Experts and Doctors on sequence alignment in Chapel Hill, North Carolina, United States

Summary

Locale: Chapel Hill, North Carolina, United States
Topic: sequence alignment

Top Publications

  1. Bocock J, Carmicle S, Chhotani S, Ruffolo M, Chu H, Erickson A. The PA-TM-RING protein RING finger protein 13 is an endosomal integral membrane E3 ubiquitin ligase whose RING finger domain is released to the cytoplasm by proteolysis. FEBS J. 2009;276:1860-77 pubmed publisher
    ..Proteolytic release of RNF13 from a membrane anchor thus provides unique spatial and temporal regulation that has not been previously described for an endosomal E3 ubiquitin ligase. ..
  2. Cabanski C, Cavin K, Bizon C, Wilkerson M, Parker J, Wilhelmsen K, et al. ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data. BMC Bioinformatics. 2012;13:221 pubmed
    ..ReQON produces a new BAM file with more accurate quality scores, which can improve the results of downstream analysis, and produces several diagnostic plots showing the effectiveness of the recalibration. ..
  3. Wen Y, Richardson R, Widgren E, O Rand M. Characterization of Sp17: a ubiquitous three domain protein that binds heparin. Biochem J. 2001;357:25-31 pubmed
    ..The Sp17 gene is induced in metastatic cells and during mucosal immune responses, and the protein appears to play an important role in cell migration and/or adhesion in somatic cells, as well as in male germ cells...
  4. Bullard J, Cai Y, Spremulli L. Expression and characterization of the human mitochondrial leucyl-tRNA synthetase. Biochim Biophys Acta. 2000;1490:245-58 pubmed
    ..coli tRNA(Leu). Its activity is inhibited at high levels of either monovalent or divalent cations. K(M) and k(cat) values for ATP:PP(i) exchange and for the aminoacylation reaction have been determined. ..
  5. Schaaf G, Dynowski M, Mousley C, Shah S, Yuan P, Winklbauer E, et al. Resurrection of a functional phosphatidylinositol transfer protein from a pseudo-Sec14 scaffold by directed evolution. Mol Biol Cell. 2011;22:892-905 pubmed publisher
  6. Yenugu S, Chintalgattu V, Wingard C, Radhakrishnan Y, French F, Hall S. Identification, cloning and functional characterization of novel beta-defensins in the rat (Rattus norvegicus). Reprod Biol Endocrinol. 2006;4:7 pubmed
    ..They are developmentally regulated and androgen is required for full expression in the adult epididymis. ..
  7. Eletr Z, Kuhlman B. Sequence determinants of E2-E6AP binding affinity and specificity. J Mol Biol. 2007;369:419-28 pubmed
    ..This result indicates that E2-E3 binding specificities are a function of both favorable interactions that promote binding, and unfavorable interactions that prevent binding with unwanted partners. ..
  8. Freeman T, Black J, Bray H, Dagliyan O, Wu Y, Tripathy A, et al. Identification of novel integrin binding partners for calcium and integrin binding protein 1 (CIB1): structural and thermodynamic basis of CIB1 promiscuity. Biochemistry. 2013;52:7082-90 pubmed publisher
    ..These new mechanistic details of CIB1-integrin binding imply that CIB1 could bind to all integrin complexes and act as a broad regulator of integrin function. ..
  9. Bass A, Lawrence M, Brace L, Ramos A, Drier Y, Cibulskis K, et al. Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A-TCF7L2 fusion. Nat Genet. 2011;43:964-968 pubmed publisher
    ..This study shows previously unidentified levels of genomic rearrangements in colorectal carcinoma that can lead to essential gene fusions and other oncogenic events. ..

More Information

Publications95

  1. Hand R, Bortone D, Mattar P, Nguyen L, Heng J, Guerrier S, et al. Phosphorylation of Neurogenin2 specifies the migration properties and the dendritic morphology of pyramidal neurons in the neocortex. Neuron. 2005;48:45-62 pubmed
  2. Turner P, Thomas C, Stojiljkovic I, Elkins C, Kizel G, Ala Aldeen D, et al. Neisserial TonB-dependent outer-membrane proteins: detection, regulation and distribution of three putative candidates identified from the genome sequences. Microbiology. 2001;147:1277-90 pubmed publisher
    ..Furthermore, TdfH is worthy of future investigation as a potential meningococcal vaccine candidate as it is a highly conserved, widely distributed and surface-exposed outer-membrane protein...
  3. Cavdar Koc E, Blackburn K, Burkhart W, Spremulli L. Identification of a mammalian mitochondrial homolog of ribosomal protein S7. Biochem Biophys Res Commun. 1999;266:141-6 pubmed
    ..Significant homology to bacterial S7 is observed especially in the C-terminal half of the protein. Surprisingly, MRP S7(human) shows less homology to the corresponding mitochondrial proteins from plants and fungi than to bacterial S7. ..
  4. Harkins H, Page N, Schenkman L, De Virgilio C, Shaw S, Bussey H, et al. Bud8p and Bud9p, proteins that may mark the sites for bipolar budding in yeast. Mol Biol Cell. 2001;12:2497-518 pubmed
    ..Surprisingly, Bud8p localization to the presumptive bud site and bud tip also depends on actin but is independent of the septins. ..
  5. Richardson R, Bencic D, O Rand M. Comparison of mouse and human NASP genes and expression in human transformed and tumor cell lines. Gene. 2001;274:67-75 pubmed
    ..Additionally, we report that human somatic and testis NASP mRNAs are expressed at varying levels in all the transformed cell lines and human tumors tested, further supporting NASP's role in the cell cycle of dividing cells. ..
  6. Lei Y, Wen H, Yu Y, Taxman D, Zhang L, Widman D, et al. The mitochondrial proteins NLRX1 and TUFM form a complex that regulates type I interferon and autophagy. Immunity. 2012;36:933-46 pubmed publisher
    ..This study establishes a link between an NLR protein and the viral-induced autophagic machinery via an intermediary partner, TUFM. ..
  7. Damania B, Jeong J, Bowser B, DeWire S, Staudt M, Dittmer D. Comparison of the Rta/Orf50 transactivator proteins of gamma-2-herpesviruses. J Virol. 2004;78:5491-9 pubmed
    ..These results suggest that the core functionality of Rta/Orf50 is conserved and independent of its host, but the human protein has evolved additional, human-specific capabilities...
  8. Yancey J, Matson S. The DNA unwinding reaction catalyzed by Rep protein is facilitated by an RHSP-DNA interaction. Nucleic Acids Res. 1991;19:3943-51 pubmed
    ..Several models are put forth to explain the stimulation of the unwinding reaction catalyzed by Rep protein. In addition, the potential physiological significance of the RHSP-stimulated Rep protein unwinding reaction is discussed. ..
  9. Johnston C, Temple B, Chen J, Gao Y, Moriyama E, Jones A, et al. Comment on "A G protein coupled receptor is a plasma membrane receptor for the plant hormone abscisic acid". Science. 2007;318:914; author reply 914 pubmed
    ..We argue that GCR2 is not likely to be a transmembrane protein nor a G protein-coupled receptor. Instead, GCR2 is most likely a plant homolog of bacterial lanthionine synthetases. ..
  10. Ni H, Wang X, Diener K, Yao Z. MAPKAPK5, a novel mitogen-activated protein kinase (MAPK)-activated protein kinase, is a substrate of the extracellular-regulated kinase (ERK) and p38 kinase. Biochem Biophys Res Commun. 1998;243:492-6 pubmed
    ..Phosphorylation of MAPKAPK5 by ERK and p38 kinase increased its activity by 9 and 15 fold respectively. Taken together, these data suggest that MAPKAPK5 is a novel in vitro substrate for ERK and p38 kinase. ..
  11. Zhou Y, Wing M, Sondek J, Harden T. Molecular cloning and characterization of PLC-eta2. Biochem J. 2005;391:667-76 pubmed
    ..Co-expression of PLC-eta2 with Gbeta1gamma2 dimers of heterotrimeric G-proteins resulted in marked stimulation of inositol lipid hydrolysis. Thus PLC-eta2 may in part function downstream of G-protein-coupled receptors. ..
  12. Chenette E, Abo A, Der C. Critical and distinct roles of amino- and carboxyl-terminal sequences in regulation of the biological activity of the Chp atypical Rho GTPase. J Biol Chem. 2005;280:13784-92 pubmed
    ..In summary, Chp is implicated in cell transformation, and the unique amino and carboxyl termini of Chp represent atypical mechanisms of regulation of Rho GTPase function. ..
  13. Smith F, Oxford G, Milgram S. Association of the D2 dopamine receptor third cytoplasmic loop with spinophilin, a protein phosphatase-1-interacting protein. J Biol Chem. 1999;274:19894-900 pubmed
    ..We hypothesize that spinophilin is important for establishing a signaling complex for dopaminergic neurotransmission through D2 receptors by linking receptors to downstream signaling molecules and the actin cytoskeleton. ..
  14. Arthur W, Ellerbroek S, Der C, Burridge K, Wennerberg K. XPLN, a guanine nucleotide exchange factor for RhoA and RhoB, but not RhoC. J Biol Chem. 2002;277:42964-72 pubmed
    ..In conclusion, here we describe a Rho family GEF that can discriminate between the closely related RhoA, RhoB, and RhoC, possibly giving insight to the divergent functions of these three proteins. ..
  15. Cooley M, Broome J, Ohngemach C, Romer L, Schaller M. Paxillin binding is not the sole determinant of focal adhesion localization or dominant-negative activity of focal adhesion kinase/focal adhesion kinase-related nonkinase. Mol Biol Cell. 2000;11:3247-63 pubmed
    ..Furthermore, the paxillin-binding activity of FRNK mutants did not correlate with their ability to inhibit FAK, suggesting that FRNK has other targets in addition to paxillin. ..
  16. Ropp P, Traut T. Cloning and expression of a cDNA encoding uridine kinase from mouse brain. Arch Biochem Biophys. 1996;336:105-12 pubmed
    ..We have also isolated and cloned a nonfunctional, processed pseudogene from mouse genomic DNA. This pseudogene sequence is 94% identical with the coding DNA. ..
  17. Melvin J, Scheller E, Noël C, Cotter P. New Insight into Filamentous Hemagglutinin Secretion Reveals a Role for Full-Length FhaB in Bordetella Virulence. MBio. 2015;6: pubmed publisher
  18. Reinhardt J, Baltrus D, Nishimura M, Jeck W, Jones C, Dangl J. De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae. Genome Res. 2009;19:294-305 pubmed publisher
    ..syringae pan-genome, a corresponding contraction of the core genome, and a further diversification of the type III effector complement for this important plant pathogen species. ..
  19. Snyder J, Worthylake D, Rossman K, Betts L, Pruitt W, Siderovski D, et al. Structural basis for the selective activation of Rho GTPases by Dbl exchange factors. Nat Struct Biol. 2002;9:468-75 pubmed
  20. Wang H, Liu Y, Chen Y, Robinson H, Ke H. Multiple elements jointly determine inhibitor selectivity of cyclic nucleotide phosphodiesterases 4 and 7. J Biol Chem. 2005;280:30949-55 pubmed
    ..The triple S373Y/S377T/I412S mutation of PDE7A1 produces a PDE4-like enzyme, implying that multiple elements must work together to determine inhibitor selectivity. ..
  21. Choi K, Gomez S. Comparison of phylogenetic trees through alignment of embedded evolutionary distances. BMC Bioinformatics. 2009;10:423 pubmed publisher
    ..These approaches provide additional tools for the study of phylogenetic trees and associated evolutionary processes. Source code is available at http://gomezlab.bme.unc.edu/tools. ..
  22. Ball C, Solem A, Meganck R, Laederach A, Ramos S. Impact of RNA structure on ZFP36L2 interaction with luteinizing hormone receptor mRNA. RNA. 2017;23:1209-1223 pubmed publisher
    ..Collectively, our results suggest that a combination of minimal ARE sequence, placement of the ARE in a hairpin loop, and stem flexibility mediate high-affinity L2 binding to hLHR mRNA. ..
  23. Holmes S, Erie D. Downstream DNA sequence effects on transcription elongation. Allosteric binding of nucleoside triphosphates facilitates translocation via a ratchet motion. J Biol Chem. 2003;278:35597-608 pubmed
    ..This model provides an alternative mechanism for pausing as well as a structural explanation not only for our kinetic data but also for data from elongation studies on yeast RNAP II. ..
  24. Brown D, Christine K, Showell C, Conlon F. Small heat shock protein Hsp27 is required for proper heart tube formation. Genesis. 2007;45:667-78 pubmed
    ..Moreover, these defects are not associated with alterations in specification or differentiation. We have thus demonstrated a critical requirement for XHSP27 in developing cardiac and skeletal muscle tissues. ..
  25. Askew E, Bai S, Hnat A, Minges J, Wilson E. Melanoma antigen gene protein-A11 (MAGE-11) F-box links the androgen receptor NH2-terminal transactivation domain to p160 coactivators. J Biol Chem. 2009;284:34793-808 pubmed publisher
    ..The results suggest that MAGE-11 functions as a bridging factor to recruit AR coactivators through a novel FXX(L/I)F motif-F-box interaction paradigm. ..
  26. Willard F, McCudden C, Siderovski D. G-protein alpha subunit interaction and guanine nucleotide dissociation inhibitor activity of the dual GoLoco motif protein PCP-2 (Purkinje cell protein-2). Cell Signal. 2006;18:1226-34 pubmed
    ..Collectively, the data demonstrate that PCP-2 is a comparatively weak GoLoco motif protein that exhibits highest affinity interactions and GDI activity toward Galphai1, Galphai2, and Galphai3 subunits. ..
  27. Ren J, Schaaf G, Bankaitis V, Ortlund E, Pathak M. Crystallization and preliminary X-ray diffraction analysis of Sfh3, a member of the Sec14 protein superfamily. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011;67:1239-43 pubmed publisher
  28. Tsai Y, Weir N, Hill K, Zhang W, Kim H, Shiu S, et al. Characterization of genes involved in cytokinin signaling and metabolism from rice. Plant Physiol. 2012;158:1666-84 pubmed publisher
    ..Our results support a shared role for two-component elements in mediating cytokinin signaling in monocots and dicots and reveal how phytohormones can impact cytokinin function through modulating gene expression. ..
  29. Malhotra K, Nicholas R. Substitution of lysine 213 with arginine in penicillin-binding protein 5 of Escherichia coli abolishes D-alanine carboxypeptidase activity without affecting penicillin binding. J Biol Chem. 1992;267:11386-91 pubmed
  30. Edavettal S, Carrick K, Shah R, Pedersen L, Tropsha A, Pope R, et al. A conformational change in heparan sulfate 3-O-sulfotransferase-1 is induced by binding to heparan sulfate. Biochemistry. 2004;43:4680-8 pubmed
    ..The results from this study will contribute to our understanding of the interactions between 3-OSTs and HS. ..
  31. Hewitt F, Li C, Gray S, Cockrell S, Washburn M, Samulski R. Reducing the risk of adeno-associated virus (AAV) vector mobilization with AAV type 5 vectors. J Virol. 2009;83:3919-29 pubmed publisher
    ..Based on these data and the relative prevalence of wt AAV serotypes in the population, we propose that TR5 vectors have a significantly lower risk of mobilization and should be considered for clinical use. ..
  32. Zand T, Reiner D, Der C. Ras effector switching promotes divergent cell fates in C. elegans vulval patterning. Dev Cell. 2011;20:84-96 pubmed publisher
    ..Our observations define the utility of Ras effector switching during normal development and may provide a possible mechanistic basis for cell and cancer-type differences in effector dependency and activation. ..
  33. Belanger K, Wyman A, Sudol M, Singla Pareek S, Quatrano R. A signal peptide secretion screen in Fucus distichus embryos reveals expression of glucanase, EGF domain-containing, and LRR receptor kinase-like polypeptides during asymmetric cell growth. Planta. 2003;217:931-50 pubmed
    ..The isolation of cDNAs encoding secreted Fucus proteins provides an important step toward characterizing cell surface proteins important for asymmetric organization and growth in fucoid embryos...
  34. Erickson L, Kim H, Maeda N. Junctions between genes in the haptoglobin gene cluster of primates. Genomics. 1992;14:948-58 pubmed
    ..The observation that Alu sequences define the junctions between genes in the haptoglobin gene cluster emphasizes the importance of Alu sequences in the evolution of multigene families. ..
  35. Waldo G, Paterson A, Boyer J, Nicholas R, Harden T. Molecular cloning, expression and regulatory activity of G alpha 11- and beta gamma-subunit-stimulated phospholipase C-beta from avian erythrocytes. Biochem J. 1996;316 ( Pt 2):559-68 pubmed
    ..The turkey PLC-beta was more sensitive to activation by G alpha 11 than was PLC-beta 2, and was more sensitive to activation by beta gamma-subunits than either PLC-beta 2 or PLC-beta 1. ..
  36. Chhatriwala M, Betts L, Worthylake D, Sondek J. The DH and PH domains of Trio coordinately engage Rho GTPases for their efficient activation. J Mol Biol. 2007;368:1307-20 pubmed
  37. Luquain C, Singh A, Wang L, Natarajan V, Morris A. Role of phospholipase D in agonist-stimulated lysophosphatidic acid synthesis by ovarian cancer cells. J Lipid Res. 2003;44:1963-75 pubmed
    ..Our results identify a novel role for nucleotides in the regulation of ovarian cancer cells and suggest an indirect but critical function for PLD2 in agonist-stimulated LPA production. ..
  38. Sivashanmugam P, Hall S, Hamil K, French F, O Rand M, Richardson R. Characterization of mouse Eppin and a gene cluster of similar protease inhibitors on mouse chromosome 2. Gene. 2003;312:125-34 pubmed
    ..Our results demonstrate that mouse chromosome 2 contains a conserved linkage of Eppin-like protease inhibitor genes that are expressed in the epididymis. ..
  39. Navratil T, Spremulli L. Effects of mutagenesis of Gln97 in the switch II region of Escherichia coli elongation factor Tu on its interaction with guanine nucleotides, elongation factor Ts, and aminoacyl-tRNA. Biochemistry. 2003;42:13587-95 pubmed
    ..Strikingly, the Q97P variant was completely inactive in ternary complex formation, accounting for its inability to function in polymerization. The structural basis of these observations is discussed. ..
  40. Peters M, O Brien K, Sadoulet Puccio H, Kunkel L, Adams M, Froehner S. beta-dystrobrevin, a new member of the dystrophin family. Identification, cloning, and protein associations. J Biol Chem. 1997;272:31561-9 pubmed
  41. Miley M, Zielinska A, Keenan J, Bratton S, Radominska Pandya A, Redinbo M. Crystal structure of the cofactor-binding domain of the human phase II drug-metabolism enzyme UDP-glucuronosyltransferase 2B7. J Mol Biol. 2007;369:498-511 pubmed
    ..Point mutations at predicted catalytic residues in UGT2B7 abrogated activity, strongly suggesting human UGTs also utilize a serine hydrolase-like catalytic mechanism to facilitate glucuronic acid transfer. ..
  42. Elkins C, Totten P, Olsen B, Thomas C. Role of the Haemophilus ducreyi Ton system in internalization of heme from hemoglobin. Infect Immun. 1998;66:151-60 pubmed
    ..This arrangement, as well as the DNA and deduced amino acid sequences of these H. ducreyi genes, was most similar to those from other pasteurellae. ..
  43. Thompson S, Wang L, Sparling P. Cloning and nucleotide sequence of frpC, a second gene from Neisseria meningitidis encoding a protein similar to RTX cytotoxins. Mol Microbiol. 1993;9:85-96 pubmed
  44. Kim H, Lyons K, Saitoh E, Azen E, Smithies O, Maeda N. The structure and evolution of the human salivary proline-rich protein gene family. Mamm Genome. 1993;4:3-14 pubmed
    ..During this evolutionary process, multiple rearrangements and gene conversion occurred mainly in the region from the 3' end of IVS2 and the 3' end of exon 3. ..
  45. Hogan B, Hartsch T, Erie D. Transcript cleavage by Thermus thermophilus RNA polymerase. Effects of GreA and anti-GreA factors. J Biol Chem. 2002;277:967-75 pubmed publisher
    ..This protein, Gfh1, functions as an anti-GreA factor in vitro by reducing intrinsic cleavage and competing with GreA for a binding site on the polymerase...
  46. Klose R, Kallin E, Zhang Y. JmjC-domain-containing proteins and histone demethylation. Nat Rev Genet. 2006;7:715-27 pubmed publisher
    ..Here we analyse the evolutionary relationship between Jumonji C (JmjC)-domain-containing proteins and discuss their cellular functions in relation to their potential enzymatic activities. ..
  47. Mott H, Carpenter J, Zhong S, Ghosh S, Bell R, Campbell S. The solution structure of the Raf-1 cysteine-rich domain: a novel ras and phospholipid binding site. Proc Natl Acad Sci U S A. 1996;93:8312-7 pubmed
    ..The structure of the Raf-1 CRD represents an example of this family of domains that does not bind diacylglycerol and provides a framework for investigating its interactions with other molecules. ..
  48. De Virgilio C, Demarini D, Pringle J. SPR28, a sixth member of the septin gene family in Saccharomyces cerevisiae that is expressed specifically in sporulating cells. Microbiology. 1996;142 ( Pt 10):2897-905 pubmed
  49. Usary J, Llaca V, Karaca G, Presswala S, Karaca M, He X, et al. Mutation of GATA3 in human breast tumors. Oncogene. 2004;23:7669-78 pubmed
    ..These data suggest that GATA3 is involved in growth control and the maintenance of the differentiated state in epithelial cells, and that GATA3 variants may contribute to tumorigenesis in ESR1-positive breast tumors. ..
  50. Yang C, Carlow D, Wolfenden R, Short S. Cloning and nucleotide sequence of the Escherichia coli cytidine deaminase (ccd) gene. Biochemistry. 1992;31:4168-74 pubmed
    ..Nevertheless, cytidine deaminase and mammalian plus bacterial adenosine deaminases share a single region (TVHA) of sequence identity that is tentatively identified as part of the cytidine deaminase active site. ..
  51. Michel J, McCarville J, Xiong Y. A role for Saccharomyces cerevisiae Cul8 ubiquitin ligase in proper anaphase progression. J Biol Chem. 2003;278:22828-37 pubmed
    ..These results indicate that in addition to the anaphase promoting complex, mitotic progression may involve another E3 ubiquitin ligase mediated by Cul8 protein. ..
  52. Ping L, Joseph S, Anderson J, Abrahams M, Salazar Gonzalez J, Kincer L, et al. Comparison of viral Env proteins from acute and chronic infections with subtype C human immunodeficiency virus type 1 identifies differences in glycosylation and CCR5 utilization and suggests a new strategy for immunogen design. J Virol. 2013;87:7218-33 pubmed publisher
    ..We suggest that the occasional absence of glycosylation sites encoded in the conserved regions of env, further reduced in transmitted viruses, could expose specific surface structures on the protein as antibody targets. ..
  53. Jiang L, Rogers S, Crews S. The Drosophila Dead end Arf-like3 GTPase controls vesicle trafficking during tracheal fusion cell morphogenesis. Dev Biol. 2007;311:487-99 pubmed
    ..These results indicate that the Dead end GTPase plays an important role in trafficking membrane components involved in tracheal fusion cell morphogenesis and lumenal development. ..
  54. Boesch K, Silversmith R, Bourret R. Isolation and characterization of nonchemotactic CheZ mutants of Escherichia coli. J Bacteriol. 2000;182:3544-52 pubmed
  55. Marzluff W, Sakallah S, Kelkar H. The sea urchin histone gene complement. Dev Biol. 2006;300:308-20 pubmed
    ..The cleavage stage histone H1 is the orthologue of an oocyte-specific histone H1 protein found in vertebrates. ..
  56. Huang J, Taylor J, Chen J, Uhrig J, Schnell D, Nakagawa T, et al. The plastid protein THYLAKOID FORMATION1 and the plasma membrane G-protein GPA1 interact in a novel sugar-signaling mechanism in Arabidopsis. Plant Cell. 2006;18:1226-38 pubmed
    ..The interaction between THF1 and GPA1 has been confirmed by in vitro and in vivo coimmunoprecipitation, FRET analysis, and genetic epistasis and provides evidence of a sugar-signaling mechanism between plastids and the plasma membrane. ..
  57. Rossi G, Brennwald P. Yeast homologues of lethal giant larvae and type V myosin cooperate in the regulation of Rab-dependent vesicle clustering and polarized exocytosis. Mol Biol Cell. 2011;22:842-57 pubmed publisher
    ..Thus Sro7 appears to coordinate the spatial and temporal nature of both Rab-dependent tethering and SNARE-dependent membrane fusion of exocytic vesicles with the plasma membrane. ..
  58. Wu S, Cheung W, Frazier D, Stafford D. Cloning and expression of the cDNA for human gamma-glutamyl carboxylase. Science. 1991;254:1634-6 pubmed
    ..3 percent identity with soybean seed lipoxygenase. Expression of the cloned cDNA resulted in an increase in carboxylase activity in microsomes of transfected cells compared to mock-transfected cells. ..
  59. Yue W, Shackelford J, Pagano J. cdc2/cyclin B1-dependent phosphorylation of EBNA2 at Ser243 regulates its function in mitosis. J Virol. 2006;80:2045-50 pubmed publisher
    ..Our data implicate EBNA2 Ser243 as a cdc2/cyclin B1 site of phosphorylation important for EBNA2's cotranscriptional function in mitosis...
  60. Taxman D, Livingstone L, Zhang J, Conti B, Iocca H, Williams K, et al. Criteria for effective design, construction, and gene knockdown by shRNA vectors. BMC Biotechnol. 2006;6:7 pubmed
    ..However, application of a modification based on the central shRNA stability should provide a useful improvement to the design of effective shRNA vectors. ..
  61. Schultz T, Quatrano R. Characterization and expression of a rice RAD23 gene. Plant Mol Biol. 1997;34:557-62 pubmed
    ..A single transcript (1.5 kb) of osRAD23 was detected in total RNA from rice embryonic tissue, while three transcripts (1.8, 1.5 and 1.0 kb) were observed in total RNA from vegetative tissues of rice. ..
  62. Yang N, Eckhart A, Xin X, Faber J. CRE-like response element regulates expression of rat alpha 2D-adrenergic receptor gene in vascular smooth muscle. Am J Physiol. 1997;273:H85-95 pubmed
    ..In addition, promoter activity was increased 300% by forskolin or 8-bromoadenosine 3',5'-cyclic monophosphate, indicating that the CRE-like element may regulate alpha 2D-AR expression in vascular tissue...
  63. Weiss E, Ducceschi M, Horner T, Li A, Craft C, Osawa S. Species-specific differences in expression of G-protein-coupled receptor kinase (GRK) 7 and GRK1 in mammalian cone photoreceptor cells: implications for cone cell phototransduction. J Neurosci. 2001;21:9175-84 pubmed
    ..In contrast, GRK7 and GRK1 are coexpressed in monkey and human cones, suggesting that coordinate regulation of desensitization by both kinases may occur in primates. ..
  64. Weiss E, Raman D, Shirakawa S, Ducceschi M, Bertram P, Wong F, et al. The cloning of GRK7, a candidate cone opsin kinase, from cone- and rod-dominant mammalian retinas. Mol Vis. 1998;4:27 pubmed
    ..The presence of this kinase in cones in the ground squirrel and its ability to phosphorylate rhodopsin suggests that it could function in cone cells as a cone opsin kinase...
  65. BaSalamah M, Marr H, Duncan A, Edgell C. Testican in human blood. Biochem Biophys Res Commun. 2001;283:1083-90 pubmed
    ..One testican domain has strong homology to thyropin-type cysteine protease-inhibitors. Thus, testican may have a function related to protease inhibition in the blood. ..
  66. Peck K, Scobey T, Swanstrom J, Jensen K, Burch C, Baric R, et al. Permissivity of Dipeptidyl Peptidase 4 Orthologs to Middle East Respiratory Syndrome Coronavirus Is Governed by Glycosylation and Other Complex Determinants. J Virol. 2017;91: pubmed publisher
    ..Understanding the virus-receptor interactions for these DPP4 orthologs will help in the development of additional animal models while also revealing species-specific differences impacting MERS-CoV host range. ..
  67. O Rand M, Richardson R, Zimmerman L, Widgren E. Sequence and localization of human NASP: conservation of a Xenopus histone-binding protein. Dev Biol. 1992;154:37-44 pubmed
    ..We propose that mammalian testes and sperm contain a histone-binding protein which may play a role in regulating the early events of spermatogenesis. ..
  68. Ho K, Quarmby V, French F, Wilson E. Molecular cloning of rat prostate transglutaminase complementary DNA. The major androgen-regulated protein DP1 of rat dorsal prostate and coagulating gland. J Biol Chem. 1992;267:12660-7 pubmed
    ..Sequence comparisons revealed that rat prostate DP1 shares sequence identity with Factor XIIIa and tissue transglutaminase, including the active center, GQCWVF, indicating that DP1 is a member of the transglutaminase gene family. ..
  69. Berg J, Derfler B, Pennisi C, Corey D, Cheney R. Myosin-X, a novel myosin with pleckstrin homology domains, associates with regions of dynamic actin. J Cell Sci. 2000;113 Pt 19:3439-51 pubmed
    ..The tail domain structure, biochemical features, and localization of myosin-X suggest that this novel unconventional myosin plays a role in regions of dynamic actin. ..
  70. Hartmann S, Vision T. Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?. BMC Evol Biol. 2008;8:95 pubmed publisher
  71. Johnson J, Li C, DiPrimio N, Weinberg M, McCown T, Samulski R. Mutagenesis of adeno-associated virus type 2 capsid protein VP1 uncovers new roles for basic amino acids in trafficking and cell-specific transduction. J Virol. 2010;84:8888-902 pubmed publisher
    ..e., subnuclear mobilization or uncoating) limit successful AAV infection...
  72. Tomberg J, Unemo M, Ohnishi M, Davies C, Nicholas R. Identification of amino acids conferring high-level resistance to expanded-spectrum cephalosporins in the penA gene from Neisseria gonorrhoeae strain H041. Antimicrob Agents Chemother. 2013;57:3029-36 pubmed publisher
    ..These three mutations have thus far been described only for penA41, but dissemination of these mutations in other mosaic alleles would spell the end of ceftriaxone as an effective treatment for gonococcal infections. ..
  73. Wang J, de Villena F, Lawson H, Cheverud J, Churchill G, McMillan L. Imputation of single-nucleotide polymorphisms in inbred mice using local phylogeny. Genetics. 2012;190:449-58 pubmed publisher
    ..Imputed sequences and quality scores can be downloaded and visualized online. ..
  74. Aik W, Lin M, Tan D, Tripathy A, Marzluff W, Dominski Z, et al. The N-terminal domains of FLASH and Lsm11 form a 2:1 heterotrimer for histone pre-mRNA 3'-end processing. PLoS ONE. 2017;12:e0186034 pubmed publisher
    ..Using solution light scattering, we characterized the stoichiometry of the FLASH NTD-Lsm11 NTD complex and found that it is a 2:1 heterotrimer, which is supported by observations from analytical ultracentrifugation and crosslinking. ..
  75. Raulston J, Davis C, Schmiel D, Morgan M, Wyrick P. Molecular characterization and outer membrane association of a Chlamydia trachomatis protein related to the hsp70 family of proteins. J Biol Chem. 1993;268:23139-47 pubmed
    ..R., Partin, J. S., and Lennarz, W. J. (1993) Science 259, 1421-1425). The potential involvement of an hsp70 protein in attachment may provide new insight on adherence mechanisms by obligate intracellular pathogens...
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