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Topic: SECIS element

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	Element
		Period 3 element A period 3 element is one of the chemical elements in the fourth row (or periodic table of the elements...
		Period 5 element A period 5 element is one of the chemical elements in the fifth row (or periodic table of the elements....
		Period 7 element A period 7 element is one of the chemical elements in the seventh row (or periodic table of the element...
	www.brainyencyclopedia.com /topics/element.html (1241 words)

	SECIS element -- Facts, Info, and Encyclopedia article (Site not responding. Last check: 2007-10-29)
		In (A large group of bacteria having rigid cell walls; motile types have flagella) eubacteria the SECIS element appears soon after the UGA codon affects.
		One archaeal SECIS element, in Methanococcus is located in the (additional info and facts about 5' UTR) 5' UTR.
		In (additional info and facts about bioinformatics) bioinformatics, several computer programs have been created that search for SECIS elements within a (The ordering of genes in a haploid set of chromosomes of a particular organism; the full DNA sequence of an organism) genome sequence, based on the sequence and secondary structure characteristics of SECIS elements.
	www.absoluteastronomy.com /encyclopedia/s/se/secis_element4.htm (267 words)

	[No title]
		SECIS is a stem loop structure that is found in the 3’ untranslated region of selenoprotein encoding mRNAs in eukaryotes.
		Eukaryotic SECIS elements are composed of two helices that are separated by an internal loop; a SECIS core structure or Quartet region and an apical loop structure (Walczak et al., 1996).
		The SECIS element functions in recruiting a protein complex that is used to properly insert selenocysteine into a polypeptide.
	starklab.slu.edu /Coulter/genetics/CMG/selenocysteine.doc (3494 words)

	Selenoproteins, coding sequences and methods - Patent 6303295 (Site not responding. Last check: 2007-10-29)
		An essential feature of SECIS elements is a stem-loop structure displaying a conserved triad of unpaired adenine bases on the loop, e.g., in the context of the sequence UAAAG in the iodothyronine deiodinase (5'-DI) gene [14].
		Both have all the essential features of known SECIS elements located in mammalian selenoprotein genes: an AUG partially paired in a bulge on the 5' arm of the stem, the unpaired adenine triad on the loop, and UGA in a bulge on the 3' arm of the stem [25].
		This SECIS in HIV appears to be a fairly stable structure, because it was precisely predicted as a substructure in a global fold of the HIV-1 RT coding region.
	www.freepatentsonline.com:9003 /6303295.html (19133 words)

	Selenocysteine insertion directed by the 3'-UTR SECIS element in Escherichia coli -- Su et al. 33 (8): 2486 -- Nucleic ...
		and the apical loop of SECIS elements is
		Lane 1, wild-type 3'-UTR SECIS element; lane 2, SECIS element mutant; lane 3, UAA mutant; lane 4, UAA/SECIS mutant; lane 5, cysteine mutant; lane 6, a mutant lacking the 3'-UTR base-pairing segment; lane 7, a mutant lacking the SECIS element; and lane 8, a mutant lacking both the 3'-UTR base-pairing segment and the SECIS element.
		UGA codon, base-pairing region and the SECIS element.
	nar.oxfordjournals.org /cgi/content/full/33/8/2486 (3900 words)

	The function of SECIS RNA in translational control of gene expression in Escherichia coli (Site not responding. Last check: 2007-10-29)
		P-labeled SECIS-like element (80 nM) was incubated with increasing concentrations of SelB in the presence of 3.6
		Competition between the SECIS-like element and the SECIS element of selenoprotein mRNAs (c) leads to the dissociation of the regulatory complex and to the formation of the SelB
		SECIS complex, which catalyzes the decoding of UGA as selenocysteine.
	www.nature.com /emboj/journal/v21/n24/fig_tab/7594890ft.html (1031 words)

	Mammalian Selenoprotein in Which Selenocysteine (Sec) Incorporation Is Supported by a New Form of Sec Insertion ...
		The SECIS element in the 3' UTR is underlined and in italics.
		The CC motif in the apical loop of mammalian SelM SECIS elements and the AA motif in the zebra fish structure are in bold.
		in response to mutations in the SECIS element.
	mcb.asm.org /cgi/content/full/22/5/1402 (4704 words)

	Novel Selenoproteins Identified in Silico and in Vivo by Using a Conserved RNA Structural Motif -- Lescure et al. 274 ...
		to the discovery of a SECIS element in the 3'-UTR of the selenophosphate
		SECIS element could be found by the authors (5).
		The relevant accession numbers and the positions of the SECIS elements in the sequences are indicated.
	www.jbc.org /cgi/content/full/274/53/38147 (6073 words)

	Selenocysteine (Site not responding. Last check: 2007-10-29)
		The UGA codon is made to encode selenocysteine by the presence of a SECIS element (SElenoCysteine Insertion Sequence) in the mRNA.
		The SECIS element is defined by characteristic nucleotide sequences and secondary structure base-pairing patterns.
		The SecIS elements of bacterial selenoproteins (as far as analysed) are located within the coding sequences immediately following the UGA codons for selenocysteine, those of Eukarya and Archaea are located in the 3' untranslated regions of the respective mRNAs.
	www.worldhistory.com /wiki/S/Selenocysteine.htm (517 words)

	The 3'-Untranslated Region of Human Type 2 Iodothyronine Deiodinase mRNA Contains a Functional Selenocysteine ...
		The SECIS element of hD2 is a Form 2 SECIS element, and the predicted secondary structure is nearly identical to the hD3 SECIS element (1).
		The G to A mutation that interrupts the "GA quartet" and thereby inactivates the SECIS element is indicated by an arrow.
		Placing the SECIS element 2.4 kb from the UGA codon of the D1 reporter (construct 121) decreased SECIS activity from 95 to 45%.
	www.jbc.org /cgi/content/full/273/50/33374 (3929 words)

	SECIS-SBP2 interactions dictate selenocysteine incorporation efficiency and selenoprotein hierarchy -- Low et al. 19 ... (Site not responding. Last check: 2007-10-29)
		The role of the SECIS element is postulated to be the recruitment
		SECIS competition was performed as described above except that expression of the D1 selenoprotein was delayed 24 h relative to SECIS competitors by use of the tetracycline-repressible vector system.
		Martin,G.W., Harney,J.W. and Berry,M.J. (1998) Functionality of mutations at conserved nucleotides in eukaryotic SECIS elements is determined by the identify of a single non-conserved nucleotide.
	embojournal.npgjournals.com /cgi/content/full/19/24/6882 (5587 words)

	Supplementary information
		Position specific scoring matrices (PSSMs) for the apical loop and the upper stem of bacterial SECIS element are derived from the segment-based sequence alignment.Log-likelihood ratio was used for scoring the relative likelihood of each alignment.
		Conserved nucleotides are shown in red, including the four non-Watson-Crick base pairs (quartet or SECIS core) and two unpaired adenosines in the apical loop of form I or internal loop of form II structures.
		Predicted bacterial SECIS elements in Sec-containing and Cys-containing fdnG genes in Mannheimia succiniciproducens.
	genomics.unl.edu /bSECISearch/supplement.html (1081 words)

	DATASETS: in silico identification of selenoproteins (Site not responding. Last check: 2007-10-29)
		But the SECIS element is located in the 3' UTR in eukaryotes and archaeas while in the coding region in bacterias (just after the UGA).
		In addition, SECIS elements are also conserved at the primary sequence level when compared at the right phylogenetic distance.
		The SECIS structure, located in the 3' UTR in both eukaryotic and archaea mRNAs, is the secondary/tertiary RNA structure which directs the UGA codon recoding.
	www1.imim.es /datasets/sptetra2004 (1176 words)

	An Ascidian Homolog of Vertebrate Iodothyronine Deiodinases -- Shepherdley et al. 145 (3): 1255 -- Endocrinology
		A, SECIS element structure present in the hrDx gene 3'UTR between nucleotides 939-1030, as predicted by SECISearch analysis (27).
		The SECIS element displays the characteristic adenosine preceding the quartet of non-Watson-Crick base pairs, a UGA_GA motif in the quartet, and two adenosines in the apical loop.
		The expression vector with the endogenous SECIS was transfected
	endo.endojournals.org /cgi/content/full/145/3/1255 (6911 words)

	The function of SECIS RNA in translational control of gene expression in Escherichia coli -- Thanbichler and Böck ... (Site not responding. Last check: 2007-10-29)
		SECIS-like element represses expression of the downstream gene.
		(C) Comparison of the SECIS-like element with the SECIS structures of the fdhF and fdnG mRNAs.
		element is crucial for the repression observed in the wild-type
	embojournal.npgjournals.com /cgi/content/full/21/24/6925 (6192 words)

	Untitled Document (Site not responding. Last check: 2007-10-29)
		Until recently, the element was known, but the existence and function of binding proteins was conjectural, based on the mechanism in prokaryotes.
		Binding to the SECIS element thus recruits the elongation factor to the ribosome as it approaches the UGA codon.
		The position of eukaryotic SECIS elements in the 3'UTR and their ability to recode the entire mRNA (up to 17 UGA codons), not just an adjacent UGA codon, suggests a mechanism distinct from that in prokaryotes.
	www-tiresias.bio.unipd.it /homesele/abstr/L3-A.htm (326 words)

	Decoding apparatus for eukaryotic selenocysteine insertion -- Tujebajeva et al. 1 (2): 158 -- EMBO Reports (Site not responding. Last check: 2007-10-29)
		The presence of a SECIS element in the 3' untranslated region
		element was incubated with SBP2 in the absence or presence of
		D1 SECIS element was incubated with the indicated proteins as for EMSA, followed by UV cross-linking, PAGE and western blotting as described in Methods.
	emboreports.npgjournals.com /cgi/content/full/1/2/158 (3784 words)

	A regulatory role for Sec tRNA[Ser]Sec in selenoprotein synthesis -- JAMESON and DIAMOND 10 (7): 1142 -- RNA
		UGA translation was measured as luciferase activity achieved by the translation of the in-frame UGA codon separating the luc and ßgal genes, and normalized by dividing by ßgal activity.
		SECIS element reflects the suppression of in-frame UGA codons
		The SECIS element is central to the assembly of the Sec insertion
	www.rnajournal.org /cgi/content/full/10/7/1142 (5390 words)

	The prokaryotic selenoproteome -- Kryukov and Gladyshev 5 (5): 538 -- EMBO Reports (Site not responding. Last check: 2007-10-29)
		Alignment of SECIS elements in archaeal selenoprotein genes.
		SECIS elements from eight selenoprotein genes in the M.
		Walczak R, Westhof E, Carbon P, Krol A (1996) A novel RNA structural motif in the selenocysteine insertion element of eukaryotic selenoprotein mRNAs.
	emboreports.npgjournals.com /cgi/content/full/5/5/538 (2786 words)

	Biochemistry, Cellular and Molecular Biology, and Physiological Roles of the Iodothyronine Selenodeiodinases -- Bianco ...
		Identification of the Sec insertion element (SECIS) element.
		codon and the SECIS element are in the 953-nt fourth exon.
		The D2 SECIS elements are form 2 structures (Fig.
	edrv.endojournals.org /cgi/content/full/23/1/38 (9041 words)

	ipedia.com: Messenger RNA Article (Site not responding. Last check: 2007-10-29)
		Some functional elements contained in untranslated regions form a characteristic secondary structure when transcribed into RNA.
		Some, such as the SECIS element, are targets for proteins to bind.
		One class of mRNA element, the riboswitches, directly bind small molecules, changing their fold to modify levels of transcription or translation.
	www.ipedia.com /messenger_rna.html (754 words)

	Nematode selenoproteome: the use of the selenocysteine insertion system to decode one codon in an animal genome? -- ... (Site not responding. Last check: 2007-10-29)
		In nematode SECIS elements, a G is present immediately upstream of the quartet, whereas the majority of mammalian SECIS elements have an A in this position.
		The nematode form of SECIS element is also present in some thyroid hormone deiodinase genes in fish, whereas none of the 25 mammalian selenoproteins has this form.
		The figure illustrates that nematode SECIS elements conserve G upstream of the quartet, whereas SECIS element in homologous genes in other organisms contain A in this position.
	intl-nar.oxfordjournals.org /cgi/content/full/33/7/2227 (5460 words)

	Distribution and Functional Consequences of Nucleotide Polymorphisms in the 3'-Untranslated Region of the Human Sep15 ...
		elements are present in the mRNAs of all of the selenocysteine-containing
		The use of the pBPLUGA reporter plasmid to determine the consequences of the nucleotide at positions 811 and 1125 on SECIS function.
		Berry M. J., Banu L., Harney J. W., Larsen P. Functional characterization of the eukaryotic SECIS elements which direct selenocysteine insertion at UGA codons.
	cancerres.aacrjournals.org /cgi/content/full/61/5/2307 (3724 words)

	proj302 (Site not responding. Last check: 2007-10-29)
		Its specific incorporation into the growingpolypeptide chain during translation is directed by the UGA triplettwhich normally functions as a stop codon.
		In prokaryotes, selenocysteineincorporation has been well characterized and shown to involvefour gene products, and a stem-loop structure called "selenocysteininsertion (SECIS) element" adjacent to the UGA codon forselenocysteine.
		In E.coli, SelB acts as an translation elongation factorswhich interacts with both the tRNA and the SECIS element.
	www.mpibpc.gwdg.de /abteilungen/170/project/proj302.html (364 words)

	EvolvingCode.net - Selenocysteine (Site not responding. Last check: 2007-10-29)
		Instead, it could be thought of as a "molecular parasite." When seleno-proteins need to be made, the UGA codon (normally a stop codon) is translated as selenocysteine.
		The UGA codon is made to encode selenocysteine by the presence of a SECIS element (SElenoCysteine Insertion Sequence) in the mRNA: "an element lying in the 3'-untranslated region of selenoprotein mRNAs" (1).
		The fact that non-standard amino acids can be selectively incorporated into the proteins of some organims tells us that the genetic code is not fixed and that even today it continues to evolve.
	www.evolvingcode.net /index.php?page=Selenocysteine (276 words)

	Methionine Sulfoxide Reduction in Mammals: Characterization of Methionine-R-Sulfoxide Reductases -- Kim and Gladyshev ...
		SECIS element in MsrB1-Sec/SECIS construct and amino acid sequences of the Sec-containing region.
		Arner, E.S., Sarioglu, H., Lottspeich, F., Holmgren, A., and Bock, A. High-level expression in Escherichia coli of selenocysteine-containing rat thioredoxin reductase utilizing gene fusions with engineered bacterial-type SECIS elements and co-expression with the selA, selB and selC genes.
		Fourmy, D., Guittet, E., and Yoshizawa, S. Structure of prokaryotic SECIS mRNA hairpin and its interaction with elongation factor SelB.
	www.molbiolcell.org /cgi/content/full/15/3/1055 (5068 words)

	Assessment of Production Conditions for Efficient Use of Escherichia coli in High-Yield Heterologous Recombinant ...
		The SECIS element binds the SelB elongation factor, the selB
		or with SECIS elements of selenoprotein mRNA molecules (16,
		A sequence in the Escherichia coli fdhF "selenocysteine insertion sequence" (SECIS) operates in the absence of selenium.
	aem.asm.org /cgi/content/full/70/9/5159 (5403 words)

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