Relevant bibliographies by topics / Amino Acid Sequence Homology

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Amino Acid Sequence Homology'

Author: Grafiati
Published: 25 July 2024
Last updated: 31 July 2025

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Journal articles on the topic "Amino Acid Sequence Homology"

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Xia-Yun, Jiang, Zou Shu-Ming, and Zhou Pei-Gen. "Cloning and sequence analysis of complete cDNA of chitin deacetylase from Mucor racemosus." Chinese Journal of Agricultural Biotechnology 4, no. 2 (2007): 167–72. http://dx.doi.org/10.1017/s1479236207001489.

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AbstractA complete chitin deacetylase (CDA) complementary DNA (cDNA) from Mucor racemosus was cloned and sequenced by reverse transcription-polymerase chain reaction (RT-PCR) and rapid amplification cDNA end (RACE) with gene special conserved primers. The cDNA sequence was submitted to GenBank (DQ538514). The complete cDNA with full-length of 1506 bp contained a 67 bp 5′-untranslated region, an open reading frame of 1344 bp and 95 bp 3′-untranslated region including tailing site AATAAA. The gene encoded a sequence of 448 amino acid residues and consisted of core nucleotides encoding a polysacc
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Reenan, R. A., and R. D. Kolodner. "Isolation and characterization of two Saccharomyces cerevisiae genes encoding homologs of the bacterial HexA and MutS mismatch repair proteins." Genetics 132, no. 4 (1992): 963–73. http://dx.doi.org/10.1093/genetics/132.4.963.

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Abstract Homologs of the Escherichia coli (mutL, S and uvrD) and Streptococcus pneumoniae (hexA, B) genes involved in mismatch repair are known in several distantly related organisms. Degenerate oligonucleotide primers based on conserved regions of E. coli MutS protein and its homologs from Salmonella typhimurium, S. pneumoniae and human were used in the polymerase chain reaction (PCR) to amplify and clone mutS/hexA homologs from Saccharomyces cerevisiae. Two DNA sequences were amplified whose deduced amino acid sequences both shared a high degree of homology with MutS. These sequences were th
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Saxena, A., R. Padmanabha, and C. V. Glover. "Isolation and sequencing of cDNA clones encoding alpha and beta subunits of Drosophila melanogaster casein kinase II." Molecular and Cellular Biology 7, no. 10 (1987): 3409–17. http://dx.doi.org/10.1128/mcb.7.10.3409-3417.1987.

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Cloned cDNAs encoding both subunits of Drosophila melanogaster casein kinase II have been isolated by immunological screening of lambda gt11 expression libraries, and the complete amino acid sequence of both polypeptides has been deduced by DNA sequencing. The alpha cDNA contained an open reading frame of 336 amino acid residues, yielding a predicted molecular weight for the alpha polypeptide of 39,833. The alpha sequence contained the expected semi-invariant residues present in the catalytic domain of previously sequenced protein kinases, confirming that it is the catalytic subunit of the enz
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Saxena, A., R. Padmanabha, and C. V. Glover. "Isolation and sequencing of cDNA clones encoding alpha and beta subunits of Drosophila melanogaster casein kinase II." Molecular and Cellular Biology 7, no. 10 (1987): 3409–17. http://dx.doi.org/10.1128/mcb.7.10.3409.

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Cloned cDNAs encoding both subunits of Drosophila melanogaster casein kinase II have been isolated by immunological screening of lambda gt11 expression libraries, and the complete amino acid sequence of both polypeptides has been deduced by DNA sequencing. The alpha cDNA contained an open reading frame of 336 amino acid residues, yielding a predicted molecular weight for the alpha polypeptide of 39,833. The alpha sequence contained the expected semi-invariant residues present in the catalytic domain of previously sequenced protein kinases, confirming that it is the catalytic subunit of the enz
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Day, A. A., C. I. McQuillan, J. D. Termine, and M. R. Young. "Molecular cloning and sequence analysis of the cDNA for small proteoglycan II of bovine bone." Biochemical Journal 248, no. 3 (1987): 801–5. http://dx.doi.org/10.1042/bj2480801.

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The cDNA for the full-length core protein of the small chondroitin sulphate proteoglycan II of bovine bone was cloned and sequenced. A 1.3 kb clone (lambda Pg28) was identified by plaque hybridization with a previously isolated 1.0 kb proteoglycan cDNA clone (lambda Pg20), positively identified previously by polyclonal and monoclonal antibody reactivity and by hybrid-selected translation in vitro [Day, Ramis, Fisher, Gehron Robey, Termine & Young (1986) Nucleic Acids Res. 14, 9861-9876]. The cDNA sequences of both clones were identical in areas of overlap. The 360-amino-acid-residue protei
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Giorda, R., and H. L. Ennis. "Structure of two developmentally regulated Dictyostelium discoideum ubiquitin genes." Molecular and Cellular Biology 7, no. 6 (1987): 2097–103. http://dx.doi.org/10.1128/mcb.7.6.2097-2103.1987.

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A previously isolated cDNA clone, pLK229, that is specific for mRNA developmentally expressed during Dictyostelium discoideum spore germination and multicellular development, was used to screen two genomic libraries. Two genomic sequences homologous to pLK229 were isolated and sequenced. Genomic clone p229 is identical to the cDNA clone pLK229 and codes for a polypeptide of 381 amino acids. This polypeptide is composed of five tandem repeats of the same 76-amino-acid sequence. Clone lambda 229 codes for a protein of 229 amino acids, containing three tandem repeats of the identical 76-amino-aci
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Giorda, R., and H. L. Ennis. "Structure of two developmentally regulated Dictyostelium discoideum ubiquitin genes." Molecular and Cellular Biology 7, no. 6 (1987): 2097–103. http://dx.doi.org/10.1128/mcb.7.6.2097.

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A previously isolated cDNA clone, pLK229, that is specific for mRNA developmentally expressed during Dictyostelium discoideum spore germination and multicellular development, was used to screen two genomic libraries. Two genomic sequences homologous to pLK229 were isolated and sequenced. Genomic clone p229 is identical to the cDNA clone pLK229 and codes for a polypeptide of 381 amino acids. This polypeptide is composed of five tandem repeats of the same 76-amino-acid sequence. Clone lambda 229 codes for a protein of 229 amino acids, containing three tandem repeats of the identical 76-amino-aci
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Wypijewski, K., T. Malinowski, W. Musiał, and J. Augustyniak. "Nucleotide sequence of the coat protein gene of the Skierniewice isolate of plum pox virus (PPV)." Acta Biochimica Polonica 41, no. 1 (1994): 87–95. http://dx.doi.org/10.18388/abp.1994_4778.

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The coat protein (CP) gene of the Skierniewice isolate of plum pox virus (PPV-S) has been amplified using the reverse transcription--polymerase chain reaction (RT-PCR), cloned and sequenced. The nucleotide sequence of the gene and the deduced amino-acid sequence of PPV-S CP were compared with those of other PPV strains. The nucleotide sequence showed very high homology to most of the published sequences. The motif: Asp-Ala-Gly (DAG), important for the aphid transmissibility, was present in the amino-acid sequence. Our isolate did not react in ELISA with monoclonal antibodies MAb06 supposed to
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Chen, Junhong, Wei Dai, Hang Wang, Weiqiang Lei, Guangyuan Fang, and Dingzhen Dai. "Cloning and Expression of Pigeon-Derived Escherichia coli Type 1 Pilus Clusters and Analysis of Amino Acid Sequence Characteristics of Functional Proteins." Genes 15, no. 10 (2024): 1253. http://dx.doi.org/10.3390/genes15101253.

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Background: Type 1 pili, as an important virulence factor of E. coli, has certain homology between APEC and UPEC, but the homology degree is not clear enough. Objectives: This study aims to compare the homology between them. Methods: The recombinant bacteria were constructed by homologous recombination. The pili were observed by TEM, and the hemagglutination characteristics were determined by MHSA. The complete gene sequence was determined by sequencing, and the amino acid sequences of the functional proteins of type 1 pili of APEC and UPEC were compared. Results: TEM showed that they could ex
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Gotschlich, E. C., M. Seiff, and M. S. Blake. "The DNA sequence of the structural gene of gonococcal protein III and the flanking region containing a repetitive sequence. Homology of protein III with enterobacterial OmpA proteins." Journal of Experimental Medicine 165, no. 2 (1987): 471–82. http://dx.doi.org/10.1084/jem.165.2.471.

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The insert of a lambda gt11 clone expressing gonococcal protein III was sequenced. The deduced amino acid sequence showed a coding frame of 236 amino acids with a typical 22-amino-acid signal peptide, followed by the known NH2-terminal sequence of PIII. The mature protein has a molecular weight of 23,298. It was found that PIII had extensive and very striking homology to the carboxy-terminal portion of enterobacterial OmpA proteins. The homology encompasses the OmpA domain that is believed to be located in the periplasmic space. If the disposition of PIII across the OM is analogous, then the s
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Dissertations / Theses on the topic "Amino Acid Sequence Homology"

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Menlove, Kit J. "Model Detection Based upon Amino Acid Properties." BYU ScholarsArchive, 2010. https://scholarsarchive.byu.edu/etd/2253.

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Similarity searches are an essential component to most bioinformatic applications. They form the bases of structural motif identification, gene identification, and insights into functional associations. With the rapid increase in the available genetic data through a wide variety of databases, similarity searches are an essential tool for accessing these data in an informative and productive way. In our chapter, we provide an overview of similarity searching approaches, related databases, and parameter options to achieve the best results for a variety of applications. We then provide a worked e
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Shah, Anuj R. "Improving protein remote homology detection using supervised and semi-supervised support vector machines." Online access for everyone, 2008. http://www.dissertations.wsu.edu/Dissertations/Spring2008/A_Shah_042408.pdf.

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Wistrand, Markus. "Hidden Markov models for remote protein homology detection /." Stockholm, 2005. http://diss.kib.ki.se/2006/91-7140-598-4/.

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Chelliah, Vijayalakshmi. "Functional restraints on amino acid substitution patterns : application to definition of binding sites and sequence-structure homology recognition." Thesis, University of Cambridge, 2005. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.615170.

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Lindholm, Cecilia K. "Shb and its homologues : signaling in T lymphocytes and fibroblasts /." Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2002. http://publications.uu.se/theses/91-554-5260-4/.

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Santos-Ciminera, Patricia Dantas Ciminera Patricia Dantas Santos Santos Patricia. "Molecular epidemiology of epidemic severe malaria caused by Plasmodium vivax in the state of Amazonas, Brazil /." Download the dissertation in PDF, 2005. http://www.lrc.usuhs.mil/dissertations/pdf/Santos2005.pdf.

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Chu, Yi-wen 1962. "Amino acid sequence requirements for ornithine decarboxylase activity." Thesis, The University of Arizona, 1988. http://hdl.handle.net/10150/276838.

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ODC activity of the altered proteins was measured and compared to that of the full length 461 amino acid containing ODC. Mouse ODC cDNA sequences were deleted from either 5' or 3' ends using exonuclease III and Mung Bean nuclease treatments. An internal deletion was obtained by Hinc II and Bcl I restriction endonuclease digestion of the full length ODC cDNA. Capped mRNAs were synthesized in vitro using the resulting deleted DNA as templates, and the protein was translated in vitro. The results indicate that the protein in which translation initiates at internal AUG start codons does not have a
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Forsberg, Hanna. "Genetic and biochemical characterization of a novel sensor of extracellular amino acids in yeast /." Stockholm : Karolinska Univ. Press, 2001. http://diss.kib.ki.se/2001/91-89428-06-4/.

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Oppermann, Madalina. "Chemical and mass spectrometrical methods in protein analysis /." Stockholm, 2000. http://diss.kib.ki.se/2000/91-628-4542-x/.

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Gallina, Serafina. "Structural Characterization of Donkey Lactoferrin: Amino Acid Sequence and Glycan Compositions." Doctoral thesis, Università di Catania, 2016. http://hdl.handle.net/10761/3880.

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Lactoferrin, a protein showing an array of biochemical properties, including immuno-modulation, iron-binding ability, as well as antioxidant, antibacterial and antiviral activities, was isolated from donkey milk by ion exchange chromatography.The characterization of its primary structure, by means of enzymatic digestions, SPITC derivatization of tryptic digest, reversed-phase high performance liquid chromatography, electrospray and matrix-assisted laser desorption/ionization mass spectrometry, is reported. Our results allowed the almost complete characterization of donkey s lactoferrin sequenc
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Books on the topic "Amino Acid Sequence Homology"

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Morrison, Mary Elizabeth. Murine homolog of the poliovirus receptor (PVR): Molecular cloning, expression, and mapping of poliovirus-receptor interactions. [Columbia University], 1993.

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D, Baxevanis Andreas, ed. Current protocols in bioinformatics. Wiley, 2003.

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Hans, Jörnvall, Höög J. -O, Gustavsson A. -M, and International Conference on Methods in Protein Sequence Analysis (8th : 1990 : Kiruna, Sweden), eds. Methods in protein sequence analysis. Birkhäuser Verlag, 1991.

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Ray, Gribskov Michael, and Devereux John 1947-, eds. Sequence analysis primer. Oxford University Press, 1994.

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Aitken, Alastair. Identification of protein consensus sequences: Active site motifs, phosphorylation, and other post-translational modifications. Ellis Horwood, 1990.

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1958-, Gribskov Michael, and Devereux John 1947-, eds. Sequence analysis primer. Oxford University Press, 1995.

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1958-, Gribskov Michael, and Devereux John, eds. Sequence analysis primer. Freeman, 1992.

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J, L'Italien James, and Symposium of American Protein Chemists on Modern Methods in Protein Chemistry (1st : 1985 : San Diego, Calif.), eds. Proteins: Structure and function. Plenum Press, 1987.

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G, Allen. Sequencing of proteins and peptides. Elsevier/North-Holland, 1989.

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1934-, Bhown Ajit S., ed. Protein/peptide sequence analysis: Current methodologies. CRC Press, 1988.

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Book chapters on the topic "Amino Acid Sequence Homology"

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Toh, Hiroyuki. "Homology Search and Prediction of Biological Function of Protein from Amino Acid Sequences." In Methods in Protein Sequence Analysis. Springer US, 1993. http://dx.doi.org/10.1007/978-1-4899-1603-7_30.

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Ericsson, L. H., D. Atherton, R. Kutny, A. J. Smith, and J. W. Crabb. "Realistic Expectations for Amino Acid Analysis." In Methods in Protein Sequence Analysis. Birkhäuser Basel, 1991. http://dx.doi.org/10.1007/978-3-0348-5678-2_13.

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Moorad, Deborah R., Gregory E. Garcia, and B. P. Doctor. "Amino Acid Sequence of Horse Serum Butyrylcholinesterase." In Structure and Function of Cholinesterases and Related Proteins. Springer US, 1998. http://dx.doi.org/10.1007/978-1-4899-1540-5_37.

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Lischwe, Michael A. "Amino Acid Sequence of Arginine Methylation Sites." In Protein Methylation. CRC Press, 2024. https://doi.org/10.1201/9781003574873-6.

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Bidlingmeyer, Brian A., Thomas L. Tarvin, and Steven A. Cohen. "Amino Acid Analysis of Submicrogram Hydrolyzate Samples." In Methods in Protein Sequence Analysis · 1986. Humana Press, 1987. http://dx.doi.org/10.1007/978-1-59259-480-1_15.

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Hare, P. E. "Detection Limits in Amino Acid Analysis: An Overview." In Methods in Protein Sequence Analysis. Springer Berlin Heidelberg, 1989. http://dx.doi.org/10.1007/978-3-642-73834-0_1.

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Li, Weiming, Bin Ma, and Kaizhong Zhang. "Amino Acid Classification and Hash Seeds for Homology Search." In Bioinformatics and Computational Biology. Springer Berlin Heidelberg, 2009. http://dx.doi.org/10.1007/978-3-642-00727-9_6.

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Martin-Ponthieu, Annie, Danièle Wouters-Tyrou, Denise Bélaiche, and Pierre Sautière. "Cuttelfish Protamines: Amino-acid Sequences of Three Distinct Variants." In Methods in Protein Sequence Analysis. Springer Berlin Heidelberg, 1989. http://dx.doi.org/10.1007/978-3-642-73834-0_38.

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Sternberg, Michael J. E. "Prediction of Protein Structure from Amino Acid Sequence." In Crystallography in Molecular Biology. Springer US, 1987. http://dx.doi.org/10.1007/978-1-4684-5272-3_12.

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Abiko, Takashi, and Hiroshi Sekino. "Syntheses of thymopoietins and their immunological effects: Relationship of amino acid sequence to immunological activity." In Amino Acids. Springer Netherlands, 1990. http://dx.doi.org/10.1007/978-94-011-2262-7_88.

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Conference papers on the topic "Amino Acid Sequence Homology"

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Balamurugan, K. S., K. Geetha Rani, M. Sadish Sendil, D. Kumutha, and R. Surendran. "Deep Learning based Recognition of Auto Covariance Signatures through Protein Interaction Model for Amino Acid Sequence." In 2024 8th International Conference on Electronics, Communication and Aerospace Technology (ICECA). IEEE, 2024. https://doi.org/10.1109/iceca63461.2024.10801076.

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Jenny, Richard J., Debra D. Pittman, John J. Toole, Ronald W. Kriz, Randal J. Kaufman, and Kenneth G. Mann. "THE COMPLETE AMINO ACID SEQUENCE OF HUMAN FACTOR V." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1643887.

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cDNA clones encoding human factor V have been isolated and sequenced. The cDNA sequence of factor V obtained from overlapping clones includes a 6672 bp coding region, a 90 bp 5'-untranslated region and a 163 bp 3’-untranslated region including a poly-A tail. The deduced amino acid sequence consists of 2224 amino acids including a 28 amino acid leader peptide. A direct comparison to human factor VIII reveals considerable homology between both proteins with respect to amino acid sequence and domain structure. A triplicated "A" domain and duplicated "C" domain show an approximate 40% identity to
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Stenflo, J., A.-K. öhlin, Å. Lundvall та B. Dahlback. "β-HYDROXY ASPARTIC ACID AND ft-HYDROXYASPARAGINE IN THEEGF-HOMOLOGY REGIONS OF PROTEIN C AND PROTEINS". У XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1643995.

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The amino acid sequence has been determined for all of the vitamin K-dependent proteins and the gene structure is known for some of them. These findings have shown the proteins to consist of four clearly discernible domains, except protein S which has six domains. The protein domains seem to be coded on separate exons (Foster, D. C. et. al. 1985 Proc. Natl. Acad. Sci. USA 82,4673). The vitamin K-dependent γ-carboxyglutamic acid (Gla) containing domain isthe common structural denominator of the members of this protein family. In addition, all of these proteins except prothrombin contain domains
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Sumi, Y., Y. Nakamura, M. Sakai, M. Muramatsu та N. Aoki. "STRUCTURE OF HUMAN α2-PLASMIN INHIBITOR DEDUCED FROM THAT OF cDNA". У XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644371.

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The complete amino acid sequence of α2-plasmin inhibitor (α2PI) was determined by cDNA cloning. A Agt 10 cDNA library was prepared from poly(A)+mRNA isolated from cultured human liver cells. The labeled oligonucleotides, corresponding to the reported partial amino acid sequences of α2PI, were used as probes to screen the library. One of the positive clones was subcloned into plasmid pUC8. A 2.2 kilobase cDNA clone thus isolated contains a region coding for a portion of a leader sequence, the mature protein, a stop codon (TGA), a 3' noncoding region (733 nucleotides), and a poly(A)tail (37 nucl
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Edgington, T. S., J. H. Morrissey, and H. Fakhrai. "MOLECULAR CLONING OF HUMAN TISSUE FACTOR cDNA." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1643740.

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Tissue factor (TF), the cell-surface receptor and allo-steric activator for factor Vll/VIIa, is important in hemostasis andinflammation. The TF apoprotein was purifiedfrom human brain using factor Vll-affinitychromatography and SDS gel electrophoresis,and was found to consist of a 47 kDa heavy chain plus a 12.5 kDa light chain. Approximately one-third of the heavy chain amino acid sequence was determined for four regions by microsequencing the intact protein and peptides derived from V8-protease digestion. A λgtll cDNA library, made from mRNA derived from the human fibroblastic cell line WI38,
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Foster, D., B. Schach, M. Rudinsky, et al. "The Effect of Changes in the Leader Sequence of Human Protein C on Biosynthetic Processing and Gamma-Carboxylation." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1643648.

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Protein C is the precursor to a serine protease in plasma which contains gamma-carboxy glutamic acid and functions as a potent anticoagulant. Protein C shows considerable structural homology with the other vitamin K-dependent coagulation factors including prothrombin, factor VII, factor IX and factor X. This homology includes the putative pro-peptide region of the prepro leader sequences for these proteins, as well as the leader sequences for gamma-carboxylated proteins from bone. Deletion mutants have been constructed in the cDNA for human protein C in order to test the possibility that the p
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Lopez, J. A., D. W. Chung, K. Fujikawa, F. S. Hagen, T. Papavannopoulou, and G. J. Roth. "MOLECULAR CLONING OF HUMAN PLATELET GLYCOPROTEIN Ib." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1642927.

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Glycoprotein Ib (GPIb) mediates von Willebrand factor-dependent platelet adhesion and participates in the resulting platelet activation process. In the present investigation, the primary structure of human platelet GPIb was studied. GPIb and its proteolytic fragment glycocalicin were purified to near homogeneity from human platelets by affinity chromatography using wheat germ agglutinin and anti-GPIb monoclonal antibody (D. Nugent, University of Washington) coupled to Sepharose. GPIba chain, β chain, and glycocalicin were isolated, reduced and carboxymethylated, and then fragmented by trypsin
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Fuhlendorff, J., I. Clemmensen, and S. Magnusson. "PRIMARY STRUCTURE OF TETRANECTIN. SEQUENCE HOMOLOGY WITH ASIALOGLYCOPROTEIN RECEPTORS AND WITH PROTEOGLYCAN CORE PROTEIN FROM CARTILAGE." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644380.

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Tetranectin (Mr = 68,000) is a tetrameric blood plasma protein, which binds to plasminogen and also to the lysine-binding site of the isolated kringle 4 from plasminogen. Its four polypeptide chains, which are non-covalently bound, each consists of 181 amino acid residues. We have determined the complete amino acid sequence and the disulfide bonds. Each position corresponds to a single amino acid residue except 34 which contains Ala and Ser and 37 which contains Val and Met in equimolar amounts. The three disulfide bonds connect Cys-50 to Cys-60, Cys-77 to Cys-176 and Cys-152 to Cys-168. The s
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Kaida, S., T. Miyata, S. Kawabata, et al. "NUCLEOTIDE SEQUENCE OF THE STAPHYLOCOAGULASE GENE FROM STAPHYLOCOCCUS AUREUS STRAIN BB." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644607.

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Staphylocoagulase (SC) is a secretary protein produced by several strains of Staphylococcus aureus (S. aureus). This protein forms a molecular complex ("staphylothrombin") with human prothrombin in a molar ratio of 1:1. The complex displays the ability to clot fibrinogen and to hydrolyze the synthetic tripeptide substrates for α-thrombin. The formation of staphylothrombin does not require proteolytic cleavage of the prothrombin molecule, and this mechanism differs markedly from the activation process by either blood-clotting factor Xa or snake venom procoagulant.In the present studies, a pAT15
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Vieira, Diogo Munaro, Elvismary Molina de Armas, Maria L. G. Jaramillo, et al. "A New Data Modeling Approach for Alignment-free Biological Applications." In Simpósio Brasileiro de Banco de Dados. Sociedade Brasileira de Computação - SBC, 2023. http://dx.doi.org/10.5753/sbbd.2023.232471.

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Finding homologous proteins and grouping them are tasks of utmost importance in biology, which currently rely on tools based on information from these proteins' DNA or amino acid sequences. These tasks require identifying evolutionary patterns that are challenging to obtain automatically using traditional methods. This work proposes a data modeling approach to leverage evolutionary patterns in homology searching, ranking, and clustering tasks through an alignment-free process using image similarity algorithms. This strategy is valuable even for distant homologs and contributes to data privacy
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Reports on the topic "Amino Acid Sequence Homology"

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Patarakul, Kanitha, and Yong Poovoravan. Study of homology of mce and invA genes among different serovars of Leptospira interrogans and their in vivo expression. Faculty of Medicine, Chulalongkorn University, 2010. https://doi.org/10.58837/chula.res.2010.13.

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Leptospirosis is a worldwide zoonotic disease. Pathogenesis of leptospirosis is not well understood. Identification of virulence factors of pathogenic Leptospira and their roles in pathogenesis is crucial. Based on available whole-genome sequences of Leptospira, two presumptive virulence genes which are homologous to the invasionA (invA) gene of Rickettsia prowazekii and the mammalian cell entry (mce) gene of Mycobacterium tuberculosis, have been identified. The function of these genes may involve in the attachment and invasion of eukaryotic cells. We proposed that these gene homologues should
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Loebenstein, Gad, William Dawson, and Abed Gera. Association of the IVR Gene with Virus Localization and Resistance. United States Department of Agriculture, 1995. http://dx.doi.org/10.32747/1995.7604922.bard.

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We have reported that localization of TMV in tobacco cultivars with the N gene, is associated with a 23 K protein (IVR) that inhibited replication of several plant viruses. This protein was also found in induced resistant tissue of Nicotiana glutinosa x Nicotiana debneyi. During the present grant we found that TMV production is enhanced in protoplasts and plants of local lesion responding tobacco cultivars exposed to 35oC, parallel to an almost complete suppression of the production of IVR. We also found that IVR is associated with resistance mechanisms in pepper cultivars. We succeeded to clo
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Mevarech, Moshe, Jeremy Bruenn, and Yigal Koltin. Virus Encoded Toxin of the Corn Smut Ustilago Maydis - Isolation of Receptors and Mapping Functional Domains. United States Department of Agriculture, 1995. http://dx.doi.org/10.32747/1995.7613022.bard.

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Ustilago maydis is a fungal pathogen of maize. Some strains of U. maydis encode secreted polypeptide toxins capable of killing other susceptible strains of U. maydis. Resistance to the toxins is conferred by recessive nuclear genes. The toxins are encoded by genomic segments of resident double-strande RNA viruses. The best characterized toxin, KP6, is composed of two polypeptides, a and b, which are not covalently linked. It is encoded by P6M2 dsRNA, which has been cloned, sequenced and expressed in a variety of systems. In this study we have shown that the toxin acts on the membranes of sensi
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Sadot, Einat, Christopher Staiger, and Zvi Kam Weizmann. functional genomic screen for new plant cytoskeletal proteins and the determination of their role in actin mediated functions and guard cells regulation. United States Department of Agriculture, 2003. http://dx.doi.org/10.32747/2003.7587725.bard.

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The original objectives of the approved proposal were: 1. To construct a YFP fused Arabidopsis cDNA library in a mammalian expression vector. 2. To infect the library into a host fibroblast cell line and to screen for new cytoskeletal associated proteins using an automated microscope. 3. Isolate the new genes. 4. Characterize their role in plants. The project was approved as a feasibility study to allow proof of concept that would entail building the YFP library and picking up a couple of positive clones using the fluorescent screen. We report here on the construction of the YFP library, the d
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Sengupta-Gopalan, Champa, Shmuel Galili, and Rachel Amir. Improving Methionine Content in Transgenic Forage Legumes. United States Department of Agriculture, 2001. http://dx.doi.org/10.32747/2001.7580671.bard.

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Leguminous forage crops are high in proteins but deficient in S- amino acids. It has been shown that both wool quality and milk production can be limited by the post-ruminal supply of sulfur-containing amino acids. Efforts to use conventional plant breeding and cell selection techniques to increase the S-amino acid content of alfalfa have met with little success. With the objective to increase the S-amino acid content of forage legumes, the goal of this project was to co- express the methionine rich zein genes from corn along with a gene for a key enzyme in methionine biosynthesis, aspartate k
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Barefoot, Susan F., Bonita A. Glatz, Nathan Gollop, and Thomas A. Hughes. Bacteriocin Markers for Propionibacteria Gene Transfer Systems. United States Department of Agriculture, 2000. http://dx.doi.org/10.32747/2000.7573993.bard.

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The antibotulinal baceriocins, propionicin PLG-1 and jenseniin G., were the first to be identified, purified and characterized for the dairy propionibaceria and are produced by Propionibacterium thoenii P127 and P. thoenii/jensenii P126, respectively. Objectives of this project were to (a) produce polyclonal antibodies for detection, comparison and monitoring of propionicin PLG-1; (b) identify, clone and characterize the propionicin PLG-1 (plg-1) and jenseniin G (jnG) genes; and (3) develop gene transfer systems for dairy propionibacteria using them as models. Polyclonal antibodies for detecti
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Wicker, Louise, and Nissim Garti. Entrapment and controlled release of nutraceuticals from double emulsions stabilized by pectin-protein hybrids. United States Department of Agriculture, 2004. http://dx.doi.org/10.32747/2004.7695864.bard.

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Original Objectives Specific objectives are to: (1) modify charge and hydrophobicity of pectins to improve emulsion stabilizing properties (2) develop emulsions that can be sterically stabilized using modified pectins and/or pectin/protein hybrids (3) obtain submicronal inner emulsion droplets (10-50 nanometers) with small and monodispersed double emulsion (1-2 μm) droplets with long-term stability (possibly by emulsified microemulsions) and (4) trigger and control the release at will. Background Methodology for encapsulation and controlled release of selected addenda, e.g. drugs, vitamins, ph
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Rimphanitchayakit, Vichien, and Raevadee Siritunyanont. Mutagenesis of cyclodextrin glucanotransferase gene that affects themostability of the enzyme. Chulalongkorn University, 2006. https://doi.org/10.58837/chula.res.2006.34.

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Cyclodextrins are cyclic oligosaccharides of 6, 7 andf 8 glucose units, called [alpha]-, [beta]- and [gamma]- cyclodextrins (CDs)s, respectively. CDs are the products of enzymatic conversation of starch and related substrates by cyclodextrin glucanotransferases (CGTases), and are useful carrier molecules for applications in industries. The CGTase consists of 5 domains, A, B, C, D, and E. Domains A/B are the central catalytic domains while others perform accessory functions. The commercial production of CDs required that the starch be liquefied at high temperature before the CGTase reaction at
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Yalovsky, Shaul, and Julian Schroeder. The function of protein farnesylation in early events of ABA signal transduction in stomatal guard cells of Arabidopsis. United States Department of Agriculture, 2002. http://dx.doi.org/10.32747/2002.7695873.bard.

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Loss of function mutations in the farnesyltransferase β subunit gene ERA1 (enhanced response to abscisic acid), cause abscisic acid hypersensitivity in seedlings and in guard cells. This results in slowed water loss of plants in response to drought. Farnesyltransferase (PFT) catalyses the attachment of the 15-carbon isoprenoid farnesyl to conserved cysteine residues located in a conserved C-terminal domain designated CaaX box. PFT is a heterodimeric protein comprised of an a and b sununits. The a subunit is shared between PFT and geranylgeranyltransferase-I (PGGTI) which catalyses the attachem
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Rafaeli, Ada, and Russell Jurenka. Molecular Characterization of PBAN G-protein Coupled Receptors in Moth Pest Species: Design of Antagonists. United States Department of Agriculture, 2012. http://dx.doi.org/10.32747/2012.7593390.bard.

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The proposed research was directed at determining the activation/binding domains and gene regulation of the PBAN-R’s thereby providing information for the design and screening of potential PBAN-R-blockers and to indicate possible ways of preventing the process from proceeding to its completion. Our specific aims included: (1) The identification of the PBAN-R binding domain by a combination of: (a) in silico modeling studies for identifying specific amino-acid side chains that are likely to be involved in binding PBAN with the receptor and; (b) bioassays to verify the modeling studies using mut
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