ER to mitochondria or mitochondrial inheritance. Traffic. 2012;13:880-90 pubmed publisher
    ..Finally, we show that ERMES complexes are long-lived, and do not depend on the presence of Gem1. Our findings suggest that the ERMES complex may have primarily a structural role in maintaining mitochondrial morphology. ..
  31. Frederick R, McCaffery J, Cunningham K, Okamoto K, Shaw J. Yeast Miro GTPase, Gem1p, regulates mitochondrial morphology via a novel pathway. J Cell Biol. 2004;167:87-98 pubmed
    ..2003. J. Biol. Chem. 278:6495-6502), Gem1p is not required for pheromone-induced yeast cell death. Thus, Gem1p defines a novel mitochondrial morphology pathway which may integrate cell signaling events with mitochondrial dynamics. ..
  32. Smith P, Fox J, Winge D. Biogenesis of the cytochrome bc(1) complex and role of assembly factors. Biochim Biophys Acta. 2012;1817:276-86 pubmed publisher
    ..This article is part of a Special Issue entitled: Biogenesis/Assembly of Respiratory Enzyme Complexes. ..
  33. Wang H, Reynolds Hager L, Stillman D. Genetic interactions between SIN3 mutations and the Saccharomyces cerevisiae transcriptional activators encoded by MCM1, STE12, and SWI1. Mol Gen Genet. 1994;245:675-85 pubmed
    ..Thus, it is possible that the decreased transcription of STE6 in sin3 mutants is due to the combined effect of the diminished activities of Mcm1p and Ste12p...
  34. Kasten M, Stillman D. Identification of the Saccharomyces cerevisiae genes STB1-STB5 encoding Sin3p binding proteins. Mol Gen Genet. 1997;256:376-86 pubmed
    ..We have shown previously that Sin3p is part of a large multiprotein complex, and we show here that Stb1p and Stb2p are present in this complex. ..
  35. Jensen L, Posewitz M, Srinivasan C, Winge D. Mapping of the DNA binding domain of the copper-responsive transcription factor Mac1 from Saccharomyces cerevisiae. J Biol Chem. 1998;273:23805-11 pubmed
    ..The elements appear to function synergistically. Increasing the number of elements yields more than additive enhancements in CTR1 expression. ..
  36. Voth W, Richards J, Shaw J, Stillman D. Yeast vectors for integration at the HO locus. Nucleic Acids Res. 2001;29:E59-9 pubmed
    ..We also describe several new bacterial polylinker vectors derived from pUC21 (ampicillin resistance) and pUK21 (kanamycin resistance). ..
  37. Kozlova T, Thummel C. Spatial patterns of ecdysteroid receptor activation during the onset of Drosophila metamorphosis. Development. 2002;129:1739-50 pubmed
    ..Finally, we show that GAL4-EcR functions as a potent and specific dominant negative at the onset of metamorphosis, providing a new tool for characterizing ecdysteroid signaling pathways during development. ..
  38. Szerlong H, Saha A, Cairns B. The nuclear actin-related proteins Arp7 and Arp9: a dimeric module that cooperates with architectural proteins for chromatin remodeling. EMBO J. 2003;22:3175-87 pubmed
    ..We propose that Arp7/9 dimers function with DNA bending proteins to facilitate proper chromatin architecture and complex- complex interactions. ..
  39. Zhang H, Richardson D, Roberts D, Utley R, Erdjument Bromage H, Tempst P, et al. The Yaf9 component of the SWR1 and NuA4 complexes is required for proper gene expression, histone H4 acetylation, and Htz1 replacement near telomeres. Mol Cell Biol. 2004;24:9424-36 pubmed
    ..Taken together, these data indicate that Yaf9 may function in NuA4 and SWR1 complexes to help antagonize silencing near telomeres. ..
  40. Crisp R, Adkins E, Kimmel E, Kaplan J. Recruitment of Tup1p and Cti6p regulates heme-deficient expression of Aft1p target genes. EMBO J. 2006;25:512-21 pubmed
    ..We hypothesize that transcription of the siderophore transporter ARN1 permits yeast to accumulate iron in the absence of oxygen and to deny iron to competing organisms. ..
  41. Kumanovics A, Poruk K, Osborn K, Ward D, Kaplan J. YKE4 (YIL023C) encodes a bidirectional zinc transporter in the endoplasmic reticulum of Saccharomyces cerevisiae. J Biol Chem. 2006;281:22566-74 pubmed
  42. Voth W, Yu Y, Takahata S, Kretschmann K, Lieb J, Parker R, et al. Forkhead proteins control the outcome of transcription factor binding by antiactivation. EMBO J. 2007;26:4324-34 pubmed
    ..Thus Fkh proteins, which function initially to activate SWI5 and ACE2, subsequently function as Swi5-specific antiactivators. ..
  43. VanDemark A, Xin H, McCullough L, Rawlins R, Bentley S, Heroux A, et al. Structural and functional analysis of the Spt16p N-terminal domain reveals overlapping roles of yFACT subunits. J Biol Chem. 2008;283:5058-68 pubmed
    ..The docking domain of H2A is identified as an important participant in maintaining stability during yFACT-mediated nucleosome reorganization, suggesting new models for the mechanism of this activity. ..
  44. Szerlong H, Hinata K, Viswanathan R, Erdjument Bromage H, Tempst P, Cairns B. The HSA domain binds nuclear actin-related proteins to regulate chromatin-remodeling ATPases. Nat Struct Mol Biol. 2008;15:469-76 pubmed publisher
    ..Taken together, we define the role of the HSA domain and provide evidence for a regulatory relationship involving the ARP-HSA module and two new functional domains conserved in remodeler ATPases that contain ARPs. ..
  45. Pierrel F, Khalimonchuk O, Cobine P, Bestwick M, Winge D. Coa2 is an assembly factor for yeast cytochrome c oxidase biogenesis that facilitates the maturation of Cox1. Mol Cell Biol. 2008;28:4927-39 pubmed publisher
    ..The matrix-localized Coa2 protein may aid in stabilizing an early Cox1 intermediate containing the nuclear subunits Cox5a and Cox6. ..
  46. Stadtmueller B, Hill C. Proteasome activators. Mol Cell. 2011;41:8-19 pubmed publisher
    ..Here we present a structural perspective on how proteasomes are activated and how substrates are delivered to the proteolytic sites. ..
  47. Kim H, Jeong M, Na U, Winge D. Flavinylation and assembly of succinate dehydrogenase are dependent on the C-terminal tail of the flavoprotein subunit. J Biol Chem. 2012;287:40670-9 pubmed publisher
    ..The impaired assembly of SDH with the C-terminal Sdh1 mutants suggests that FAD binding is important to stabilize the Sdh1 conformation enabling association with Sdh2 and the membrane anchor subunits. ..
  48. Li L, Kaplan J, Ward D. The glucose sensor Snf1 and the transcription factors Msn2 and Msn4 regulate transcription of the vacuolar iron importer gene CCC1 and iron resistance in yeast. J Biol Chem. 2017;292:15577-15586 pubmed publisher
    ..In conclusion, we show that yeast have developed multiple transcriptional mechanisms to regulate Ccc1 expression and to protect against high cytosolic iron toxicity. ..
  49. Brazas R, Bhoite L, Murphy M, Yu Y, Chen Y, Neklason D, et al. Determining the requirements for cooperative DNA binding by Swi5p and Pho2p (Grf10p/Bas2p) at the HO promoter. J Biol Chem. 1995;270:29151-61 pubmed
    ..The mechanism of the cooperative DNA binding by Swi5p and Pho2p is discussed. ..
  50. Askwith C, Eide D, Van Ho A, Bernard P, Li L, Davis Kaplan S, et al. The FET3 gene of S. cerevisiae encodes a multicopper oxidase required for ferrous iron uptake. Cell. 1994;76:403-10 pubmed
    ..We suggest that the catalytic activity of the Fet3 protein is required for cellular iron accumulation. ..
  51. Wittmeyer J, Formosa T. The Saccharomyces cerevisiae DNA polymerase alpha catalytic subunit interacts with Cdc68/Spt16 and with Pob3, a protein similar to an HMG1-like protein. Mol Cell Biol. 1997;17:4178-90 pubmed
    ..Based on these results and because Cdc68 has been implicated as a regulator of chromatin structure, we postulate that polymerase alpha may interact with these proteins to gain access to its template or to origins of replication in vivo. ..
  52. Bhoite L, Stillman D. Residues in the Swi5 zinc finger protein that mediate cooperative DNA binding with the Pho2 homeodomain protein. Mol Cell Biol. 1998;18:6436-46 pubmed
    ..Analysis of promoter activation by these mutants suggests that this small region of Swi5 has at least two distinct functions, conferring specificity for activation of the HO promoter and for interaction with Pho2. ..
  53. McVey Ward D, Radisky D, Scullion M, Tuttle M, Vaughn M, Kaplan J. hVPS41 is expressed in multiple isoforms and can associate with vesicles through a RING-H2 finger motif. Exp Cell Res. 2001;267:126-34 pubmed
    ..Together with information from the homologous yeast system, these results suggest that hVps41 may also be involved in the formation and fusion of transport vesicles from the Golgi. ..
  54. Chen O, Hemenway S, Kaplan J. Genetic analysis of iron citrate toxicity in yeast: implications for mammalian iron homeostasis. Proc Natl Acad Sci U S A. 2002;99:16922-7 pubmed
    ..These results suggest that high levels of citrate may promote iron-mediated tissue damage. ..
  55. Fisher R, Wang B, Alam S, Higginson D, Robinson H, Sundquist W, et al. Structure and ubiquitin binding of the ubiquitin-interacting motif. J Biol Chem. 2003;278:28976-84 pubmed
    ..Although Vps27p-2 is monomeric in solution, the motif unexpectedly crystallized as an antiparallel four-helix bundle, and the potential biological implications of UIM oligomerization are therefore discussed. ..
  56. Shiflett S, Ward D, Huynh D, Vaughn M, Simmons J, Kaplan J. Characterization of Vta1p, a class E Vps protein in Saccharomyces cerevisiae. J Biol Chem. 2004;279:10982-90 pubmed
    ..Membrane-associated Vta1p co-purified with Vps60p, suggesting that Vta1p is a class E Vps protein that interacts with Vps60p on a prevacuolar compartment. ..
  57. Rhoades A, Ruone S, Formosa T. Structural features of nucleosomes reorganized by yeast FACT and its HMG box component, Nhp6. Mol Cell Biol. 2004;24:3907-17 pubmed
  58. Stillman D. Nhp6: a small but powerful effector of chromatin structure in Saccharomyces cerevisiae. Biochim Biophys Acta. 2010;1799:175-80 pubmed publisher
    ..The FACT complex may provide a paradigm for how Nhp6 functions with chromatin factors, as Nhp6 allows Spt16-Pob3 to bind to and reorganize nucleosomes in vitro. ..
  59. Khalimonchuk O, Kim H, Watts T, Perez Martinez X, Winge D. Oligomerization of heme o synthase in cytochrome oxidase biogenesis is mediated by cytochrome oxidase assembly factor Coa2. J Biol Chem. 2012;287:26715-26 pubmed publisher
    ..Thus, Cox10 oligomerization and catalytic activation are separate processes and can be uncoupled. ..
  60. Cui T, Smith P, Fox J, Khalimonchuk O, Winge D. Late-stage maturation of the Rieske Fe/S protein: Mzm1 stabilizes Rip1 but does not facilitate its translocation by the AAA ATPase Bcs1. Mol Cell Biol. 2012;32:4400-9 pubmed publisher
    ..However, the Rip1 variants were not stably associated with the supercomplex. The induced supercomplex stabilization by the Rip1 N terminus was independent of Mzm1. ..
  61. Fetherolf M, Boyd S, Taylor A, Kim H, Wohlschlegel J, Blackburn N, et al. Copper-zinc superoxide dismutase is activated through a sulfenic acid intermediate at a copper ion entry site. J Biol Chem. 2017;292:12025-12040 pubmed publisher
    ..Sod1 is the predominant disulfide bond-requiring enzyme in the cytoplasm, and this copper-induced mechanism of disulfide bond formation obviates the need for a thiol/disulfide oxidoreductase in that compartment. ..
  62. Miles J, Formosa T. Evidence that POB1, a Saccharomyces cerevisiae protein that binds to DNA polymerase alpha, acts in DNA metabolism in vivo. Mol Cell Biol. 1992;12:5724-35 pubmed
    ..These phenotypes are consistent with defective DNA metabolism in cells lacking POB1 and strongly suggest that this DNA polymerase alpha-binding protein plays a role in accurately duplicating the genome in vivo. ..
  63. Yu W, Farrell R, Stillman D, Winge D. Identification of SLF1 as a new copper homeostasis gene involved in copper sulfide mineralization in Saccharomyces cerevisiae. Mol Cell Biol. 1996;16:2464-72 pubmed
    ..This process may coordinate with the Cup1 pathway at different copper concentrations to prevent copper-induced toxicity...
  64. Singer J, Hermann G, Shaw J. Suppressors of mdm20 in yeast identify new alleles of ACT1 and TPM1 predicted to enhance actin-tropomyosin interactions. Genetics. 2000;156:523-34 pubmed
    ..The characteristics of the mutant ACT1 and TPM1 alleles and their potential effects on protein structure and binding are discussed. ..
  65. Brown B, Wang Z, Brown K, Cricco J, Hegg E. Heme O synthase and heme A synthase from Bacillus subtilis and Rhodobacter sphaeroides interact in Escherichia coli. Biochemistry. 2004;43:13541-8 pubmed publisher
    ..Because of the strong sequence similarity and evolutionary relationship between R. sphaeroides and mitochondria, our data suggest that this complex may form in eukaryotes as well...
  66. Bhar D, Karren M, Babst M, Shaw J. Dimeric Dnm1-G385D interacts with Mdv1 on mitochondria and can be stimulated to assemble into fission complexes containing Mdv1 and Fis1. J Biol Chem. 2006;281:17312-20 pubmed
    ..Fis1p complexes. These dimers then assemble into multimers that subsequently promote the reorganization of Mdv1p into punctate fission complexes. ..
  67. Kondo Okamoto N, Ohkuni K, Kitagawa K, McCaffery J, Shaw J, Okamoto K. The novel F-box protein Mfb1p regulates mitochondrial connectivity and exhibits asymmetric localization in yeast. Mol Biol Cell. 2006;17:3756-67 pubmed
    ..We propose that Mfb1p operates in a novel pathway regulating mitochondrial tubular connectivity. ..
  68. VanDemark A, Kasten M, Ferris E, Heroux A, Hill C, Cairns B. Autoregulation of the rsc4 tandem bromodomain by gcn5 acetylation. Mol Cell. 2007;27:817-28 pubmed
    ..Additional regulatory mechanisms are indicated as H3S10 phosphorylation inhibits Rsc4 binding to H3K14ac peptides. ..
  69. Kondo Okamoto N, Shaw J, Okamoto K. Tetratricopeptide repeat proteins Tom70 and Tom71 mediate yeast mitochondrial morphogenesis. EMBO Rep. 2008;9:63-9 pubmed
    ..Our data indicate an unexpected role for Tom70 in recruitment of soluble proteins to the mitochondrial surface, and indicate that Tom71 has a specialized role in Mfb1-mediated mitochondrial morphogenesis. ..
  70. Khalimonchuk O, Bestwick M, Meunier B, Watts T, Winge D. Formation of the redox cofactor centers during Cox1 maturation in yeast cytochrome oxidase. Mol Cell Biol. 2010;30:1004-17 pubmed publisher
    ..Thus, formation of the heterobimetallic Cu(B):heme a(3) site likely occurs in the Shy1-containing Cox1 complex. ..
  71. Keener J, Babst M. Quality control and substrate-dependent downregulation of the nutrient transporter Fur4. Traffic. 2013;14:412-27 pubmed publisher
    ..We propose that the LID-degron system is a conserved, chaperone-independent mechanism responsible for conformation-induced downregulation of many cell-surface transporters under physiological and pathological conditions. ..
  72. de Silva D, Davis Kaplan S, Fergestad J, Kaplan J. Purification and characterization of Fet3 protein, a yeast homologue of ceruloplasmin. J Biol Chem. 1997;272:14208-13 pubmed
    ..Interestingly, Fet3p was able to effectively catalyze the incorporation of iron onto apotransferrin. We conclude that Fet3p is a ferro-O2-oxidoreductase in yeast, homologous to the human plasma protein ceruloplasmin. ..
  73. Bhoite L, Yu Y, Stillman D. The Swi5 activator recruits the Mediator complex to the HO promoter without RNA polymerase II. Genes Dev. 2001;15:2457-69 pubmed
    ..5 kb upstream of the transcription start site in early G1, but this binding occurs without RNA Pol II. RNA Pol II does not bind to HO until late G1, when HO is actively transcribed, and binding occurs exclusively to the TATA region. ..
  74. Carr H, George G, Winge D. Yeast Cox11, a protein essential for cytochrome c oxidase assembly, is a Cu(I)-binding protein. J Biol Chem. 2002;277:31237-42 pubmed
    ..Cytochrome c oxidase activity is reduced in these mutants. Thus, the residues important for Cu(I) binding correlate with in vivo function, suggesting that Cu(I) binding is important in Cox11 function. ..
  75. Phillips J, Whitby F, Warby C, Labbe P, Yang C, Pflugrath J, et al. Crystal structure of the oxygen-dependant coproporphyrinogen oxidase (Hem13p) of Saccharomyces cerevisiae. J Biol Chem. 2004;279:38960-8 pubmed
    ..The structure therefore suggests residues that likely play critical roles in catalysis and explains the deleterious effect of many of the mutations associated with the disease hereditary coproporphyria. ..
  76. Xu J, Voth G. Redox-coupled proton pumping in cytochrome c oxidase: further insights from computer simulation. Biochim Biophys Acta. 2008;1777:196-201 pubmed
    ..The results exhibit a redox state-dependent dynamical behavior and indicate that reduction of the low-spin heme a may initiate internal transfer of the pumped proton from Glu242 to the PRDa3 site. ..
  77. Lin H, Kumanovics A, Nelson J, Warner D, Ward D, Kaplan J. A single amino acid change in the yeast vacuolar metal transporters ZRC1 and COT1 alters their substrate specificity. J Biol Chem. 2008;283:33865-73 pubmed publisher
    ..These mutations are within the second hydrophobic domain of the transporters and show the essential nature of this domain in the specificity of metal transport. ..
  78. Heo J, Livnat Levanon N, Taylor E, Jones K, Dephoure N, Ring J, et al. A stress-responsive system for mitochondrial protein degradation. Mol Cell. 2010;40:465-80 pubmed publisher
    ..We demonstrate that Vms1 is a required component of an evolutionarily conserved system for mitochondrial protein degradation, which is necessary to maintain mitochondrial, cellular, and organismal viability. ..
  79. Stadtmueller B, Kish Trier E, Ferrell K, Petersen C, Robinson H, Myszka D, et al. Structure of a proteasome Pba1-Pba2 complex: implications for proteasome assembly, activation, and biological function. J Biol Chem. 2012;287:37371-82 pubmed publisher
    ..These findings extend understanding of proteasome interactions with HbYX motifs and suggest multiple roles for Pba1-Pba2 interactions throughout proteasome assembly and function. ..
  80. Jiang Y, Dohrmann P, Stillman D. Genetic and physical interactions between yeast RGR1 and SIN4 in chromatin organization and transcriptional regulation. Genetics. 1995;140:47-54 pubmed
    ..These results indicate that Sin4p and Rgr1p act together in vivo to organize chromatin structure and thus regulate transcription. ..
  81. Brazas R, Stillman D. Identification and purification of a protein that binds DNA cooperatively with the yeast SWI5 protein. Mol Cell Biol. 1993;13:5524-37 pubmed
    ..SWI5 and GRF10 interactions were not detected in the absence of DNA. The role of cooperative DNA binding in determining promoter specificity of eukaryotic transcription factors is discussed. ..
  82. Li L, Kaplan J. Characterization of two homologous yeast genes that encode mitochondrial iron transporters. J Biol Chem. 1997;272:28485-93 pubmed
    ..These results suggest that the mitochondria may act as a reservoir for iron that can be mobilized and used for cytosolic purposes. ..
  83. Angus Hill M, Dutnall R, Tafrov S, Sternglanz R, Ramakrishnan V. Crystal structure of the histone acetyltransferase Hpa2: A tetrameric member of the Gcn5-related N-acetyltransferase superfamily. J Mol Biol. 1999;294:1311-25 pubmed
    ..We discuss implications of the Hpa2 structure for the catalytic mechanism of the GNAT enzymes and the opportunity for multiple histone tail modification created by the tetrameric Hpa2 structure. ..
  84. Rong Y, Golic K. Gene targeting by homologous recombination in Drosophila. Science. 2000;288:2013-8 pubmed
    ..A method is described that enables analogous manipulations of the Drosophila genome. This technique may also be applicable to other organisms for which gene-targeting procedures do not yet exist. ..
  85. Li L, Chen O, McVey Ward D, Kaplan J. CCC1 is a transporter that mediates vacuolar iron storage in yeast. J Biol Chem. 2001;276:29515-9 pubmed
    ..These results indicate that yeast can store iron in the vacuole and that CCC1 is involved in the transfer of iron from the cytosol to the vacuole. ..
  86. Garrus J, von Schwedler U, Pornillos O, Morham S, Zavitz K, Wang H, et al. Tsg101 and the vacuolar protein sorting pathway are essential for HIV-1 budding. Cell. 2001;107:55-65 pubmed
    ..These observations suggest that retroviruses bud by appropriating cellular machinery normally used in the Vps pathway to form multivesicular bodies. ..
  87. Cao Y, Dave K, Doan T, Prescott S. Fatty acid CoA ligase 4 is up-regulated in colon adenocarcinoma. Cancer Res. 2001;61:8429-34 pubmed
    ..These findings suggest that the FACL4 pathway may be important in colon carcinogenesis, and that the development of selective inhibitors for FACL4 may be a worthy effort in the prevention and treatment of colon cancer. ..
  88. Schubert H, Raux E, Brindley A, Leech H, Wilson K, Hill C, et al. The structure of Saccharomyces cerevisiae Met8p, a bifunctional dehydrogenase and ferrochelatase. EMBO J. 2002;21:2068-75 pubmed
    ..Analysis of mutant proteins suggests that both catalytic activities share a single active site, and that Asp141 plays an essential role in both dehydrogenase and chelatase processes. ..
  89. Christensen C, Gorsich S, Brown R, Jones L, Brown J, Shaw J, et al. Mitochondrial GFA2 is required for synergid cell death in Arabidopsis. Plant Cell. 2002;14:2215-32 pubmed
    ..GFA2 is targeted to mitochondria in Arabidopsis and partially complements a yeast mdj1 mutant, suggesting that GFA2 is the Arabidopsis ortholog of yeast Mdj1p. These data suggest a role for mitochondria in cell death in plants. ..
  90. Formosa T, Ruone S, Adams M, Olsen A, Eriksson P, Yu Y, et al. Defects in SPT16 or POB3 (yFACT) in Saccharomyces cerevisiae cause dependence on the Hir/Hpc pathway: polymerase passage may degrade chromatin structure. Genetics. 2002;162:1557-71 pubmed
    ..Mutations that impair the reassembly activity cause chromatin to accumulate in an abnormally disrupted state, imposing a requirement for a nucleosome reassembly function that we propose is provided by Hir/Hpc proteins. ..
  91. Singer J, Shaw J. Mdm20 protein functions with Nat3 protein to acetylate Tpm1 protein and regulate tropomyosin-actin interactions in budding yeast. Proc Natl Acad Sci U S A. 2003;100:7644-9 pubmed
    ..These combined results strongly suggest that Mdm20p-dependent, N-terminal acetylation of Tpm1p by the NatB complex is required for Tpm1p association with, and stabilization of, actin filaments and cables. ..
  92. Li L, Kaplan J. A mitochondrial-vacuolar signaling pathway in yeast that affects iron and copper metabolism. J Biol Chem. 2004;279:33653-61 pubmed
    ..These results suggest that deletion of mitochondrial proteins can alter vacuolar metal homeostasis. The data also indicate that increased expression of the AFT1-regulated gene(s) can disrupt copper homeostasis. ..