Genomes and Genes
Experts and Doctors on molecular sequence data in Berkeley, California, United States
Locale: Berkeley, California, United States
Topic: molecular sequence data
Publications379 found, 100 shown here
- Cutler G, Perry K, Tjian R. Adf-1 is a nonmodular transcription factor that contains a TAF-binding Myb-like motif. Mol Cell Biol. 1998;18:2252-61 pubmed..Thus, Adf-1 has evolved an unusual structure containing two versions of the Myb motif, one that binds DNA and one that binds proteins. ..
- Marcaurelle L, Mizoue L, Wilken J, Oldham L, Kent S, Handel T, et al. Chemical synthesis of lymphotactin: a glycosylated chemokine with a C-terminal mucin-like domain. Chemistry. 2001;7:1129-32 pubmed..Using this approach quantities of homogeneous material were obtained for structural and functional analysis. ..
- Doucleff M, Chen B, Maris A, Wemmer D, Kondrashkina E, Nixon B. Negative regulation of AAA + ATPase assembly by two component receiver domains: a transcription activation mechanism that is conserved in mesophilic and extremely hyperthermophilic bacteria. J Mol Biol. 2005;353:242-55 pubmed publisher..These analyses also raise the possibility that a structured linker between N-terminal regulatory and central output domains is used frequently in regulatory proteins from hyperthermophilic organisms...
- Moon A, Janmey P, Louie K, Drubin D. Cofilin is an essential component of the yeast cortical cytoskeleton. J Cell Biol. 1993;120:421-35 pubmed..Thus, cofilin and Abp1p are structurally related but functionally distinct components of the yeast membrane cytoskeleton. ..
- Carmi I, Kopczynski J, Meyer B. The nuclear hormone receptor SEX-1 is an X-chromosome signal that determines nematode sex. Nature. 1998;396:168-73 pubmed..Thus, xol-1 is the direct molecular target of the primary sex-determination signal, and the dose of a nuclear hormone receptor helps to communicate X-chromosome number to determine nematode sex. ..
- Du X, Wang W, Kim R, Yakota H, Nguyen H, Kim S. Crystal structure and mechanism of catalysis of a pyrazinamidase from Pyrococcus horikoshii. Biochemistry. 2001;40:14166-72 pubmed..Because of extensive homology between PH999 and PZAase of M. tuberculosis (37% sequence identity), the structure of PH999 provides a structural basis for understanding PZA-resistance by M. tuberculosis harboring PZAase mutations...
- Newman K, Almeida R, Purcell A, Lindow S. Cell-cell signaling controls Xylella fastidiosa interactions with both insects and plants. Proc Natl Acad Sci U S A. 2004;101:1737-42 pubmed..This article reports a cell-cell signaling requirement for vector transmission. Identification of the genes regulated by rpfF should elucidate bacterial factors involved in transmission and biofilm formation in the insect...
- Truckses D, Bloomekatz J, Thorner J. The RA domain of Ste50 adaptor protein is required for delivery of Ste11 to the plasma membrane in the filamentous growth signaling pathway of the yeast Saccharomyces cerevisiae. Mol Cell Biol. 2006;26:912-28 pubmed..Thus, Ste50 serves as an adaptor to tether Ste11 to the plasma membrane and can do so via association with Cdc42, thereby permitting the encounter of Ste11 with activated Ste20. ..
- Baker N, Mlodzik M, Rubin G. Spacing differentiation in the developing Drosophila eye: a fibrinogen-related lateral inhibitor encoded by scabrous. Science. 1990;250:1370-7 pubmed..It is proposed that the sca locus encodes a lateral inhibitor of R8 differentiation. The roles of the Drosophila EGF-receptor homologue (DER) and Notch genes in this process were also investigated. ..
- Mian I, Moser M, Holley W, Chatterjee A. Statistical modelling and phylogenetic analysis of a deaminase domain. J Comput Biol. 1998;5:57-72 pubmed..Some bacterial and eucaryotic DM domains form distinct branches in the phylogenetic tree suggesting the existence of common, novel substrates. ..
- Amarasinghe A, Calin Jageman I, Harmouch A, Sun W, Nicholson A. Escherichia coli ribonuclease III: affinity purification of hexahistidine-tagged enzyme and assays for substrate binding and cleavage. Methods Enzymol. 2001;342:143-58 pubmed
- Flanagan C, Schnieders E, Emerick A, Kunisawa R, Admon A, Thorner J. Phosphatidylinositol 4-kinase: gene structure and requirement for yeast cell viability. Science. 1993;262:1444-8 pubmed..A pik1 null mutant was inviable, indicating that PtdIns4P and presumably PtdIns[4,5]P2 are indispensable phospholipids. ..
- Manzara T, Carrasco P, Gruissem W. Developmental and organ-specific changes in DNA-protein interactions in the tomato rbcS1, rbcS2 and rbcS3A promoter regions. Plant Mol Biol. 1993;21:69-88 pubmed
- Lindberg P, Melis A. The chloroplast sulfate transport system in the green alga Chlamydomonas reinhardtii. Planta. 2008;228:951-61 pubmed publisher..reinhardtii, specifically recognized by polyclonal antibodies against SulP and Sabc. These results suggest the presence and function in C. reinhardtii of a Sbp-SulP-SulP2-Sabc chloroplast envelope sulfate transporter holocomplex. ..
- Fischer Vize J, Rubin G, Lehmann R. The fat facets gene is required for Drosophila eye and embryo development. Development. 1992;116:985-1000 pubmed..We have cloned the faf gene, and have shown that it encodes two similar large (approximately 300 x 10(3) M(r)) proteins that are unique with respect to other known proteins. ..
- Neufeld T, Carthew R, Rubin G. Evolution of gene position: chromosomal arrangement and sequence comparison of the Drosophila melanogaster and Drosophila virilis sina and Rh4 genes. Proc Natl Acad Sci U S A. 1991;88:10203-7 pubmed..In particular, the sina and Rh4 genes are widely separated in D. virilis, and there is no intron in the Rh4 gene. Our results suggest that the Rh4 gene was translocated to another chromosomal location by a retrotransposition event...
- Schott D, Shyamala G, Schneider W, Parry G. Molecular cloning, sequence analyses, and expression of complementary DNA encoding murine progesterone receptor. Biochemistry. 1991;30:7014-20 pubmed
- Ronald P, Staskawicz B. The avirulence gene avrBs1 from Xanthomonas campestris pv. vesicatoria encodes a 50-kD protein. Mol Plant Microbe Interact. 1988;1:191-8 pubmed..glycinea race 6, and 86% homology over a region of 49 amino acids. P. s. pv. glycinea, however, did not induce an HR on ECW10R plants.(ABSTRACT TRUNCATED AT 250 WORDS) ..
- Kerstetter R, Vollbrecht E, Lowe B, Veit B, Yamaguchi J, Hake S. Sequence analysis and expression patterns divide the maize knotted1-like homeobox genes into two classes. Plant Cell. 1994;6:1877-87 pubmed..Four pairs of genes, similar in both sequence and expression patterns, mapped within duplicated regions of the genome. ..
- Dualan R, Brody T, Keeney S, Nichols A, Admon A, Linn S. Chromosomal localization and cDNA cloning of the genes (DDB1 and DDB2) for the p127 and p48 subunits of a human damage-specific DNA binding protein. Genomics. 1995;29:62-9 pubmed..Using a fluorescence in situ hybridization technique, the DDB p127 locus (DDB1) was assigned to the chromosomal location 11q12-q13, and the DDB p48 locus (DDB2) to 11p11-p12. ..
- Urnovitz H, Tuite J, Higashida J, Murphy W. RNAs in the sera of Persian Gulf War veterans have segments homologous to chromosome 22q11.2. Clin Diagn Lab Immunol. 1999;6:330-5 pubmed..Nonetheless, the detection of polyribonucleotides such as those reported here may have application to the laboratory diagnosis of chronic diseases that have a multifactorial etiology. ..
- Swallow M, Wallin J, Sha W. B7h, a novel costimulatory homolog of B7.1 and B7.2, is induced by TNFalpha. Immunity. 1999;11:423-32 pubmed..These data define a novel costimulatory ligand for T cells and suggest that induction of B7h by TNFalpha may function as a mechanism to directly augment recognition of self during inflammation. ..
- Zhang H, Tan J, Reynolds E, Kuebler D, Faulhaber S, Tanouye M. The Drosophila slamdance gene: a mutation in an aminopeptidase can cause seizure, paralysis and neuronal failure. Genetics. 2002;162:1283-99 pubmed..Finally, by using the sda mutation as a sensitized background, we have been able to identify a rich variety of sda enhancers and other independent BS mutations. ..
- Tomizawa M, Maltby D, Talley T, Durkin K, Medzihradszky K, Burlingame A, et al. Atypical nicotinic agonist bound conformations conferring subtype selectivity. Proc Natl Acad Sci U S A. 2008;105:1728-32 pubmed publisher..Accordingly, the subtype selectivity is based on two disparate bound conformations of nicotinic agonists, thereby establishing an atypical concept for neonicotinoid versus nicotinoid selectivity between insect and vertebrate nAChRs. ..
- Renner T, Bragg J, Driscoll H, Cho J, Jackson A, Specht C. Virus-induced gene silencing in the culinary ginger (Zingiber officinale): an effective mechanism for down-regulating gene expression in tropical monocots. Mol Plant. 2009;2:1084-94 pubmed publisher..These results suggest that extension of BSMV-VIGS to monocots other than cereals has the potential for directed genetic analyses of many important temperate and tropical crop species...
- Mitra M, Melis A. Genetic and biochemical analysis of the TLA1 gene in Chlamydomonas reinhardtii. Planta. 2010;231:729-40 pubmed publisher..reinhardtii and the colorless microalga Polytomella parva suggested that TLA1 defines the relationship between nucleus and organelle in microalgae, indirectly affecting the development of the chlorophyll antenna size...
- Alegado R, Ferriera S, Nusbaum C, Young S, Zeng Q, Imamovic A, et al. Complete genome sequence of Algoriphagus sp. PR1, bacterial prey of a colony-forming choanoflagellate. J Bacteriol. 2011;193:1485-6 pubmed publisher..Here we announce the complete genome sequence of Algoriphagus sp. PR1 and initial findings from its annotation. ..
- Lee H, Haurwitz R, Apffel A, Zhou K, Smart B, Wenger C, et al. RNA-protein analysis using a conditional CRISPR nuclease. Proc Natl Acad Sci U S A. 2013;110:5416-21 pubmed publisher..We also show that this technology is suitable for analyzing diverse size transcripts, and that it is suitable for adaptation to a high-throughput discovery format. ..
- Hortsch M, Patel N, Bieber A, Traquina Z, Goodman C. Drosophila neurotactin, a surface glycoprotein with homology to serine esterases, is dynamically expressed during embryogenesis. Development. 1990;110:1327-40 pubmed..Neurotactin therefore belongs to a growing group of proteins including Drosophila glutactin and thyroglobulins that are known to share this serine esterase protein domain motif without retaining the active center of the enzyme. ..
- Mirel D, Chamberlin M. The Bacillus subtilis flagellin gene (hag) is transcribed by the sigma 28 form of RNA polymerase. J Bacteriol. 1989;171:3095-101 pubmed..subtilis cells entered the stationary phase. The transcript levels then decreased to zero within 4 h after the onset of sporulation. Hence, sigma 28 RNA polymerase function is temporally regulated. ..
- Zhou Q, Chen D, Pierstorff E, Luo K. Transcription elongation factor P-TEFb mediates Tat activation of HIV-1 transcription at multiple stages. EMBO J. 1998;17:3681-91 pubmed..Our data indicate that the various subunits of the human P-TEFb complex may play distinct roles at multiple stages to mediate Tat activation of HIV-1 transcription elongation. ..
- Kidd T, Bland K, Goodman C. Slit is the midline repellent for the robo receptor in Drosophila. Cell. 1999;96:785-94 pubmed..Slit appears to function as a short-range repellent controlling axon crossing of the midline and as a long-range chemorepellent controlling mesoderm migration away from the midline. ..
- Crowder S, Kanaar R, Rio D, Alber T. Absence of interdomain contacts in the crystal structure of the RNA recognition motifs of Sex-lethal. Proc Natl Acad Sci U S A. 1999;96:4892-7 pubmed..Therefore, the observed specificity for single-stranded, U-rich sequences does not arise from a predefined, rigid architecture of the isolated SXL RRMs. ..
- Rodal A, Tetreault J, Lappalainen P, Drubin D, Amberg D. Aip1p interacts with cofilin to disassemble actin filaments. J Cell Biol. 1999;145:1251-64 pubmed..We conclude that Aip1p is a cofilin-associated protein that enhances the filament disassembly activity of cofilin and restricts cofilin localization to cortical actin patches. ..
- Miller W, Leveau J, Lindow S. Improved gfp and inaZ broad-host-range promoter-probe vectors. Mol Plant Microbe Interact. 2000;13:1243-50 pubmed..The vector suite was augmented with derivatives of the kanamycin-resistant gfp promoter-probe plasmids that encode Gfp variants with different half-life times. ..
- Zhou B, Bagri A, Beckendorf S. Salivary gland determination in Drosophila: a salivary-specific, fork head enhancer integrates spatial pattern and allows fork head autoregulation. Dev Biol. 2001;237:54-67 pubmed publisher..Instead, several genes independently sense spatial information and cooperate to define the salivary placode...
- Williams S, Senaratne R, Mougous J, Riley L, Bertozzi C. 5'-adenosinephosphosulfate lies at a metabolic branch point in mycobacteria. J Biol Chem. 2002;277:32606-15 pubmed..coli, confirming the ability of this organism to make PAPS. The expression of recombinant M. tuberculosis APS kinase provides a means for the discovery of inhibitors of this enzyme and thus of the biosynthesis of SL-1. ..
- Raj S, Liu F. Engineering of RNase P ribozyme for gene-targeting applications. Gene. 2003;313:59-69 pubmed..This review discusses the principle underlying M1GS-mediated gene inactivation and methodologies involved in effective M1GS construction, expression in vivo and emerging prospects of this technology for gene therapy. ..
- Shin D, Nguyen H, Jancarik J, Yokota H, Kim R, Kim S. Crystal structure of NusA from Thermotoga maritima and functional implication of the N-terminal domain. Biochemistry. 2003;42:13429-37 pubmed publisher..Structural comparison between TmNusA and Mycobacterium tuberculosis NusA reveals a possible hinge motion between NTD and RBD. In addition, a functional implication of the NTD in its interaction with RNA polymerase is discussed...
- Kingsley C, Winoto A. Cloning of GT box-binding proteins: a novel Sp1 multigene family regulating T-cell receptor gene expression. Mol Cell Biol. 1992;12:4251-61 pubmed..As the GT box has also previously been shown to play a role in gene regulation of other genes, these newly isolated Sp2 and Sp3 proteins might regulate expression not only of the TCR gene but of other genes as well. ..
- Mahoney P, Weber U, Onofrechuk P, Biessmann H, Bryant P, Goodman C. The fat tumor suppressor gene in Drosophila encodes a novel member of the cadherin gene superfamily. Cell. 1991;67:853-68 pubmed..Thus, this novel member of the cadherin gene superfamily functions as a tumor suppressor gene and is required for correct morphogenesis. ..
- Milligan D, Koshland D. The amino terminus of the aspartate chemoreceptor is formylmethionine. J Biol Chem. 1990;265:4455-60 pubmed..The stability of the amino-terminal formyl group on the receptor may be a consequence of the membrane localization of the receptor and the dependence of this localization on the membrane transport machinery of the cell. ..
- Tartaglia L, Storz G, Ames B. Identification and molecular analysis of oxyR-regulated promoters important for the bacterial adaptation to oxidative stress. J Mol Biol. 1989;210:709-19 pubmed..coli oxyR gene itself. ..
- Tomlinson A, Kimmel B, Rubin G. rough, a Drosophila homeobox gene required in photoreceptors R2 and R5 for inductive interactions in the developing eye. Cell. 1988;55:771-84 pubmed..Taken together, our results suggest that the role of the rough gene product may be to regulate the sending of signals by photoreceptors R2 and R5 to their neighbors in the developing ommatidia. ..
- Clark H, Brentrup D, Schneitz K, Bieber A, Goodman C, Noll M. Dachsous encodes a member of the cadherin superfamily that controls imaginal disc morphogenesis in Drosophila. Genes Dev. 1995;9:1530-42 pubmed
- Irving J, Chang L, Castillo F. A reverse transcriptase-polymerase chain reaction assay for the detection and quantitation of murine retroviruses. Biotechnology (N Y). 1993;11:1042-6 pubmed..This assay can be adapted to detect and quantitate any viral contaminant in cell culture supernatants, ascites fluids, process validation samples, and final products...
- Harrison S, Broadie K, van de Goor J, Rubin G. Mutations in the Drosophila Rop gene suggest a function in general secretion and synaptic transmission. Neuron. 1994;13:555-66 pubmed..These data suggest that a member of the Sec1p class of proteins has an in vivo function in both general secretion and synaptic transmission. ..
- Ashby M, Errada P, Boyartchuk V, Rine J. Isolation and DNA sequence of the STE14 gene encoding farnesyl cysteine: carboxyl methyltransferase. Yeast. 1993;9:907-13 pubmed..In comparisons of the C-terminal methyltransferase amino acid sequence with those in the PIR and Swiss protein databases, no significantly similar sequences were found nor were conserved regions from other methyltransferases present. ..
- Wilbanks S, Glazer A. Rod structure of a phycoerythrin II-containing phycobilisome. II. Complete sequence and bilin attachment site of a phycoerythrin gamma subunit. J Biol Chem. 1993;268:1236-41 pubmed..These differences in linker polypeptide structure offer a possible explanation for the observed much higher stability of PE II hexamers relative to those of C-phycoerythrins...
- Salama N, Chuang J, Schekman R. Sec31 encodes an essential component of the COPII coat required for transport vesicle budding from the endoplasmic reticulum. Mol Biol Cell. 1997;8:205-17 pubmed..Sec31p is a phosphoprotein and treatment of the Sec31p-containing fraction with alkaline phosphatase results in a 50-75% inhibition of transport vesicle formation activity in an ER membrane budding assay. ..
- Fu H, Luan S. AtKuP1: a dual-affinity K+ transporter from Arabidopsis. Plant Cell. 1998;10:63-73 pubmed..We conclude that the AtKUP1 gene product may function as a K+ transporter in Arabidopsis roots over a broad range of [K+] in the soil. ..
- Nurrish S, Segalat L, Kaplan J. Serotonin inhibition of synaptic transmission: Galpha(0) decreases the abundance of UNC-13 at release sites. Neuron. 1999;24:231-42 pubmed
- Burma S, Chen D. Role of DNA-PK in the cellular response to DNA double-strand breaks. DNA Repair (Amst). 2004;3:909-18 pubmed..The many roles of DNA-PK in the mammalian cell are discussed in this review with particular emphasis on recent advances in our understanding of the phosphorylation events that take place during the activation of DNA-PK at DNA breaks. ..
- Hammer G, Gonzalez F, Champsaur M, Cado D, Shastri N. The aminopeptidase ERAAP shapes the peptide repertoire displayed by major histocompatibility complex class I molecules. Nat Immunol. 2006;7:103-12 pubmed..Thus, trimming of antigenic peptides by ERAAP in the endoplasmic reticulum is essential for the generation of the normal repertoire of processed peptides. ..
- Seeliger M, Nagar B, Frank F, Cao X, Henderson M, Kuriyan J. c-Src binds to the cancer drug imatinib with an inactive Abl/c-Kit conformation and a distributed thermodynamic penalty. Structure. 2007;15:299-311 pubmed..Two mutations that are expected to destabilize the inactive Src/CDK conformation increase drug sensitivity 15-fold, suggesting that the free-energy balance between different inactive states is a key to imatinib binding. ..
- Scott A, Simon E, Park S, Andrews P, Zusman D. Site-specific receptor methylation of FrzCD in Myxococcus xanthus is controlled by a tetra-trico peptide repeat (TPR) containing regulatory domain of the FrzF methyltransferase. Mol Microbiol. 2008;69:724-35 pubmed publisher..xanthus behaviour and that the pattern of receptor methylation determined receptor activity. This work also shows that methylation can both activate and inactivate the receptor. ..
- Friebe P, Harris E. Interplay of RNA elements in the dengue virus 5' and 3' ends required for viral RNA replication. J Virol. 2010;84:6103-18 pubmed publisher..We also show that the UAR, DAR, cHP, and CS must act in concert and therefore likely function together to form the tertiary RNA structure of the circularized DENV genome. ..
- Ellison C, Hall C, Kowbel D, Welch J, Brem R, Glass N, et al. Population genomics and local adaptation in wild isolates of a model microbial eukaryote. Proc Natl Acad Sci U S A. 2011;108:2831-6 pubmed publisher..4°-10.6° difference in latitude between the populations may be another important environmental parameter. ..
- Fortin D, Dunn T, Fedorchak A, Allen D, Montpetit R, Banghart M, et al. Optogenetic photochemical control of designer K+ channels in mammalian neurons. J Neurophysiol. 2011;106:488-96 pubmed publisher..These light-regulated channels may be overexpressed in genetically targeted neurons or substituted for native channels with gene knockin technology to enable precise optopharmacological manipulation of channel function. ..
- Graham J, Clark M, Nadler D, Huffer S, Chokhawala H, Rowland S, et al. Identification and characterization of a multidomain hyperthermophilic cellulase from an archaeal enrichment. Nat Commun. 2011;2:375 pubmed publisher..Cellulases active above 100 °C may assist in biofuel production from lignocellulosic feedstocks by hydrolysing cellulose under conditions typically employed in biomass pretreatment. ..
- Hartung S, Arvai A, Wood T, Kolappan S, Shin D, Craig L, et al. Ultrahigh resolution and full-length pilin structures with insights for filament assembly, pathogenic functions, and vaccine potential. J Biol Chem. 2011;286:44254-65 pubmed publisher..tularensis virulence. Combined results define a unified pilin architecture, specialized subdomain roles in pilus assembly and function, and potential therapeutic targets...
- Dimri G, Rudd K, Morgan M, Bayat H, Ames G. Physical mapping of repetitive extragenic palindromic sequences in Escherichia coli and phylogenetic distribution among Escherichia coli strains and other enteric bacteria. J Bacteriol. 1992;174:4583-93 pubmed..coli. A search for these sequences in other members of the family Enterobacteriaceae shows a consistent correlation between both the number of occurrences and the hybridization strength and genealogical relationship. ..
- Mahajan S, Chu C, Willis D, Templin A, Clark A. Physical analysis of spontaneous and mutagen-induced mutants of Escherichia coli K-12 expressing DNA exonuclease VIII activity. Genetics. 1990;125:261-73 pubmed..These are presumed point mutations. Three seem to produce additional restriction nucleotide fragments complementary to lambda rev. The possible nature of these sbc mutations is discussed. ..
- Melcher M, Thorner J. Identification and characterization of the CLK1 gene product, a novel CaM kinase-like protein kinase from the yeast Saccharomyces cerevisiae. J Biol Chem. 1996;271:29958-68 pubmed..A clk1Delta mutant, a clk1Delta rck1Delta double mutant, a clk1Delta cmk1Delta cmk2Delta triple mutant, and a clk1Delta rck1Delta cmk1Delta cmk2Delta quadruple mutant were all viable and manifested no other overt growth phenotype. ..
- Bertorelle G, Excoffier L. Inferring admixture proportions from molecular data. Mol Biol Evol. 1998;15:1298-311 pubmed..We apply our new estimator to the case of admixed wolflike Canid populations tested for microsatellite data. ..
- Kudla J, Xu Q, Harter K, Gruissem W, Luan S. Genes for calcineurin B-like proteins in Arabidopsis are differentially regulated by stress signals. Proc Natl Acad Sci U S A. 1999;96:4718-23 pubmed..Our data suggest that AtCBL1 may act as a regulatory subunit of a plant calcineurin-like activity mediating calcium signaling under certain stress conditions. ..
- Jacobson R, Ladurner A, King D, Tjian R. Structure and function of a human TAFII250 double bromodomain module. Science. 2000;288:1422-5 pubmed..Thus, TFIID may be targeted to specific chromatin-bound promoters and may play a role in chromatin recognition. ..
- Lin M, Napoli J. cDNA cloning and expression of a human aldehyde dehydrogenase (ALDH) active with 9-cis-retinal and identification of a rat ortholog, ALDH12. J Biol Chem. 2000;275:40106-12 pubmed..Intense ALDH12 mRNA expression in adult and fetal liver and kidney, two organs that reportedly have relatively high concentrations of 9-cis-retinol, reinforces this notion. ..
- Zang X, Loke P, Kim J, Murphy K, Waitz R, Allison J. B7x: a widely expressed B7 family member that inhibits T cell activation. Proc Natl Acad Sci U S A. 2003;100:10388-92 pubmed..These studies identify a costimulatory pathway that may have a unique function in downregulation of tissue-specific autoimmunity and antitumor responses. ..
- Fennell Fezzie R, Gradia S, Akey D, Berger J. The MukF subunit of Escherichia coli condensin: architecture and functional relationship to kleisins. EMBO J. 2005;24:1921-30 pubmed..Our findings, together with sequence analyses, indicate that MukF is a kleisin subunit for E. coli condensin and suggest a means by which it may organize the MukBEF assembly. ..
- Zhang S, Kuo D, Weisblat D. Grandparental stem cells in leech segmentation: differences in CDC42 expression are correlated with an alternating pattern of blast cell fates. Dev Biol. 2009;336:112-21 pubmed publisher..Our results also provide an example in which asymmetries in the distribution of Cdc42 activity, rather than in the overall levels of Cdc42 protein, are important regulating unequal divisions in animal cells. ..
- Blanchard N, Kanaseki T, Escobar H, Delebecque F, Nagarajan N, Reyes Vargas E, et al. Endoplasmic reticulum aminopeptidase associated with antigen processing defines the composition and structure of MHC class I peptide repertoire in normal and virus-infected cells. J Immunol. 2010;184:3033-42 pubmed publisher..Thus, the characteristic length, as well as the composition of MHC-I peptide cargo, is determined not only by the MHC-I peptide-binding groove but also by ERAAP proteolysis in the endoplasmic reticulum. ..
- Egan E, Collins K. Specificity and stoichiometry of subunit interactions in the human telomerase holoenzyme assembled in vivo. Mol Cell Biol. 2010;30:2775-86 pubmed publisher..This study uncovers unexpected similarities but also differences between telomerase and other H/ACA RNPs that allow a unique specificity of telomerase biogenesis and regulation. ..
- Kishimoto T, Sun Y, Buser C, Liu J, Michelot A, Drubin D. Determinants of endocytic membrane geometry, stability, and scission. Proc Natl Acad Sci U S A. 2011;108:E979-88 pubmed publisher..Together, our results reveal that dynamic interplay between a lipid phosphatase, actin assembly, and membrane-sculpting proteins leads to proper membrane shaping, tubule stabilization, and scission. ..
- Bánfai B, Jia H, Khatun J, Wood E, Risk B, Gundling W, et al. Long noncoding RNAs are rarely translated in two human cell lines. Genome Res. 2012;22:1646-57 pubmed publisher..We conclude that with very few exceptions, ribosomes are able to distinguish coding from noncoding transcripts and, hence, that ectopic translation and cryptic mRNAs are rare in the human lncRNAome. ..
- Roche C, Blanch H, Clark D, Glass N. Physiological role of Acyl coenzyme A synthetase homologs in lipid metabolism in Neurospora crassa. Eukaryot Cell. 2013;12:1244-57 pubmed publisher..The N. crassa ACSs involved in activation of FAs for catabolism were not specifically defined, presumably due to functional redundancy of several of ACSs for catabolism of exogenous FAs. ..
- Chen H, England L, Kane C. Characterization of a HeLa cDNA clone encoding the human SII protein, an elongation factor for RNA polymerase II. Gene. 1992;116:253-8 pubmed..A comparison of deduced amino acid sequences for SII-related proteins from a variety of eukaryotes demonstrates very high similarity, especially within the C-terminal domain. ..
- Janes S, Palcic M, Scaman C, Smith A, Brown D, Dooley D, et al. Identification of topaquinone and its consensus sequence in copper amine oxidases. Biochemistry. 1992;31:12147-54 pubmed..2) and at 575-587 nm in basic solution (1-2 M KOH). These spectral properties, which appear unique to topaquinone, provide a rapid and simple test for the presence of this cofactor in intact enzymes.(ABSTRACT TRUNCATED AT 250 WORDS) ..
- Stephens R, Wagar E, Edman U. Developmental regulation of tandem promoters for the major outer membrane protein gene of Chlamydia trachomatis. J Bacteriol. 1988;170:744-50 pubmed..Mapping of the initiating nucleotide for each transcript suggested that this gene is regulated by differential transcription from tandem promoters...
- Bera T, Guzman R, Miyamoto S, Panda D, Sasaki M, Hanyu K, et al. Identification of a mammary transforming gene (MAT1) associated with mouse mammary carcinogenesis. Proc Natl Acad Sci U S A. 1994;91:9789-93 pubmed..In vitro transcription and translation of the clone shows a protein product of 6000 Da, which agrees with the predicted open reading frame. ..
- Murata L, Schachman H. Structural similarity between ornithine and aspartate transcarbamoylases of Escherichia coli: characterization of the active site and evidence for an interdomain carboxy-terminal helix in ornithine transcarbamoylase. Protein Sci. 1996;5:709-18 pubmed..These results strongly support the hypothesis that the tertiary and quaternary structures of the two enzymes are similar. ..
- Hirai Y, Lochter A, Galosy S, Koshida S, Niwa S, Bissell M. Epimorphin functions as a key morphoregulator for mammary epithelial cells. J Cell Biol. 1998;140:159-69 pubmed..These results suggest that epimorphin is the primary morphogen in the mammary gland but that growth factors are necessary to achieve the appropriate cell numbers for the resulting morphogenesis to be visualized. ..
- Clark A, Inwood W, Cloutier T, Dhillon T. Nucleotide sequence of coliphage HK620 and the evolution of lambdoid phages. J Mol Biol. 2001;311:657-79 pubmed..We propose that these boundary sequences are foci of genetic recombination that serve to assort the modules and make the metabolic domain highly mosaic genetically...
- Rajpal A, Cho Y, Yelent B, Koza Taylor P, Li D, Chen E, et al. Transcriptional activation of known and novel apoptotic pathways by Nur77 orphan steroid receptor. EMBO J. 2003;22:6526-36 pubmed..Thus Nur77-mediated apoptosis in T cells involves Bcl-2 independent transcriptional activation of several known and novel apoptotic pathways. ..
- Lai E, Tam B, Rubin G. Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs. Genes Dev. 2005;19:1067-80 pubmed..Collectively, these data establish insights into miRNA target recognition and demonstrate that the Notch signaling pathway is a major target of miRNA-mediated regulation in Drosophila. ..
- Conant C, Stephens R. Chlamydia attachment to mammalian cells requires protein disulfide isomerase. Cell Microbiol. 2007;9:222-32 pubmed..The cell line was also resistant to diphtheria toxin and required complemented cell-surface PDI for toxin entry. These data demonstrate that native PDI at the cell surface is required for effective chlamydial attachment and infectivity. ..
- Liubicich D, Serano J, Pavlopoulos A, Kontarakis Z, Protas M, Kwan E, et al. Knockdown of Parhyale Ultrabithorax recapitulates evolutionary changes in crustacean appendage morphology. Proc Natl Acad Sci U S A. 2009;106:13892-6 pubmed publisher..These results provide critical evidence supporting the proposition that changes in Ubx expression have played a role in generating crustacean appendage diversity and lend general insights into the mechanisms of morphological evolution. ..
- Sletten E, Bertozzi C. Bioorthogonal chemistry: fishing for selectivity in a sea of functionality. Angew Chem Int Ed Engl. 2009;48:6974-98 pubmed publisher..Herein we describe the bioorthogonal chemical reactions developed to date and how they can be used to study biomolecules. ..
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