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  • 1
    Publication Date: 2014-06-04
    Description: Sharks and other cartilaginous fish are the phylogenetically oldest living organisms that rely on antibodies as part of their adaptive immune system. They produce the immunoglobulin new antigen receptor (IgNAR), a homodimeric heavy chain-only antibody, as a major part of their humoral adaptive immune response. Here, we report the atomic...
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 2
    Publication Date: 2011-03-01
    Description: The stratigraphic position of the Otjosondu ferromanganese deposit in the Neoproterozoic Damara Supergroup in the Central Zone of the Pan-African Damara orogenic belt is uncertain. Comparison of the enclosing host rocks with regional profiles in the southern Central Zone would indicate that it is hosted by the Etusis Formation (Fe-rich feldspar-quartz rocks) of the Nosib Group, in a condensed stratigraphic section of the supergroup, and not the Chuos Formation (diamictite, turbidite and thin iron-formation layers) of the Swakop Group, as previously proposed. The Otjosondu ore comprises ferromanganese silicate-oxide assemblages that occur in a feldspathic-quartzite sequence lacking the mixtite facies typical of the Chuos Formation. Hematitic iron formation containing minor hyalophane, spessartine and barite, and hyalophane-bearing spessartine-quartz rock are present in close spatial association with the Mn silicate-oxide rocks. Barite is a widespread and locally abundant mineral in the Mn silicate-oxide ore. Bulk-rock chemical analyses indicate trace-element associations of Ag-As-Cu-Co-Bi-B-P with Mn and Sr-Mo-W with Ba in the Mn silicate-oxide and spessartine-quartz rocks. These element associations are explained by adsorption/substitution processes in an oxygenated alkaline marine setting. Sulfur-isotope compositions of barite from the Mn silicate-oxide ore vary from +10.1 to +16.7 {per thousand}, a range of {delta}34S values that shows negative correlation with bulk-rock Fe content and is interpreted as mixing of isotopically light hydrothermal S with heavier sea-water S. The protoliths of the ferromanganese rocks were precipitates deposited in a basin-margin setting as a result of mixing of an exhalative hydrothermal fluid with oxygenated, sulfate-bearing sea water, and varying degrees of detrital addition. These conclusions are in contradiction to the deep-water, anoxic, sulfate-depleted oceanic settings required for formation of glacially associated Rapitan-type iron and manganese formations. The formation of the Otjosondu ferromanganese deposit is therefore unrelated to any Chuos/Sturtian global glacial event. Origins as hydrogenetic deposits are mostly excluded due to the base-metal- and P-poor, but Ba-rich nature of the Otjosondu ores. The baritic ferromanganese, hematite-quartz and spessartine-quartz rocks at Otjosondu may be compared to oxidised baritic portions of the Gamsberg (Broken Hill-type) base-metal deposit in South Africa and may represent the distal or shallow-water oxidised equivalents of sediment-hosted exhalative base-metal mineralisation such as the penecontemporaneous Tsongoari and Rosh Pinah deposits.
    Print ISSN: 1012-0750
    Topics: Geosciences
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  • 3
    Publication Date: 2015-04-21
    Description: Protein phosphatase 5 (PP5) is an evolutionary conserved serine/threonine phosphatase that is autoregulated by its Hsp90-interacting tetratricopeptide repeat (TPR) domain and its C-terminal α‑helix. PP5-catalyzed dephosphorylation modulates a diverse set of cellular factors including protein kinases and the microtubule-associated tau-protein involved in neurodegenerative disorders. Here, we report the identification of five specific PP5 activators (P5SAs) that enhance the phosphatase activity up to 8-fold. The compounds are allosteric modulators accelerating exclusively the turnover rate of PP5, but do not affect substrate binding or the interaction between PP5 and the chaperone Hsp90. Functional studies imply a binding site in the phosphatase domain and crystallographic comparisons of the apo PP5 and the PP5:P5SA-2 complex indicate a relaxation of the autoinhibited state of PP5 upon activator binding to the phosphatase-TPR domain interface. Mutations in this site suppress the activatory potential of the ligands. Thus, these compounds may be able to target a regulatory pocket at the domain interface of the PP5 enzyme and serve as a starting point to develop optimized activators based on these scaffolds.
    Print ISSN: 0144-8463
    Electronic ISSN: 1573-4935
    Topics: Biology , Chemistry and Pharmacology
    Published by Portland Press
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  • 4
    Publication Date: 2001-11-03
    Description: During spliceosome assembly, splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hn RNP K) fold which is necessary and sufficient for BPS binding. The 3' part of the BPS (UAAC), including the conserved branch point adenosine (underlined), is specifically recognized in a hydrophobic cleft formed by the Gly-Pro-Arg-Gly motif and the variable loop of the KH domain. The QUA2 region recognizes the 5' nucleotides of the BPS (ACU). The branch point adenosine acting as the nucleophile in the first biochemical step of splicing is deeply buried. BPS RNA recognition suggests how SF1 may facilitate subsequent formation of the prespliceosomal complex A.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Liu, Z -- Luyten, I -- Bottomley, M J -- Messias, A C -- Houngninou-Molango, S -- Sprangers, R -- Zanier, K -- Kramer, A -- Sattler, M -- New York, N.Y. -- Science. 2001 Nov 2;294(5544):1098-102.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, D-69117 Heidelberg, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/11691992" target="_blank"〉PubMed〈/a〉
    Keywords: Adenosine/chemistry/metabolism ; Amino Acid Motifs ; Amino Acid Sequence ; Binding Sites ; *DNA-Binding Proteins ; Humans ; Hydrogen Bonding ; Hydrophobic and Hydrophilic Interactions ; *Introns ; Models, Molecular ; Molecular Sequence Data ; Mutation ; Nuclear Magnetic Resonance, Biomolecular ; Nucleic Acid Conformation ; Protein Conformation ; Protein Folding ; Protein Structure, Secondary ; Protein Structure, Tertiary ; RNA Precursors/chemistry/*metabolism ; RNA, Messenger/chemistry/*metabolism ; RNA-Binding Proteins/*chemistry/genetics/*metabolism ; Recombinant Proteins/chemistry/metabolism ; Spliceosomes/metabolism ; *Transcription Factors ; Uracil/chemistry/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 5
    Publication Date: 1997-02-14
    Description: Heterodimerization between members of the Bcl-2 family of proteins is a key event in the regulation of programmed cell death. The molecular basis for heterodimer formation was investigated by determination of the solution structure of a complex between the survival protein Bcl-xL and the death-promoting region of the Bcl-2-related protein Bak. The structure and binding affinities of mutant Bak peptides indicate that the Bak peptide adopts an amphipathic alpha helix that interacts with Bcl-xL through hydrophobic and electrostatic interactions. Mutations in full-length Bak that disrupt either type of interaction inhibit the ability of Bak to heterodimerize with Bcl-xL.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sattler, M -- Liang, H -- Nettesheim, D -- Meadows, R P -- Harlan, J E -- Eberstadt, M -- Yoon, H S -- Shuker, S B -- Chang, B S -- Minn, A J -- Thompson, C B -- Fesik, S W -- P01 A135294/PHS HHS/ -- R37 CA48023/CA/NCI NIH HHS/ -- New York, N.Y. -- Science. 1997 Feb 14;275(5302):983-6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Pharmaceutical Discovery Division, Abbott Laboratories, Abbott Park, IL 60064, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/9020082" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Apoptosis ; Crystallography, X-Ray ; Dimerization ; Magnetic Resonance Spectroscopy ; Membrane Proteins/*chemistry/genetics/metabolism ; Models, Molecular ; Molecular Sequence Data ; *Protein Conformation ; Protein Structure, Secondary ; Proto-Oncogene Proteins/*chemistry/metabolism ; *Proto-Oncogene Proteins c-bcl-2 ; Sequence Deletion ; bcl-2 Homologous Antagonist-Killer Protein ; bcl-X Protein
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 6
    Publication Date: 2002-08-10
    Description: The heteropolyanions of W, Mo, and V, which have found numerous applications, are formed simply by acidification of solutions of their oxoanions. Under similar conditions, these oxoanion precursors are not available for Nb, and Nb-oxo chemistry is dominated by formation of the Lindquist ion [Nb6O19]8- only. However, heteropolyniobate formation is favored in hydrothermal reactions of aqueous, alkaline precursor mixtures. Here we give two examples of heteropolyniobates formed by this general reaction type: K12[Ti2O2][SiNb12O40].16H2O [1], which contains chains of silicododecaniobate Keggin ions, and Na14[H2Si4Nb16O56].45.5H2O [2], a new heteropolyanion structure type.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Nyman, May -- Bonhomme, Francois -- Alam, Todd M -- Rodriguez, Mark A -- Cherry, Brian R -- Krumhansl, James L -- Nenoff, Tina M -- Sattler, Amy M -- New York, N.Y. -- Science. 2002 Aug 9;297(5583):996-8.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Sandia National Laboratories, Albuquerque, NM 87185, USA. mdnyman@sandia.gov〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/12169730" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 7
    Publication Date: 2011-07-15
    Description: Many cellular functions involve multi-domain proteins, which are composed of structurally independent modules connected by flexible linkers. Although it is often well understood how a given domain recognizes a cognate oligonucleotide or peptide motif, the dynamic interaction of multiple domains in the recognition of these ligands remains to be characterized. Here we have studied the molecular mechanisms of the recognition of the 3'-splice-site-associated polypyrimidine tract RNA by the large subunit of the human U2 snRNP auxiliary factor (U2AF65) as a key early step in pre-mRNA splicing. We show that the tandem RNA recognition motif domains of U2AF65 adopt two remarkably distinct domain arrangements in the absence or presence of a strong (that is, high affinity) polypyrimidine tract. Recognition of sequence variations in the polypyrimidine tract RNA involves a population shift between these closed and open conformations. The equilibrium between the two conformations functions as a molecular rheostat that quantitatively correlates the natural variations in polypyrimidine tract nucleotide composition, length and functional strength to the efficiency to recruit U2 snRNP to the intron during spliceosome assembly. Mutations that shift the conformational equilibrium without directly affecting RNA binding modulate splicing activity accordingly. Similar mechanisms of cooperative multi-domain conformational selection may operate more generally in the recognition of degenerate nucleotide or amino acid motifs by multi-domain proteins.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mackereth, Cameron D -- Madl, Tobias -- Bonnal, Sophie -- Simon, Bernd -- Zanier, Katia -- Gasch, Alexander -- Rybin, Vladimir -- Valcarcel, Juan -- Sattler, Michael -- England -- Nature. 2011 Jul 13;475(7356):408-11. doi: 10.1038/nature10171.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute of Structural Biology, Helmholtz Zentrum Munchen, Ingolstadter Landstrasse 1, 85764 Neuherberg, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21753750" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Motifs ; Base Sequence ; Humans ; Introns/genetics ; Ligands ; Models, Molecular ; Mutation ; Nuclear Magnetic Resonance, Biomolecular ; Nuclear Proteins/*chemistry/*metabolism ; Protein Binding ; Protein Structure, Tertiary ; Pyrimidines/metabolism ; RNA Precursors/*genetics/*metabolism ; RNA Splice Sites/genetics ; RNA Splicing/*physiology ; RNA, Messenger/genetics/*metabolism ; Ribonucleoproteins/*chemistry/*metabolism ; Spliceosomes/chemistry/metabolism ; Substrate Specificity
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 8
    Publication Date: 2014-09-12
    Description: Genetic equality between males and females is established by chromosome-wide dosage-compensation mechanisms. In the fruitfly Drosophila melanogaster, the dosage-compensation complex promotes twofold hypertranscription of the single male X-chromosome and is silenced in females by inhibition of the translation of msl2, which codes for the limiting component of the dosage-compensation complex. The female-specific protein Sex-lethal (Sxl) recruits Upstream-of-N-ras (Unr) to the 3' untranslated region of msl2 messenger RNA, preventing the engagement of the small ribosomal subunit. Here we report the 2.8 A crystal structure, NMR and small-angle X-ray and neutron scattering data of the ternary Sxl-Unr-msl2 ribonucleoprotein complex featuring unprecedented intertwined interactions of two Sxl RNA recognition motifs, a Unr cold-shock domain and RNA. Cooperative complex formation is associated with a 1,000-fold increase of RNA binding affinity for the Unr cold-shock domain and involves novel ternary interactions, as well as non-canonical RNA contacts by the alpha1 helix of Sxl RNA recognition motif 1. Our results suggest that repression of dosage compensation, necessary for female viability, is triggered by specific, cooperative molecular interactions that lock a ribonucleoprotein switch to regulate translation. The structure serves as a paradigm for how a combination of general and widespread RNA binding domains expands the code for specific single-stranded RNA recognition in the regulation of gene expression.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hennig, Janosch -- Militti, Cristina -- Popowicz, Grzegorz M -- Wang, Iren -- Sonntag, Miriam -- Geerlof, Arie -- Gabel, Frank -- Gebauer, Fatima -- Sattler, Michael -- England -- Nature. 2014 Nov 13;515(7526):287-90. doi: 10.1038/nature13693. Epub 2014 Sep 7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Institute of Structural Biology, Helmholtz Zentrum Munchen, Ingolstadter Landstrasse 1, DE-85764, Germany [2] Center for Integrated Protein Science Munich at Biomolecular NMR Spectroscopy, Department Chemie, Technische Universitat Munchen, Lichtenbergstr. 4, DE-85747 Garching, Germany. ; 1] Centre for Genomic Regulation, Gene Regulation, Stem Cells and Cancer Programme, Dr Aiguader 88, 08003 Barcelona, Spain [2] Universisty Pompeu Fabra, Dr Aiguader 88, 08003 Barcelona, Spain. ; Institute of Structural Biology, Helmholtz Zentrum Munchen, Ingolstadter Landstrasse 1, DE-85764, Germany. ; 1] Universite Grenoble Alpes, Institut de Biologie Structurale, F-38044 Grenoble, France [2] Centre National de la Recherche Scientifique, Institut de Biologie Structurale, F-38044 Grenoble, France [3] Commissariat a l'Energie Atomique et aux Energies Alternatives, Institut de Biologie Structurale, F-38044 Grenoble, France [4] Institut Laue-Langevin, F-38042 Grenoble, France.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25209665" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Binding Sites ; Cell Line ; Cold-Shock Response ; Crystallography, X-Ray ; DNA-Binding Proteins/*chemistry/*metabolism ; Dosage Compensation, Genetic ; Drosophila Proteins/*chemistry/*metabolism ; Drosophila melanogaster/*chemistry/genetics ; Female ; Gene Expression Regulation ; Male ; Models, Molecular ; Neutron Diffraction ; Nuclear Magnetic Resonance, Biomolecular ; Nucleotide Motifs ; *Protein Biosynthesis ; Protein Structure, Tertiary ; RNA, Messenger/chemistry/*metabolism ; RNA-Binding Proteins/*chemistry/*metabolism ; Ribonucleoproteins/chemistry/metabolism ; Scattering, Small Angle ; Structure-Activity Relationship ; X-Ray Diffraction
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 9
    Publication Date: 2006-07-01
    Description: Discrimination between splice sites and similar, nonsplice sequences is essential for correct intron removal and messenger RNA formation in eukaryotes. The 65- and 35-kD subunits of the splicing factor U2AF, U2AF65 and U2AF35, recognize, respectively, the pyrimidine-rich tract and the conserved terminal AG present at metazoan 3' splice sites. We report that DEK, a chromatin- and RNA-associated protein mutated or overexpressed in certain cancers, enforces 3' splice site discrimination by U2AF. DEK phosphorylated at serines 19 and 32 associates with U2AF35, facilitates the U2AF35-AG interaction and prevents binding of U2AF65 to pyrimidine tracts not followed by AG. DEK and its phosphorylation are required for intron removal, but not for splicing complex assembly, which indicates that proofreading of early 3' splice site recognition influences catalytic activation of the spliceosome.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Soares, Luis Miguel Mendes -- Zanier, Katia -- Mackereth, Cameron -- Sattler, Michael -- Valcarcel, Juan -- New York, N.Y. -- Science. 2006 Jun 30;312(5782):1961-5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Centre de Regulacio Genomica, Passeig Maritim 37-49, 08003 Barcelona, Spain.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16809543" target="_blank"〉PubMed〈/a〉
    Keywords: Adenosine Triphosphate/metabolism ; Chromosomal Proteins, Non-Histone/genetics/*metabolism ; Dimerization ; Dinucleoside Phosphates/metabolism ; HeLa Cells ; Humans ; *Introns ; Mutation ; Nuclear Proteins/*metabolism ; Oncogene Proteins/genetics/*metabolism ; Phosphorylation ; Pyrimidines/metabolism ; RNA Precursors/*metabolism ; *RNA Splicing ; RNA, Messenger/metabolism ; Recombinant Proteins/metabolism ; Ribonucleoprotein, U2 Small Nuclear ; Ribonucleoproteins/*metabolism ; Spliceosomes/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 10
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    American Association for the Advancement of Science (AAAS)
    Publication Date: 1980-06-27
    Description: Three Siamese cats were found to have a progressive neurological disease that became obvious when they were 4 to 5 months of age. Their brains contained an excess of GM2 and GM3 gangliosides, and their livers a nine- to tenfold excess of sphingomyelin and cholesterol. A total deficiency of lysosomal (pH 5.0) sphingomyelinase was found in the leukocytes, liver, and brain of the cats, although the activity of the microsomal (pH 7.4, magnesium-dependent) sphingomyelinase was normal in brain. These cats appear to have a genetic disease identical to Niemann-Pick disease type A.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wenger, D A -- Sattler, M -- Kudoh, T -- Snyder, S P -- Kingston, R S -- New York, N.Y. -- Science. 1980 Jun 27;208(4451):1471-3.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/7189903" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Brain/enzymology ; Brain Chemistry ; Cat Diseases/enzymology/*genetics ; Cats ; *Disease Models, Animal ; Gangliosides/analysis ; Humans ; Kinetics ; Liver/analysis ; Niemann-Pick Diseases/enzymology/*genetics ; Phospholipids/analysis ; Sphingomyelin Phosphodiesterase/analysis
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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