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  • 1
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    Biophysical studies on calcium and carbohydrate binding to carbohydrate recognition domain of Gal/GalNAc lectin from Entamoeba histolytica: insights into host cell adhesion (2016)
    Oxford University Press
    Details
    Publication Date: 2016-08-27
    Description: Entamoeba histolytica , an enteric parasite expresses a Gal/GalNAc-specific lectin that contributes to its virulence by establishing adhesion to host cell. In this study, carbohydrate recognition domain of Hgl (EhCRD) was purified and biophysical studies were conducted to understand the thermodynamic basis of its binding to carbohydrate and Ca ++ . Here, we show that carbohydrate recognition domain (CRD) of the lectin binds to calcium through DPN motif. To decipher the role of calcium in carbohydrate binding and host cell adhesion, biophysical and cell-based studies were carried out. We demonstrated that the presence of the cation neither change the affinity of the lectin for carbohydrates nor alters its conformation. Mutation of the calcium-binding motif in EhCRD resulted in complete loss of ability to bind calcium but retained its affinity for carbohydrates. Purified EhCRD significantly diminished adhesion of the amebic trophozoites to Chinese Hamster Ovary (CHO) cells as well as triggered red blood cell agglutination. The calcium-binding defective mutant abrogated amebic adhesion to CHO cells similar to the wild-type protein, but it failed to agglutinate RBCs suggesting a differential role of the cation in these two processes. This study provides the first molecular description of the role of calcium in Gal/GalNAc mediated host cell adhesion.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
    Published by Oxford University Press on behalf of The Japanese Biochemical Society (JBS).
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  • 2
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    Changes in species composition, diversity and biomass of herbaceous plant traits due to N amendment in a dry tropical environment of India (2015)
    Oxford University Press
    Details
    Publication Date: 2015-05-21
    Description: Aim European and North American studies have suggested that nitrogen (N) depositions reduce plant diversity and increase primary productivity due to changes in plant traits. To predict the vegetation response to future global change, experimental validations from other regions are widely needed. We assessed the effects of N treatment by urea fertilization on the diversity and biomass of the herbaceous plant traits (HPTs) in a dry tropical environment of India. Methods Diversity and biomass of different HPTs were determined on the basis of data collected in year 2010, from 135, 1 m x 1 m plots distributed over 15 locations. The plots were treated with urea fertilizer in different doses (Control, 60kgNha –1 yr –1 and 120kg N ha –1 yr –1 ) since 1st January 2007. The plots were ordinated and data were subjected to appropriate statistical analyses. Important Findings Correspondence analysis (CA) suggested uniqueness of species composition due to N amendment. Species number and biomass of the trait categories varied due to N fertilization and traits. All studied trait categories (except N-fixers) yielded maximum mean species number at moderate level of N fertilization. Different levels of N fertilization exhibited different species diversity–primary productivity (D-P) relationships. Further, study showed reduction in plant diversity due to increase in biomass at high rates of N addition. Conclusions Tall, erect, non N-fixers, annuals, grasses HPTs were favoured by N enrichment. N dose above 60kg enhanced the biomass of fast growing, erect, annuals, non N-fixers, nitrophilic HPTs. The changes in traits with N addition, especially the increase in annuals and grasses and decrease in typically N-rich N-fixers, have implications for sustainable cattle production.
    Print ISSN: 1752-993X
    Electronic ISSN: 1752-9921
    Topics: Biology
    Published by Oxford University Press
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  • 3
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    A radiation of arboreal basal eutherian mammals beginning in the Late Cretaceous of India [Evolution] (2011)
    National Academy of Sciences
    Details
    Publication Date: 2011-09-28
    Description: India's Late Cretaceous fossil mammals include the only undisputed pre-Tertiary Gondwanan eutherians, such as Deccanolestes. Recent studies have suggested a relationship between Deccanolestes and African and European Paleocene adapisoriculids, which have been variably identified as stem euarchontans, stem primates, lipotyphlan insectivores, or afrosoricids. Support for a close relationship between Deccanolestes and any of these placental mammal clades would be unique in representing a confirmed Mesozoic record of a placental mammal. However, some paleogeographic reconstructions place India at its peak isolation from all other continents during the latest Cretaceous, complicating reconstructions of the biogeographic history of the placental radiation. Recent fieldwork in India has recovered dozens of better-preserved specimens of Cretaceous eutherians, including several new species. Here, we incorporate these new specimens into an extensive phylogenetic analysis that includes every clade with a previously hypothesized relationship to Deccanolestes. Our results support a robust relationship between Deccanolestes and Paleocene adapisoriculids, but do not support a close affinity between these taxa and any placental clade, demonstrating that Deccanolestes is not a Cretaceous placental mammal and reinforcing the sizeable gap between molecular and fossil divergence time estimates for the placental mammal radiation. Instead, our expanded data push Adapisoriculidae, including Deccanolestes, into a much more basal position than in earlier analyses, strengthening hypotheses that scansoriality and arboreality were prevalent early in eutherian evolution. This comprehensive phylogeny indicates that faunal exchange occurred between India, Africa, and Europe in the Late Cretaceous-Early Paleocene, and suggests a previously unrecognized ∼30 to 45 Myr “ghost lineage” for these Gondwanan eutherians.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 4
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    Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome (2002)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2002-08-17
    Description: The 26S proteasome mediates degradation of ubiquitin-conjugated proteins. Although ubiquitin is recycled from proteasome substrates, the molecular basis of deubiquitination at the proteasome and its relation to substrate degradation remain unknown. The Rpn11 subunit of the proteasome lid subcomplex contains a highly conserved Jab1/MPN domain-associated metalloisopeptidase (JAMM) motif-EX(n)HXHX(10)D. Mutation of the predicted active-site histidines to alanine (rpn11AXA) was lethal and stabilized ubiquitin pathway substrates in yeast. Rpn11(AXA) mutant proteasomes assembled normally but failed to either deubiquitinate or degrade ubiquitinated Sic1 in vitro. Our findings reveal an unexpected coupling between substrate deubiquitination and degradation and suggest a unifying rationale for the presence of the lid in eukaryotic proteasomes.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Verma, Rati -- Aravind, L -- Oania, Robert -- McDonald, W Hayes -- Yates, John R 3rd -- Koonin, Eugene V -- Deshaies, Raymond J -- RR11823-05-01/RR/NCRR NIH HHS/ -- New York, N.Y. -- Science. 2002 Oct 18;298(5593):611-5. Epub 2002 Aug 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology and Howard Hughes Medical Institute, California Institute of Technology, Pasadena, CA 91125, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/12183636" target="_blank"〉PubMed〈/a〉
    Keywords: Adenosine Triphosphate/metabolism ; Amino Acid Motifs ; Amino Acid Sequence ; Binding Sites ; Carbon-Nitrogen Lyases/chemistry/*metabolism ; Cyclin-Dependent Kinase Inhibitor Proteins ; Cysteine Endopeptidases/metabolism ; DNA-Binding Proteins/chemistry ; Endopeptidases/chemistry/*metabolism ; Fungal Proteins/*metabolism ; Metalloendopeptidases/chemistry/*metabolism ; Molecular Sequence Data ; Multienzyme Complexes/metabolism ; Mutation ; Oligopeptides/pharmacology ; Peptide Hydrolases/*metabolism ; Proteasome Endopeptidase Complex ; Saccharomyces cerevisiae Proteins/chemistry/*metabolism ; Transcription Factors/chemistry ; Ubiquitins/*metabolism ; Yeasts/metabolism ; Zinc/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 5
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    Phosphorylation of Sic1p by G1 Cdk required for its degradation and entry into S phase (1997)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1997-10-23
    Description: G1 cyclin-dependent kinase (Cdk)-triggered degradation of the S-phase Cdk inhibitor Sic1p has been implicated in the transition from G1 to S phase in the cell cycle of budding yeast. A multidimensional electrospray mass spectrometry technique was used to map G1 Cdk phosphorylation sites in Sic1p both in vitro and in vivo. A Sic1p mutant lacking three Cdk phosphorylation sites did not serve as a substrate for Cdc34p-dependent ubiquitination in vitro, was stable in vivo, and blocked DNA replication. Moreover, purified phosphoSic1p was ubiquitinated in cyclin-depleted G1 extract, indicating that a primary function of G1 cyclins is to tag Sic1p for destruction. These data suggest a molecular model of how phosphorylation and proteolysis cooperate to bring about the G1/S transition in budding yeast.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Verma, R -- Annan, R S -- Huddleston, M J -- Carr, S A -- Reynard, G -- Deshaies, R J -- R01 GM52466-01/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 1997 Oct 17;278(5337):455-60.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Biology, Box 156-29, California Institute of Technology, Pasadena, CA 91125, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/9334303" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Anaphase-Promoting Complex-Cyclosome ; Cyclin G ; Cyclin-Dependent Kinase Inhibitor Proteins ; Cyclin-Dependent Kinases/*metabolism ; Cyclins/*metabolism ; DNA Replication ; Enzyme Inhibitors/metabolism ; Fungal Proteins/*metabolism ; G1 Phase ; Ligases/metabolism ; Molecular Sequence Data ; Mutagenesis ; Phenotype ; Phosphopeptides/metabolism ; Phosphorylation ; Recombinant Fusion Proteins/metabolism ; *S Phase ; *Saccharomyces cerevisiae Proteins ; *Ubiquitin-Protein Ligase Complexes ; Ubiquitin-Protein Ligases ; Ubiquitins/metabolism ; Yeasts/*cytology/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 6
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    Ubistatins inhibit proteasome-dependent degradation by binding the ubiquitin chain (2004)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2004-10-02
    Description: To identify previously unknown small molecules that inhibit cell cycle machinery, we performed a chemical genetic screen in Xenopus extracts. One class of inhibitors, termed ubistatins, blocked cell cycle progression by inhibiting cyclin B proteolysis and inhibited degradation of ubiquitinated Sic1 by purified proteasomes. Ubistatins blocked the binding of ubiquitinated substrates to the proteasome by targeting the ubiquitin-ubiquitin interface of Lys(48)-linked chains. The same interface is recognized by ubiquitin-chain receptors of the proteasome, indicating that ubistatins act by disrupting a critical protein-protein interaction in the ubiquitin-proteasome system.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Verma, Rati -- Peters, Noel R -- D'Onofrio, Mariapina -- Tochtrop, Gregory P -- Sakamoto, Kathleen M -- Varadan, Ranjani -- Zhang, Mingsheng -- Coffino, Philip -- Fushman, David -- Deshaies, Raymond J -- King, Randall W -- CA78048/CA/NCI NIH HHS/ -- GM068276/GM/NIGMS NIH HHS/ -- GM65334/GM/NIGMS NIH HHS/ -- GM66492/GM/NIGMS NIH HHS/ -- P50 CA92131/CA/NCI NIH HHS/ -- R01 GM-45335/GM/NIGMS NIH HHS/ -- R21CA108545/CA/NCI NIH HHS/ -- New York, N.Y. -- Science. 2004 Oct 1;306(5693):117-20.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology, Howard Hughes Medical Institute (HHMI), California Institute of Technology, Pasadena, CA 91125, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/15459393" target="_blank"〉PubMed〈/a〉
    Keywords: Anaphase-Promoting Complex-Cyclosome ; Animals ; Cell Extracts ; Cyclin B/metabolism ; Cyclin-Dependent Kinase Inhibitor Proteins ; Cysteine Endopeptidases/metabolism ; *Drug Evaluation, Preclinical ; Interphase ; Mitosis ; Molecular Structure ; Multienzyme Complexes/*antagonists & inhibitors/metabolism ; Ornithine Decarboxylase/metabolism ; Proteasome Endopeptidase Complex ; Protein Binding ; Proteins/*metabolism ; Quinolines/*metabolism/pharmacology ; Recombinant Fusion Proteins ; Saccharomyces cerevisiae Proteins/metabolism ; Sulfanilic Acids/*metabolism/pharmacology ; Ubiquitin/*metabolism ; Ubiquitin-Protein Ligase Complexes/metabolism ; Xenopus laevis
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 7
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    Optimization of epoxy-aluminium composites used in cryosorption pumps by thermal conductivity studies from 4.5 K to 300 K (2017)
    Institute of Physics (IOP)
    Details
    Publication Date: 2017-12-30
    Description: Cryosorption pump is a capture vacuum pump which retains gas molecules by chemical or physical interaction on their internal surfaces when cooled to cryogenic temperatures. Cryosorption pumps are the only solution in nuclear fusion systems to achieve high vacuum in the environment of hydrogen and helium. An important aspect of this development is the proper adhesion of the activated carbons on the metallic panels using a high thermal conductivity and high bonding strength adhesive. Typical adhesives used are epoxy based. The thermal conductivity of the adhesive can be improved by using fine aluminium powder as the filler in the base epoxy matrix. However, the thermal conductivity data of such epoxy-aluminium composites is not available in literature. Hence, we have measured the thermal conductivities of the above epoxy-aluminium composites (with varied volume fraction of aluminium in epoxy) in the temperature range from 4.5 K to 300 K using a G-M cryocooler based thermal conduct...
    Print ISSN: 1757-8981
    Electronic ISSN: 1757-899X
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics
    Published by Institute of Physics (IOP)
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  • 8
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    Synthesis and Characterization of a Novel γ-Aminobutyric Acid Type A (GABAA) Receptor Ligand That Combines Outstanding Metabolic Stability, Pharmacokinetics, and Anxiolytic Efficacy (2016)
    American Chemical Society (ACS)
    Details
    Publication Date: 2016-11-29
    Description: Journal of Medicinal Chemistry DOI: 10.1021/acs.jmedchem.6b01332
    Topics: Chemistry and Pharmacology
    Published by American Chemical Society (ACS)
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  • 9
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    Systematic Tuning of Fluoro-galectin-3 Interactions Provides Thiodigalactoside Derivatives with Single-Digit nM Affinity and High Selectivity (2018)
    American Chemical Society (ACS)
    Details
    Publication Date: 2018-01-12
    Description: Journal of Medicinal Chemistry DOI: 10.1021/acs.jmedchem.7b01626
    Topics: Chemistry and Pharmacology
    Published by American Chemical Society (ACS)
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  • 10
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    Structure of the RSC complex bound to the nucleosome (2019)
    American Association for the Advancement of Science (AAAS)
    In: Science
    Details
    Publication Date: 2019
    Description: 〈p〉The RSC complex remodels chromatin structure and regulates gene transcription. We used cryo–electron microscopy to determine the structure of yeast RSC bound to the nucleosome. RSC is delineated into the adenosine triphosphatase motor, the actin-related protein module, and the substrate recruitment module (SRM). RSC binds the nucleosome mainly through the motor, with the auxiliary subunit Sfh1 engaging the H2A-H2B acidic patch to enable nucleosome ejection. SRM is organized into three substrate-binding lobes poised to bind their respective nucleosomal epitopes. The relative orientations of the SRM and the motor on the nucleosome explain the directionality of DNA translocation and promoter nucleosome repositioning by RSC. Our findings shed light on RSC assembly and functionality, and they provide a framework to understand the mammalian homologs BAF/PBAF and the Sfh1 ortholog INI1/BAF47, which are frequently mutated in cancers.〈/p〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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