A high confidence, manually validated human blood plasma protein reference set (2008)
Schenk, Susann, Schoenhals, Gary J, De Souza, Gustavo, Mann, Matthias
Abstract Background The immense diagnostic potential of human plasma has prompted great interest and effort in cataloging its contents, exemplified by the Human Proteome Organization (HUPO) Plasma...
The sea urchin (Strongylocentrotus purpuratus) test and spine proteomes (2008)
Mann, Karlheinz, Poustka, Albert J, Mann, Matthias
Abstract Background The organic matrix of biominerals plays an important role in biomineral formation and in determining biomineral properties. However, most components of biomineral matrices remain...
Protein abundance profiling of the Escherichia coli cytosol (2008)
Ishihama, Yasushi, Schmidt, Thorsten, Rappsilber, Juri, Mann, Matthias, Hartl, F Ulrich, Kerner, Michael J, ...
Abstract Background Knowledge about the abundance of molecular components is an important prerequisite for building quantitative predictive models of cellular behavior. Proteins are central...
Gnad, Florian, Ren, Shubin, Cox, Juergen, Olsen, Jesper V, Macek, Boris, Oroshi, Mario, ...
Abstract PHOSIDA http://www.phosida.com , a phosphorylation site database, integrates thousands of high-confidence in vivo phosphosites identified by mass spectrometry-based proteomics in various...
Adachi, Jun, Kumar, Chanchal, Zhang, Yanling, Olsen, Jesper V, Mann, Matthias
Abstract Background Urine is a desirable material for the diagnosis and classification of diseases because of the convenience of its collection in large amounts; however, all of the urinary proteome...
De Souza, Gustavo A, De Godoy, Lyris MF, Mann, Matthias
Abstract Background The tear film is a thin layer of fluid that covers the ocular surface and is involved in lubrication and protection of the eye. Little is known about the protein composition of...
De Godoy, Lyris MF, Olsen, Jesper V, De Souza, Gustavo A, Li, Guoqing, Mortensen, Peter, Mann, Matthias
Abstract Background Mass spectrometry has become a powerful tool for the analysis of large numbers of proteins in complex samples, enabling much of proteomics. Due to various analytical challenges,...
Large-scale and high-confidence proteomic analysis of human seminal plasma (2006)
Pilch, Bartosz, Mann, Matthias
Abstract Background The development of mass spectrometric (MS) techniques now allows the investigation of very complex protein mixtures ranging from subcellular structures to tissues. Body fluids are...
Regulation of ubiquitin-binding proteins by monoubiquitination (2006)
Hoeller, Daniela, Crosetto, Nicola, Blagoev, Blagoy, Raiborg, Camilla, Tikkanen, Ritva, Wagner, Sebastian, ...
Proteins containing ubiquitin-binding domains (UBDs) interact with ubiquitinated targets and regulate diverse biological processes, including endocytosis, signal transduction, transcription and DNA...
Robust Salmonella metabolism limits possibilities for new antimicrobials (2006)
Becker, Daniel, Selbach, Matthias, Rollenhagen, Claudia, Ballmaier, Matthias, Meyer, Thomas F., Mann, Matthias, ...
Ibarrola, Nieves, Kratchmarova, Irina, Nakajima, Daisuke, Schiemann, William P, Moustakas, Aristidis, Pandey, Akhilesh, ...
Abstract Background Transforming growth factor-βs (TGF-βs), bone morphogenetic proteins (BMPs) and activins are important regulators of developmental cell growth and differentiation. Signaling by...
Is mass spectrometry ready for proteome-wide protein expression analysis? (2002)
Rappsilber, Juri, Mann, Matthias
Abstract Recent advances in mass spectrometry will soon allow routine analysis of protein expression levels. How close are we to true quantitative proteomics?
The VTC proteins in vacuole fusion: Coupling NSF activity to V0 trans-complex formation. (2002)
Müller, Oliver, Bayer, Martin, Peters, Christopher, Andersen, Jens, Mann, Matthias, Mayer, Andreas
Jens S. Andersen, Bernhard Kster, Re Podtelejnikov, Ejvind Mrtz, Matthias Mann
Introduction Nanoelectrospray tandem mass spectrometry has demonstrated its capability for high sensitivity and high throughput characterization of gel-separated proteins (1). Only minimal amounts of...
Zugl.: Dresden, Techn. Universiẗat, Diss., 1997.
Jena, Univ., Diss., 1992.
Erscheint in 2 Bd.
Mitotic Regulation of the APC Activator Proteins CDC20 and CDH1
Kramer, Edgar R., Scheuringer, Nadja, Podtelejnikov, Alexandre V., Mann, Matthias, Peters, Jan-Michael
The ordered activation of the ubiquitin protein ligase anaphase-promoting complex (APC) or cyclosome by CDC20 in metaphase and by CDH1 in telophase is essential for anaphase and for exit from...
Posttranslational modification of Gαo1 generates Gαo3, an abundant G protein in brain
Exner, Torsten, Jensen, Ole N., Mann, Matthias, Kleuss, Christiane, Nürnberg, Bernd
Gαo, the most abundant G protein in mammalian brain, occurs at least in two subforms, i.e., Gαo1 and Gαo2, derived by alternative splicing of the mRNA. A third Gαo1-related isoform, Gαo3, has...
Gmachl, Michael, Gieffers, Christian, Podtelejnikov, Alexandre V., Mann, Matthias, Peters, Jan-Michael
The anaphase-promoting complex (APC) is a cell cycle-regulated ubiquitin-protein ligase that targets cyclin B, securin and other destruction box containing proteins for proteolysis. Nine APC subunits...
Neubauer, Gitte, Gottschalk, Alexander, Fabrizio, Patrizia, Séraphin, Bertrand, Lührmann, Reinhard, Mann, Matthias
Here we report the rapid identification of the proteins of the spliceosomal U1 small nuclear ribonucleoprotein (snRNP) from the yeast Saccharomyces cerevisiae by searching mass spectrometric data in...
Grandi, Paola, Dang, Tam, Pané, Nelly, Shevchenko, Andrej, Mann, Matthias, Forbes, Douglass, ...
Yeast and vertebrate nuclear pores display significant morphological similarity by electron microscopy, but sequence similarity between the respective proteins has been more difficult to observe....
Shevchenko, Andrej, Jensen, Ole N., Podtelejnikov, Alexandre V., Sagliocco, Francis, Wilm, Matthias, Vorm, Ole, ...
The function of many of the uncharacterized open reading frames discovered by genomic sequencing can be determined at the level of expressed gene products, the proteome. However, identifying the...
Pandey, Akhilesh, Podtelejnikov, Alexandre V., Blagoev, Blagoy, Bustelo, Xosé R., Mann, Matthias, Lodish, Harvey F.
Oligomerization of receptor protein tyrosine kinases such as the epidermal growth factor receptor (EGFR) by their cognate ligands leads to activation of the receptor. Transphosphorylation of the...
Maurer, Patrick, Redd, Michael, Solsbacher, Jens, Bischoff, F. Ralf, Greiner, Markus, Podtelejnikov, Alexandre V., ...
Xpo1p (Crm1p) is the nuclear export receptor for proteins containing a leucine-rich nuclear export signal (NES). Xpo1p, the NES-containing protein, and GTP-bound Ran form a complex in the nucleus...
p70S6 kinase signals cell survival as well as growth, inactivating the pro-apoptotic molecule BAD
Harada, Hisashi, Andersen, Jens S., Mann, Matthias, Terada, Naohiro, Korsmeyer, Stanley J.
Cytokines often deliver simultaneous, yet distinct, cell growth and cell survival signals. The 70-kDa ribosomal protein S6 kinase (p70S6K) is known to regulate cell growth by inducing protein...
Friesen, Westley J., Paushkin, Sergey, Wyce, Anastasia, Massenet, Severine, Pesiridis, G. Scott, Van Duyne, Gregory, ...
snRNPs, integral components of the pre-mRNA splicing machinery, consist of seven Sm proteins which assemble in the cytoplasm as a ring structure on the snRNAs U1, U2, U4, and U5. The survival motor...
IκB Kinase (IKK)-Associated Protein 1, a Common Component of the Heterogeneous IKK Complex
Mercurio, Frank, Murray, Brion W., Shevchenko, Andrej, Bennett, Brydon L., Young, David B., Li, Jian Wu, ...
Activation of the transcription factor NF-κB is controlled by the sequential phosphorylation, ubiquitination, and degradation of its inhibitory subunit, IκB. We recently purified a large...
The Vtc proteins in vacuole fusion: coupling NSF activity to V0 trans-complex formation
Müller, Oliver, Bayer, Martin J., Peters, Christopher, Andersen, Jens S., Mann, Matthias, Mayer, Andreas
The fusion of cellular membranes comprises several steps; membrane attachment requires priming of SNAREs and tethering factors by Sec18p/NSF (N-ethylmaleimide sensitive factor) and LMA1. This leads...
Regulation of G2/M events by Cdc25A through phosphorylation-dependent modulation of its stability
Mailand, Niels, Podtelejnikov, Alexandre V., Groth, Anja, Mann, Matthias, Bartek, Jiri, Lukas, Jiri
DNA replication in higher eukaryotes requires activation of a Cdk2 kinase by Cdc25A, a labile phosphatase subject to further destabilization upon genotoxic stress. We describe a distinct, markedly...
Is mass spectrometry ready for proteome-wide protein expression analysis?
Rappsilber, Juri, Mann, Matthias
Recent advances in mass spectrometry will soon allow routine analysis of protein expression levels. How close are we to true quantitative proteomics?
Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics
Mootha, Vamsi K., Lepage, Pierre, Miller, Kathleen, Bunkenborg, Jakob, Reich, Michael, Hjerrild, Majbrit, ...
Identifying the genes responsible for human diseases requires combining information about gene position with clues about biological function. The recent availability of whole-genome data sets of RNA...
Unbiased quantitative proteomics of lipid rafts reveals high specificity for signaling factors
Foster, Leonard J., De Hoog, Carmen L., Mann, Matthias
Membrane lipids were once thought to be homogenously distributed in the 2D surface of a membrane, but the lipid raft theory suggests that cholesterol and sphingolipids partition away from other...
Axin-mediated CKI phosphorylation of β-catenin at Ser 45: a molecular switch for the Wnt pathway
Amit, Sharon, Hatzubai, Ada, Birman, Yaara, Andersen, Jens S., Ben-Shushan, Etti, Mann, Matthias, ...
The Wnt pathway controls numerous developmental processes via the β-catenin–TCF/LEF transcription complex. Deregulation of the pathway results in the aberrant accumulation of β-catenin in the...
Large-Scale Proteomic Analysis of the Human Spliceosome
Rappsilber, Juri, Ryder, Ursula, Lamond, Angus I., Mann, Matthias
In a previous proteomic study of the human spliceosome, we identified 42 spliceosome-associated factors, including 19 novel ones. Using enhanced mass spectrometric tools and improved databases, we...
Rrp47p Is an Exosome-Associated Protein Required for the 3′ Processing of Stable RNAs
Mitchell, Philip, Petfalski, Elisabeth, Houalla, Rym, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David
Related exosome complexes of 3′→5′ exonucleases are present in the nucleus and the cytoplasm. Purification of exosome complexes from whole-cell lysates identified a Mg2+-labile factor present...
Model for stathmin/OP18 binding to tubulin
Wallon, Gerlind, Rappsilber, Juri, Mann, Matthias, Serrano, Luis
Stathmin/OP18 is a regulatory phosphoprotein that controls microtubule (MT) dynamics. The protein does not have a defined three-dimensional structure, although it contains three distinct regions (an...
Euplotes telomerase contains an La motif protein produced by apparent translational frameshifting
Aigner, Stefan, Lingner, Joachim, Goodrich, Karen J., Grosshans, Cheryl A., Shevchenko, Andrej, Mann, Matthias, ...
Telomerase is the ribonucleoprotein enzyme responsible for the replication of chromosome ends in most eukaryotes. In the ciliate Euplotes aediculatus, the protein p43 biochemically co-purifies with...
Ajuh, Paul, Kuster, Bernhard, Panov, Kostya, Mann, Matthias, Lamond, Angus I.
Recently, we identified proteins that co-purify with the human spliceosome using mass spectrometry. One of the identified proteins, CDC5L, corresponds to the human homologue of the...
Chen, Ching-Yi, Gherzi, Roberto, Andersen, Jens S., Gaietta, Guido, Jürchott, Karsten, Royer, Hans-Dieter, ...
Regulated mRNA turnover is a highly important process, but its mechanism is poorly understood. Using interleukin-2 (IL-2) mRNA as a model, we described a role for the JNK-signaling pathway in...
Alexiadis, Vassilios, Waldmann, Tanja, Andersen, Jens, Mann, Matthias, Knippers, Rolf, Gruss, Claudia
The structure of chromatin regulates the genetic activity of the underlying DNA sequence. We report here that the protein encoded by the proto-oncogene DEK, which is involved in acute myelogenous...
The yeast exosome and human PM–Scl are related complexes of 3′ → 5′ exonucleases
Allmang, Christine, Petfalski, Elisabeth, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David, Mitchell, Philip
We previously identified a complex of 3′ → 5′ exoribonucleases, designated the exosome, that is expected to play a major role in diverse RNA processing and degradation pathways. Further...
BASP1 Is a Transcriptional Cosuppressor for the Wilms' Tumor Suppressor Protein WT1
Carpenter, Brian, Hill, Kathryn J., Charalambous, Marika, Wagner, Kate J., Lahiri, Diya, James, Dominic I., ...
The Wilms' tumor suppressor protein WT1 is a transcriptional regulator that plays a key role in the development of the kidneys. The transcriptional activation domain of WT1 is subject to regulation...
Ibarrola, Nieves, Kratchmarova, Irina, Nakajima, Daisuke, Schiemann, William P, Moustakas, Aristidis, Pandey, Akhilesh, ...
Olsen, Jesper V., Mann, Matthias
MS-based proteomics usually involves the fragmentation of tryptic peptides (tandem MS or MS2) and their identification by searching protein sequence databases. In ion trap instruments fragments can...
Proteomic Analysis of the Arabidopsis Nucleolus Suggests Novel Nucleolar FunctionsD⃞
Pendle, Alison F., Clark, Gillian P., Boon, Reinier, Lewandowska, Dominika, Lam, Yun Wah, Andersen, Jens, ...
The eukaryotic nucleolus is involved in ribosome biogenesis and a wide range of other RNA metabolism and cellular functions. An important step in the functional analysis of the nucleolus is to...
Bioinformatic analysis of the nucleolus.
Leung, Anthony K L, Andersen, Jens S, Mann, Matthias, Lamond, Angus I
The nucleolus is a plurifunctional, nuclear organelle, which is responsible for ribosome biogenesis and many other functions in eukaryotes, including RNA processing, viral replication and tumour...
NOPdb: Nucleolar Proteome Database
Leung, Anthony Kar Lun, Trinkle-Mulcahy, Laura, Lam, Yun Wah, Andersen, Jens S., Mann, Matthias, Lamond, Angus I.
The Nucleolar Proteome Database (NOPdb) archives data on >700 proteins that were identified by multiple mass spectrometry (MS) analyses from highly purified preparations of human nucleoli, the most...
eIF4A3 is a novel component of the exon junction complex
CHAN, CHIA C., DOSTIE, JOSÉE, DIEM, MICHAEL D., FENG, WENQIN, MANN, MATTHIAS, RAPPSILBER, JURI, ...
The exon junction complex (EJC) is a protein complex that assembles near exon–exon junctions of mRNAs as a result of splicing. EJC proteins play important roles in postsplicing events including...
Bacterial single-stranded DNA-binding proteins are phosphorylated on tyrosine
Mijakovic, Ivan, Petranovic, Dina, Macek, Boris, Cepo, Tina, Mann, Matthias, Davies, Julian, ...
Single-stranded DNA-binding proteins (SSBs) are required for repair, recombination and replication in all organisms. Eukaryotic SSBs are regulated by phosphorylation on serine and threonine residues....
Pseudosubstrate regulation of the SCFβ-TrCP ubiquitin ligase by hnRNP-U
Davis, Matti, Hatzubai, Ada, Andersen, Jens S., Ben-Shushan, Etti, Fisher, Gregory Zvi, Yaron, Avraham, ...
β-TrCP/E3RS (E3RS) is the F-box protein that functions as the receptor subunit of the SCFβ-TrCP ubiquitin ligase (E3). Surprisingly, although its two recognized substrates, IκBα and β-catenin,...
miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs
Mourelatos, Zissimos, Dostie, Josée, Paushkin, Sergey, Sharma, Anup, Charroux, Bernard, Abel, Linda, ...
Gemin3 is a DEAD-box RNA helicase that binds to the Survival of Motor Neurons (SMN) protein and is a component of the SMN complex, which also comprises SMN, Gemin2, Gemin4, Gemin5, and Gemin6....
Kruse, Thomas, Blagoev, Blagoy, Løbner-Olesen, Anders, Wachi, Masaaki, Sasaki, Kumi, Iwai, Noritaka, ...
The actin-like MreB cytoskeletal protein and RNA polymerase (RNAP) have both been suggested to provide the force for chromosome segregation. Here, we identify MreB and RNAP as in vivo interaction...
Mitotic Regulation of the APC Activator Proteins CDC20 and CDH1
Kramer, Edgar R., Scheuringer, Nadja, Podtelejnikov, Alexandre V., Mann, Matthias, Peters, Jan-Michael
The ordered activation of the ubiquitin protein ligase anaphase-promoting complex (APC) or cyclosome by CDC20 in metaphase and by CDH1 in telophase is essential for anaphase and for exit from...
Posttranslational modification of Gαo1 generates Gαo3, an abundant G protein in brain
Exner, Torsten, Jensen, Ole N., Mann, Matthias, Kleuss, Christiane, Nürnberg, Bernd
Gαo, the most abundant G protein in mammalian brain, occurs at least in two subforms, i.e., Gαo1 and Gαo2, derived by alternative splicing of the mRNA. A third Gαo1-related isoform, Gαo3, has...
Gmachl, Michael, Gieffers, Christian, Podtelejnikov, Alexandre V., Mann, Matthias, Peters, Jan-Michael
The anaphase-promoting complex (APC) is a cell cycle-regulated ubiquitin-protein ligase that targets cyclin B, securin and other destruction box containing proteins for proteolysis. Nine APC subunits...
Neubauer, Gitte, Gottschalk, Alexander, Fabrizio, Patrizia, Séraphin, Bertrand, Lührmann, Reinhard, Mann, Matthias
Here we report the rapid identification of the proteins of the spliceosomal U1 small nuclear ribonucleoprotein (snRNP) from the yeast Saccharomyces cerevisiae by searching mass spectrometric data in...
Grandi, Paola, Dang, Tam, Pané, Nelly, Shevchenko, Andrej, Mann, Matthias, Forbes, Douglass, ...
Yeast and vertebrate nuclear pores display significant morphological similarity by electron microscopy, but sequence similarity between the respective proteins has been more difficult to observe....
Shevchenko, Andrej, Jensen, Ole N., Podtelejnikov, Alexandre V., Sagliocco, Francis, Wilm, Matthias, Vorm, Ole, ...
The function of many of the uncharacterized open reading frames discovered by genomic sequencing can be determined at the level of expressed gene products, the proteome. However, identifying the...
Pandey, Akhilesh, Podtelejnikov, Alexandre V., Blagoev, Blagoy, Bustelo, Xosé R., Mann, Matthias, Lodish, Harvey F.
Oligomerization of receptor protein tyrosine kinases such as the epidermal growth factor receptor (EGFR) by their cognate ligands leads to activation of the receptor. Transphosphorylation of the...