Experts and Doctors on saccharomyces cerevisiae in Munich, Bavaria, Germany

Summary

Locale: Munich, Bavaria, Germany
Topic: saccharomyces cerevisiae

Top Publications

  1. Huang S, Odoy S, Klingenberg M. Chimers of two fused ADP/ATP carrier monomers indicate a single channel for ADP/ATP transport. Arch Biochem Biophys. 2001;394:67-75 pubmed
    ..These results favor a single binding center gated pore model [Klingenberg, M. (1991) in A Study of Enzymes, Vol. 2: pp. 367-388] in which two AAC subunits cooperate for a coordinated ADP/ATP exchange through a single channel. ..
  2. Jasiak A, Armache K, Martens B, Jansen R, Cramer P. Structural biology of RNA polymerase III: subcomplex C17/25 X-ray structure and 11 subunit enzyme model. Mol Cell. 2006;23:71-81 pubmed
    ..During elongation, C17/25 may bind Pol III transcripts emerging from the adjacent exit pore, because the subcomplex binds to tRNA in vitro. ..
  3. Duvezin Caubet S, Koppen M, Wagener J, Zick M, Israel L, Bernacchia A, et al. OPA1 processing reconstituted in yeast depends on the subunit composition of the m-AAA protease in mitochondria. Mol Biol Cell. 2007;18:3582-90 pubmed
  4. Bauerschmitt H, Funes S, Herrmann J. Synthesis and sorting of mitochondrial translation products. Methods Mol Biol. 2008;457:95-112 pubmed
    ..The methods described here can be applied also to the study of other aspects of organelle biogenesis such as folding, assembly, and degradation of proteins. ..
  5. Meinhart A, Cramer P. Recognition of RNA polymerase II carboxy-terminal domain by 3'-RNA-processing factors. Nature. 2004;430:223-6 pubmed
    ..The model suggests that, during the mRNA transcription-processing cycle, compact spiral regions in the CTD are unravelled and regenerated in a phosphorylation-dependent manner. ..
  6. Blattner C, Jennebach S, Herzog F, Mayer A, Cheung A, Witte G, et al. Molecular basis of Rrn3-regulated RNA polymerase I initiation and cell growth. Genes Dev. 2011;25:2093-105 pubmed publisher
    ..This reveals the molecular basis of Rrn3-regulated Pol I initiation and cell growth, and indicates a general architecture of eukaryotic transcription initiation complexes. ..
  7. Krietenstein N, Wippo C, Lieleg C, Korber P. Genome-wide in vitro reconstitution of yeast chromatin with in vivo-like nucleosome positioning. Methods Enzymol. 2012;513:205-32 pubmed publisher
    ..This system provides a starting point and positive control for the biochemical dissection of nucleosome positioning mechanisms. ..
  8. Leidig C, Bange G, Kopp J, Amlacher S, Aravind A, Wickles S, et al. Structural characterization of a eukaryotic chaperone--the ribosome-associated complex. Nat Struct Mol Biol. 2013;20:23-8 pubmed publisher
    ..Our study offers insights into the interplay between RAC, the ER membrane-integrated Hsp40-type protein ERj1 and the signal-recognition particle. ..
  9. van Dyck L, Dembowski M, Neupert W, Langer T. Mcx1p, a ClpX homologue in mitochondria of Saccharomyces cerevisiae. FEBS Lett. 1998;438:250-4 pubmed
    ..A homologue of E. coli ClpP protease was not identified when screening the yeast genome. We therefore propose that Mcx1p represents a novel molecular chaperone of mitochondria with non-proteolytic function. ..

More Information

Publications95

  1. Arduino D, Wettmarshausen J, Vais H, Navas Navarro P, Cheng Y, Leimpek A, et al. Systematic Identification of MCU Modulators by Orthogonal Interspecies Chemical Screening. Mol Cell. 2017;67:711-723.e7 pubmed publisher
  2. Lidschreiber M, Leike K, Cramer P. Cap completion and C-terminal repeat domain kinase recruitment underlie the initiation-elongation transition of RNA polymerase II. Mol Cell Biol. 2013;33:3805-16 pubmed publisher
    ..Abd1 and CBC are important for recruitment of the kinases Ctk1 and Bur1, which promote elongation and capping enzyme release. These results suggest that cap completion stimulates productive Pol II elongation. ..
  3. Kornprobst M, Turk M, Kellner N, Cheng J, Flemming D, Koš Braun I, et al. Architecture of the 90S Pre-ribosome: A Structural View on the Birth of the Eukaryotic Ribosome. Cell. 2016;166:380-393 pubmed publisher
    ..Nascent rRNA that is co-transcriptionally folded and given a particular shape by encapsulation within a dedicated mold-like structure is reminiscent of how polypeptides use chaperone chambers for their protein folding. ..
  4. Hell K, Herrmann J, Pratje E, Neupert W, Stuart R. Oxa1p mediates the export of the N- and C-termini of pCoxII from the mitochondrial matrix to the intermembrane space. FEBS Lett. 1997;418:367-70 pubmed
    ..In conclusion, Oxa1p mediates the export of the N- and C-termini of the mitochondrially encoded subunit II of cytochrome oxidase from the matrix to the intermembrane space. ..
  5. Schusdziarra C, Blamowska M, Azem A, Hell K. Methylation-controlled J-protein MCJ acts in the import of proteins into human mitochondria. Hum Mol Genet. 2013;22:1348-57 pubmed publisher
    ..In summary, our results show that MCJ functions as J co-chaperone of the human TIM23 pre-protein translocase, suggesting a link between mitochondrial pre-protein import and tumorigenesis. ..
  6. Arnold I, Bauer M, Brunner M, Neupert W, Stuart R. Yeast mitochondrial F1F0-ATPase: the novel subunit e is identical to Tim11. FEBS Lett. 1997;411:195-200 pubmed
    ..Subunit e had been previously identified as Tim11 and was proposed to be involved in the process of sorting of proteins to the mitochondrial inner membrane. ..
  7. Ruan W, Lehmann E, Thomm M, Kostrewa D, Cramer P. Evolution of two modes of intrinsic RNA polymerase transcript cleavage. J Biol Chem. 2011;286:18701-7 pubmed publisher
  8. Sun M, Lariviere L, Dengl S, Mayer A, Cramer P. A tandem SH2 domain in transcription elongation factor Spt6 binds the phosphorylated RNA polymerase II C-terminal repeat domain (CTD). J Biol Chem. 2010;285:41597-603 pubmed publisher
    ..The tandem SH2 domain is apparently required for transcription elongation in vivo as its deletion in cells is lethal in the presence of 6-azauracil. ..
  9. Mokranjac D, Sichting M, Popov Celeketic D, Mapa K, Gevorkyan Airapetov L, Zohary K, et al. Role of Tim50 in the transfer of precursor proteins from the outer to the inner membrane of mitochondria. Mol Biol Cell. 2009;20:1400-7 pubmed publisher
    ..This function of Tim50 depends on its association with TIM23. We conclude that the efficient transfer of precursors between TOM and TIM23 complexes requires the concerted action of Tim50 with Tim23. ..
  10. Schulz D, Schwalb B, Kiesel A, Baejen C, Torkler P, Gagneur J, et al. Transcriptome surveillance by selective termination of noncoding RNA synthesis. Cell. 2013;155:1075-87 pubmed publisher
    ..These results define a global mechanism for transcriptome surveillance that selectively terminates ncRNA synthesis to provide promoter directionality and to suppress antisense transcription. ..
  11. Brueckner F, Hennecke U, Carell T, Cramer P. CPD damage recognition by transcribing RNA polymerase II. Science. 2007;315:859-62 pubmed
    ..This is consistent with nonallosteric recruitment of repair factors and excision of a lesion-containing DNA fragment in the presence of Pol II. ..
  12. Pointner J, Persson J, Prasad P, Norman Axelsson U, Strålfors A, Khorosjutina O, et al. CHD1 remodelers regulate nucleosome spacing in vitro and align nucleosomal arrays over gene coding regions in S. pombe. EMBO J. 2012;31:4388-403 pubmed publisher
    ..Impaired arrays in the absence of either or both remodelers may lead to increased cryptic antisense transcription, but overall gene expression levels are only mildly affected. ..
  13. Funes S, Hasona A, Bauerschmitt H, Grubbauer C, Kauff F, Collins R, et al. Independent gene duplications of the YidC/Oxa/Alb3 family enabled a specialized cotranslational function. Proc Natl Acad Sci U S A. 2009;106:6656-61 pubmed publisher
    ..Our results are consistent with a gene-duplication event in gram-positive bacteria that enabled the specialization of a YidC isoform that mediates cotranslational activity independent of an SRP pathway. ..
  14. Cheung A, Cramer P. Structural basis of RNA polymerase II backtracking, arrest and reactivation. Nature. 2011;471:249-53 pubmed publisher
    ..These results establish the structural basis of Pol II backtracking, arrest and reactivation, and provide a framework for analysing gene regulation during transcription elongation. ..
  15. Sainsbury S, Niesser J, Cramer P. Structure and function of the initially transcribing RNA polymerase II-TFIIB complex. Nature. 2013;493:437-40 pubmed publisher
    ..TFIIB and its counterparts may thus account for the two fundamental properties that distinguish RNA from DNA polymerases: primer-independent chain initiation and product separation from the template. ..
  16. Lehmann E, Brueckner F, Cramer P. Molecular basis of RNA-dependent RNA polymerase II activity. Nature. 2007;450:445-9 pubmed
    ..The RdRP activity of Pol II provides a missing link in molecular evolution, because it suggests that Pol II evolved from an ancient replicase that duplicated RNA genomes. ..
  17. Holzinger A, Kammerer S, Roscher A. Primary structure of human PMP69, a putative peroxisomal ABC-transporter. Biochem Biophys Res Commun. 1997;237:152-7 pubmed
    ..PMP69 might be a heterodimer partner for one of these proteins, thus playing a role in modifying the clinical course of ALD or, alternatively, in peroxisome biogenesis...
  18. Dengl S, Cramer P. Torpedo nuclease Rat1 is insufficient to terminate RNA polymerase II in vitro. J Biol Chem. 2009;284:21270-9 pubmed publisher
    ..Thus, pol II termination apparently requires a factor or several factors in addition to Rat1, Rai1, and Rtt103, post-translational modifications of these factors, or unusual reaction conditions. ..
  19. Becker T, Armache J, Jarasch A, Anger A, Villa E, Sieber H, et al. Structure of the no-go mRNA decay complex Dom34-Hbs1 bound to a stalled 80S ribosome. Nat Struct Mol Biol. 2011;18:715-20 pubmed publisher
    ..Collectively, our data provide structural insights into how stalled mRNA is recognized on the ribosome and how the eRF complex can simultaneously recognize stop codons and catalyze peptide release. ..
  20. Cheung A, Sainsbury S, Cramer P. Structural basis of initial RNA polymerase II transcription. EMBO J. 2011;30:4755-63 pubmed publisher
    ..The essential residue Q1078 in the closed trigger loop binds the NTP 2'-OH group, explaining how the trigger loop couples catalysis to NTP selection, suppressing dNTP binding and DNA synthesis. ..
  21. Wippo C, Korber P. In vitro reconstitution of in vivo-like nucleosome positioning on yeast DNA. Methods Mol Biol. 2012;833:271-87 pubmed publisher
    ..It may also generate more physiological templates for in vitro studies of, e.g., nucleosome remodeling or transcription through chromatin. ..
  22. Armache J, Jarasch A, Anger A, Villa E, Becker T, Bhushan S, et al. Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution. Proc Natl Acad Sci U S A. 2010;107:19748-53 pubmed publisher
    ..Accurate assignment of the rRNA expansion segments (ES) and variable regions has revealed unique ES-ES and r-protein-ES interactions, providing insight into the structure and evolution of the eukaryotic ribosome. ..
  23. Fundel K, Güttler D, Zimmer R, Apostolakis J. A simple approach for protein name identification: prospects and limits. BMC Bioinformatics. 2005;6 Suppl 1:S15 pubmed
    ..This is especially important for fly, which has a very challenging nomenclature for the protein name identification task. Here, the support vector machine-based post filter proved to be very effective. ..
  24. Czeko E, Seizl M, Augsberger C, Mielke T, Cramer P. Iwr1 directs RNA polymerase II nuclear import. Mol Cell. 2011;42:261-6 pubmed publisher
    ..Iwr1 function is Pol II specific, transcription independent, and apparently conserved from yeast to human. ..
  25. Preuss M, Leonhard K, Hell K, Stuart R, Neupert W, Herrmann J. Mba1, a novel component of the mitochondrial protein export machinery of the yeast Saccharomyces cerevisiae. J Cell Biol. 2001;153:1085-96 pubmed
    ..We conclude that Mba1 is part of the mitochondrial protein export machinery and represents the first component of a novel Oxa1-independent insertion pathway into the mitochondrial inner membrane. ..
  26. Mayer A, Schreieck A, Lidschreiber M, Leike K, Martin D, Cramer P. The spt5 C-terminal region recruits yeast 3' RNA cleavage factor I. Mol Cell Biol. 2012;32:1321-31 pubmed publisher
    ..Consistent with this model, the CTR interacts with CFI in vitro but is not required for pA site recognition and transcription termination in vivo. ..
  27. Larivi re L, Plaschka C, Seizl M, Wenzeck L, Kurth F, Cramer P. Structure of the Mediator head module. Nature. 2012;492:448-51 pubmed publisher
    ..pombe head module structure leads to a revised model of the S. cerevisiae module, reveals a high conservation and flexibility, explains known mutations, and provides the basis for unravelling a central mechanism of gene regulation...
  28. Habib S, Waizenegger T, Niewienda A, Paschen S, Neupert W, Rapaport D. The N-terminal domain of Tob55 has a receptor-like function in the biogenesis of mitochondrial beta-barrel proteins. J Cell Biol. 2007;176:77-88 pubmed
    ..This recognition may contribute to the coupling of the translocation of beta-barrel precursors across the TOM complex to their interaction with the TOB complex. ..
  29. Leonaitė B, Han Z, Basquin J, Bonneau F, Libri D, Porrúa O, et al. Sen1 has unique structural features grafted on the architecture of the Upf1-like helicase family. EMBO J. 2017;36:1590-1604 pubmed publisher
  30. Sun M, Schwalb B, Pirkl N, Maier K, Schenk A, Failmezger H, et al. Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels. Mol Cell. 2013;52:52-62 pubmed publisher
  31. März A, Fabian A, Kozany C, Bracher A, Hausch F. Large FK506-binding proteins shape the pharmacology of rapamycin. Mol Cell Biol. 2013;33:1357-67 pubmed publisher
    ..These insights provide a mechanistic rationale for preferential mTOR inhibition in specific cell or tissue types by engaging specific FKBP homologs. ..
  32. Müller C, Staudacher V, Krauss J, Giera M, Bracher F. A convenient cellular assay for the identification of the molecular target of ergosterol biosynthesis inhibitors and quantification of their effects on total ergosterol biosynthesis. Steroids. 2013;78:483-93 pubmed publisher
    ..The described cellular assay was analytically and biologically validated and used to characterize the novel ergosterol biosynthesis inhibitor JK-250. ..
  33. Mayer A, Heidemann M, Lidschreiber M, Schreieck A, Sun M, Hintermair C, et al. CTD tyrosine phosphorylation impairs termination factor recruitment to RNA polymerase II. Science. 2012;336:1723-5 pubmed publisher
    ..These results show that CTD modifications trigger and block factor recruitment and lead to an extended CTD code that explains transcription cycle coordination on the basis of differential phosphorylation of Tyr(1), Ser(2), and Ser(5). ..
  34. Kuhn C, Geiger S, Baumli S, Gartmann M, Gerber J, Jennebach S, et al. Functional architecture of RNA polymerase I. Cell. 2007;131:1260-72 pubmed
    ..In contrast to Pol II, Pol I has a strong intrinsic 3'-RNA cleavage activity, which requires the C-terminal domain of subunit A12.2 and, apparently, enables ribosomal RNA proofreading and 3'-end trimming. ..
  35. Dengl S, Mayer A, Sun M, Cramer P. Structure and in vivo requirement of the yeast Spt6 SH2 domain. J Mol Biol. 2009;389:211-25 pubmed publisher
    ..Differential gene expression analysis reveals that the SH2 domain is required for normal expression of a subset of yeast genes, and is consistent with multiple functions of Spt6 in chromatin transcription. ..
  36. Popov Celeketić J, Waizenegger T, Rapaport D. Mim1 functions in an oligomeric form to facilitate the integration of Tom20 into the mitochondrial outer membrane. J Mol Biol. 2008;376:671-80 pubmed publisher
    ..With all these data taken together, we propose that the homo-oligomerization of Mim1 allows it to fulfil its function in promoting the integration of Tom20 into the mitochondrial outer membrane. ..
  37. Heuck A, Du T, Jellbauer S, Richter K, Kruse C, Jaklin S, et al. Monomeric myosin V uses two binding regions for the assembly of stable translocation complexes. Proc Natl Acad Sci U S A. 2007;104:19778-83 pubmed
    ..This heterologous motor successfully translocates its cargo in vivo, suggesting that wild-type Myo4p may also function as a dimer during cargo-complex transport. ..
  38. Banerjee R, Gladkova C, Mapa K, Witte G, Mokranjac D. Protein translocation channel of mitochondrial inner membrane and matrix-exposed import motor communicate via two-domain coupling protein. elife. 2015;4:e11897 pubmed publisher
    ..Our data suggest that the translocation channel and the import motor of the TIM23 complex communicate through rearrangements of the two domains of Tim44 that are stimulated by translocating proteins. ..
  39. Wippo C, Krstulovic B, Ertel F, Musladin S, Blaschke D, Stürzl S, et al. Differential cofactor requirements for histone eviction from two nucleosomes at the yeast PHO84 promoter are determined by intrinsic nucleosome stability. Mol Cell Biol. 2009;29:2960-81 pubmed publisher
    ..Therefore, chromatin cofactor requirements were determined by intrinsic nucleosome stabilities rather than correlated to promoter strength. ..
  40. Steglich G, Neupert W, Langer T. Prohibitins regulate membrane protein degradation by the m-AAA protease in mitochondria. Mol Cell Biol. 1999;19:3435-42 pubmed
    ..These results functionally link members of two conserved protein families in eukaryotes to the degradation of membrane proteins in mitochondria. ..
  41. Waizenegger T, Schmitt S, Zivkovic J, Neupert W, Rapaport D. Mim1, a protein required for the assembly of the TOM complex of mitochondria. EMBO Rep. 2005;6:57-62 pubmed
    ..Mim1 is a constituent of neither the TOM complex nor the TOB complex; rather, it seems to be a subunit of another, as yet unidentified, complex. We conclude that Mim1 has a vital and specific function in the assembly of the TOM complex. ..
  42. Meinel D, Burkert Kautzsch C, Kieser A, O Duibhir E, Siebert M, Mayer A, et al. Recruitment of TREX to the transcription machinery by its direct binding to the phospho-CTD of RNA polymerase II. PLoS Genet. 2013;9:e1003914 pubmed publisher
    ..In summary, we provide insight into how the phospho-code of the CTD directs mRNP formation and export through TREX recruitment...
  43. Lariviere L, Seizl M, van Wageningen S, Röther S, van de Pasch L, Feldmann H, et al. Structure-system correlation identifies a gene regulatory Mediator submodule. Genes Dev. 2008;22:872-7 pubmed publisher
    ..The presented structure-based system perturbation is superior to gene deletion analysis of gene regulation. ..
  44. Lantermann A, Straub T, Strålfors A, Yuan G, Ekwall K, Korber P. Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae. Nat Struct Mol Biol. 2010;17:251-7 pubmed publisher
    ..cerevisiae. Nucleosome positioning mechanisms are evidently not universal but evolutionarily plastic. ..
  45. Haack T, Kopajtich R, Freisinger P, Wieland T, Rorbach J, Nicholls T, et al. ELAC2 mutations cause a mitochondrial RNA processing defect associated with hypertrophic cardiomyopathy. Am J Hum Genet. 2013;93:211-23 pubmed publisher
    ..Complementation experiments in mutant cell lines restored RNA processing and a yeast model provided additional evidence for the disease-causal role of defective ELAC2, thereby linking mtRNA processing to human disease. ..
  46. Vannini A, Ringel R, Kusser A, Berninghausen O, Kassavetis G, Cramer P. Molecular basis of RNA polymerase III transcription repression by Maf1. Cell. 2010;143:59-70 pubmed publisher
    ..These results explain how Maf1 specifically represses transcription initiation from Pol III promoters and indicate that Maf1 also prevents reinitiation by binding Pol III during transcription elongation. ..
  47. Armache K, Kettenberger H, Cramer P. Architecture of initiation-competent 12-subunit RNA polymerase II. Proc Natl Acad Sci U S A. 2003;100:6964-8 pubmed
    ..The core-Rpb7 interaction and some functions of Rpb4/7 are apparently conserved in all eukaryotic and archaeal RNA polymerases but not in the bacterial enzyme. ..
  48. Wippo C, Israel L, Watanabe S, Hochheimer A, Peterson C, Korber P. The RSC chromatin remodelling enzyme has a unique role in directing the accurate positioning of nucleosomes. EMBO J. 2011;30:1277-88 pubmed publisher
    ..Strikingly, RSC could not be replaced by either the closely related SWI/SNF or the Isw2 remodelling enzyme. Thus, we pinpoint that nucleosome positioning specifically depends on the unique properties of the RSC complex. ..
  49. Popov Celeketic D, Waegemann K, Mapa K, Neupert W, Mokranjac D. Role of the import motor in insertion of transmembrane segments by the mitochondrial TIM23 complex. EMBO Rep. 2011;12:542-8 pubmed publisher
    ..Furthermore, our results suggest a role for the import motor in lateral insertion. Thus, the import motor is involved in ATP-dependent translocation and ATP-independent lateral insertion. ..
  50. Schreieck A, Easter A, Etzold S, Wiederhold K, Lidschreiber M, Cramer P, et al. RNA polymerase II termination involves C-terminal-domain tyrosine dephosphorylation by CPF subunit Glc7. Nat Struct Mol Biol. 2014;21:175-179 pubmed publisher
    ..These results show that transcription termination involves Tyr1 dephosphorylation of the CTD and indicate that pre-mRNA processing by CPF and transcription termination are coupled via Glc7-dependent Pol II-Tyr1 dephosphorylation. ..
  51. Dusi S, Valletta L, Haack T, Tsuchiya Y, Venco P, Pasqualato S, et al. Exome sequence reveals mutations in CoA synthase as a cause of neurodegeneration with brain iron accumulation. Am J Hum Genet. 2014;94:11-22 pubmed publisher
    ..This is the second inborn error of coenzyme A biosynthesis to be implicated in NBIA. ..
  52. Kinkelin K, Wozniak G, Rothbart S, Lidschreiber M, Strahl B, Cramer P. Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue. Proc Natl Acad Sci U S A. 2013;110:15277-82 pubmed publisher
    ..These results establish Bye1 as the founding member of a unique family of chromatin transcription factors that link histones with active PTMs to transcribing Pol II...
  53. Engel C, Sainsbury S, Cheung A, Kostrewa D, Cramer P. RNA polymerase I structure and transcription regulation. Nature. 2013;502:650-5 pubmed publisher
    ..Regulatory factors can modulate the core-shelf interface that includes a 'composite' active site for RNA chain initiation, elongation, proofreading and termination. ..
  54. Lammens K, Bemeleit D, Möckel C, Clausing E, Schele A, Hartung S, et al. The Mre11:Rad50 structure shows an ATP-dependent molecular clamp in DNA double-strand break repair. Cell. 2011;145:54-66 pubmed publisher
    ..The results suggest that MR is an ATP-controlled transient molecular clamp at DNA double-strand breaks...
  55. Hell K, Herrmann J, Pratje E, Neupert W, Stuart R. Oxa1p, an essential component of the N-tail protein export machinery in mitochondria. Proc Natl Acad Sci U S A. 1998;95:2250-5 pubmed
    ..Thus, Oxa1p represents a component of a general export machinery of the mitochondrial inner membrane. ..
  56. Bauer M, Rothbauer U, Mühlenbein N, Smith R, Gerbitz K, Neupert W, et al. The mitochondrial TIM22 preprotein translocase is highly conserved throughout the eukaryotic kingdom. FEBS Lett. 1999;464:41-7 pubmed
    ..We report the identification, chromosomal localization and expressional analysis of six human family members which represent further candidate genes for neurodegenerative diseases. ..
  57. Barbaric S, Munsterkotter M, Goding C, Hörz W. Cooperative Pho2-Pho4 interactions at the PHO5 promoter are critical for binding of Pho4 to UASp1 and for efficient transactivation by Pho4 at UASp2. Mol Cell Biol. 1998;18:2629-39 pubmed
    ..From in vivo footprinting experiments and activity measurements with a promoter variant containing two UASp2 elements, we conclude that at UASp2, Pho2 is mainly required for the ability of Pho4 to transactivate. ..
  58. Tosi A, Haas C, Herzog F, Gilmozzi A, Berninghausen O, Ungewickell C, et al. Structure and subunit topology of the INO80 chromatin remodeler and its nucleosome complex. Cell. 2013;154:1207-19 pubmed publisher
    ..Our analysis establishes a structural and functional framework for this family of large remodelers...
  59. Geiger S, Kuhn C, Leidig C, Renkawitz J, Cramer P. Crystallization of RNA polymerase I subcomplex A14/A43 by iterative prediction, probing and removal of flexible regions. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008;64:413-8 pubmed publisher
    ..This strategy should enable the crystallization of other proteins and subcomplexes with multiple flexibilities, as required for hybrid structure solution of large macromolecular assemblies. ..
  60. Fenn S, Breitsprecher D, Gerhold C, Witte G, Faix J, Hopfner K. Structural biochemistry of nuclear actin-related proteins 4 and 8 reveals their interaction with actin. EMBO J. 2011;30:2153-66 pubmed publisher
    ..Arp4 likely forms a complex with monomeric actin via the barbed end. Our data thus help explaining how nuclear actin is held in a discrete complex within the INO80 chromatin remodeller. ..
  61. Korber P, Barbaric S, Luckenbach T, Schmid A, Schermer U, Blaschke D, et al. The histone chaperone Asf1 increases the rate of histone eviction at the yeast PHO5 and PHO8 promoters. J Biol Chem. 2006;281:5539-45 pubmed
    ..e. they both contribute toward the same outcome without being mutually strictly dependent. ..
  62. Armache J, Jarasch A, Anger A, Villa E, Becker T, Bhushan S, et al. Localization of eukaryote-specific ribosomal proteins in a 5.5-Å cryo-EM map of the 80S eukaryotic ribosome. Proc Natl Acad Sci U S A. 2010;107:19754-9 pubmed publisher
    ..Near-complete atomic models of the 80S ribosome provide insights into the structure, function, and evolution of the eukaryotic translational apparatus. ..
  63. Waizenegger T, Habib S, Lech M, Mokranjac D, Paschen S, Hell K, et al. Tob38, a novel essential component in the biogenesis of beta-barrel proteins of mitochondria. EMBO Rep. 2004;5:704-9 pubmed
    ..We conclude that Tob38 has a crucial function in the biogenesis of beta-barrel proteins of mitochondria. ..
  64. Rabl R, Soubannier V, Scholz R, Vogel F, Mendl N, Vasiljev Neumeyer A, et al. Formation of cristae and crista junctions in mitochondria depends on antagonism between Fcj1 and Su e/g. J Cell Biol. 2009;185:1047-63 pubmed publisher
    ..We propose a model in which the antagonism between Fcj1 and Su e/g locally modulates the F(1)F(O) oligomeric state, thereby controlling membrane curvature of cristae to generate CJs and cristae tips. ..
  65. Kostrewa D, Zeller M, Armache K, Seizl M, Leike K, Thomm M, et al. RNA polymerase II-TFIIB structure and mechanism of transcription initiation. Nature. 2009;462:323-30 pubmed publisher
    ..Synthesis of the RNA chain and rewinding of upstream DNA displace the B-reader and B-linker, respectively, to trigger B release and elongation complex formation. ..
  66. Heuck A, Fetka I, Brewer D, Hüls D, Munson M, Jansen R, et al. The structure of the Myo4p globular tail and its function in ASH1 mRNA localization. J Cell Biol. 2010;189:497-510 pubmed publisher
    ..The structure shows pronounced similarities to membrane-tethering complexes and indicates that Myo4p may not undergo auto-inhibition of its motor domain. ..
  67. Popov Celeketic D, Mapa K, Neupert W, Mokranjac D. Active remodelling of the TIM23 complex during translocation of preproteins into mitochondria. EMBO J. 2008;27:1469-80 pubmed publisher
    ..Our data demonstrate that the TIM23 complex acts as a single structural and functional entity that is actively remodelled to sort preproteins into different mitochondrial subcompartments. ..
  68. Bauerschmitt H, Funes S, Herrmann J. The membrane-bound GTPase Guf1 promotes mitochondrial protein synthesis under suboptimal conditions. J Biol Chem. 2008;283:17139-46 pubmed publisher
    ..These observations show a critical role for Guf1 in vivo. The observed defects in Guf1-deficient mitochondria are consistent with a function of Guf1 as a fidelity factor of mitochondrial protein synthesis. ..
  69. Landgraf P, Mayerhofer P, Polanetz R, Roscher A, Holzinger A. Targeting of the human adrenoleukodystrophy protein to the peroxisomal membrane by an internal region containing a highly conserved motif. Eur J Cell Biol. 2003;82:401-10 pubmed
    ..Our data define the targeting region of human adrenoleukodystrophy protein containing a highly conserved 14-amino-acid motif...
  70. Geistlinger L, Csaba G, Dirmeier S, Küffner R, Zimmer R. A comprehensive gene regulatory network for the diauxic shift in Saccharomyces cerevisiae. Nucleic Acids Res. 2013;41:8452-63 pubmed publisher
    ..Additionally, we developed a browsable system organizing the network into pathway maps, which allows to inspect and trace the evidence for each annotated regulation in the model. ..
  71. Miller C, Schwalb B, Maier K, Schulz D, Dümcke S, Zacher B, et al. Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast. Mol Syst Biol. 2011;7:458 pubmed publisher
    ..Thus, DTA realistically monitors the dynamics in mRNA metabolism that underlie gene regulatory systems. ..
  72. Gagneur J, Stegle O, Zhu C, Jakob P, Tekkedil M, Aiyar R, et al. Genotype-environment interactions reveal causal pathways that mediate genetic effects on phenotype. PLoS Genet. 2013;9:e1003803 pubmed publisher
  73. Röther S, Strasser K. The RNA polymerase II CTD kinase Ctk1 functions in translation elongation. Genes Dev. 2007;21:1409-21 pubmed
  74. Ertel F, Dirac Svejstrup A, Hertel C, Blaschke D, Svejstrup J, Korber P. In vitro reconstitution of PHO5 promoter chromatin remodeling points to a role for activator-nucleosome competition in vivo. Mol Cell Biol. 2010;30:4060-76 pubmed publisher
    ..These data establish an auxiliary role for DNA binding competition between Pho4 and histones in PHO5 promoter chromatin remodeling in vivo. ..
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