Genomic regions with distinct genomic distance conservation in vertebrate genomes by Skogerbø Geir, Sun Hong, Zheng Xiaohui, Liu Wei, Li Yixue

“…The correlation between the percentage of conserved sequence and human IHR length was stronger for IHR1 than IHR2. …”
Get full text

Mammalian <it>BEX</it>, <it>WEX </it>and <it>GASP </it>genes: Coding and non-coding chimaerism sustained by gene conversion events by Ponting Chris P, Winter Eitan E

“…Many of these are highly divergent in their protein-coding regions yet contain a conserved sequence motif in their 5' UTRs which appears to have been maintained by multiple events of concerted evolution. …”
Get full text

A comparative study of short linear motif compositions of the influenza A virus ribonucleoproteins. by Chu-Wen Yang

“…The SLiMs encode a functional interaction interface in a short (three to ten residues) poorly conserved sequence. This characteristic makes them much more likely to arise/disappear spontaneously via mutations, and they may be more evolutionarily labile than globular domains. …”
Get full text

Structural Components for Amplification of Positive and Negative Strand VEEV Splitzicons by Anna K. Blakney, Paul F. McKay, Robin J. Shattock

“…We designed both positive and negative strand splitzicons encoding firefly luciferase as a reporter protein to determine which structural components, including the 5′ untranslated region (UTR), a 51-nucleotide conserved sequence element (CSE) from the first nonstructural protein, the subgenomic promoter (SGP) and corresponding untranslated region, and an internal ribosomal entry site (IRES) affect amplification. …”
Get full text

The complete mitochondrial genome of bean goose (Anser fabalis) and implications for anseriformes taxonomy. by Gang Liu, Lizhi Zhou, Lili Zhang, Zijun Luo, Wenbin Xu

“…The control region of Bean goose mtDNA, with some conserved sequence boxes, such as F, E, D, and C, identified in its central domain. …”
Get full text

Replacement of Arg in the conserved N-terminal RLFDQxFG motif affects physico-chemical properties and chaperone-like activity of human small heat shock protein HspB8 (Hsp22). by Vladislav M Shatov, Nikolai N Sluchanko, Nikolai B Gusev

“…Here we analyze the effect of mutations in a highly conservative sequence located in the N-terminal domain of human HspB8 on its physico-chemical properties and chaperone-like activity. …”
Get full text

rpoB Targeted Loop-Mediated Isothermal Amplification (LAMP) Assay for Consensus Detection of Mycobacteria Associated With Pulmonary Infections by Simon Grandjean Lapierre, Simon Grandjean Lapierre, Michel Drancourt

“…We developed and evaluated a LAMP assay targeting a mycobacterial rpoB gene conserved sequence and incorporating degenerate primers. …”
Get full text

Similarities in transcription factor IIIC subunits that bind to the posterior regions of internal promoters for RNA polymerase III by Matsutani Sachiko

“…In these regions, there were three domains with conserved sequence similarities, one located in the N-terminal end region. …”
Get full text

Distinct retroelement classes define evolutionary breakpoints demarcating sites of evolutionary novelty by Green Eric D, Carone Dawn M, Longo Mark S, O'Neill Michael J, O'Neill Rachel J

“…</p> <p>Results</p> <p>To define conserved sequence features of EBs associated with centromere evolution, we performed comparative sequence analysis of more than 4.8 Mb within the tammar wallaby, <it>Macropus eugenii</it>, derived from centromeric regions (CEN), euchromatic regions (EU), and an evolutionary breakpoint (EB) that has undergone convergent breakpoint reuse and past centromere activity in marsupials. …”
Get full text

<it>In silico </it>identification of the sea squirt selenoproteome by Jiang Liang, Liu Qiong, Ni Jiazuan

“…A method based on this algorithm was developed to build an optimal TGA-containing-ORF for each TGA in a genome, followed by protein similarity analysis through conserved sequence alignments to screen out selenoprotein genes form these ORFs. …”
Get full text

Speeding cis-trans regulation discovery by phylogenomic analyses coupled with screenings of an arrayed library of Arabidopsis transcription factors. by Gabriel Castrillo, Franziska Turck, Magalie Leveugle, Alain Lecharny, Pilar Carbonero, George Coupland, Javier Paz-Ares, Luis Oñate-Sánchez

“…As a proof of concept, in silico analyses of several Brassicaceae LIP1 promoters identified a highly conserved sequence (LIP1 element) that is sufficient to drive strong expression of a reporter gene in planta. …”
Get full text

Investigation of the three-dimensional structure and interaction mechanism of poly (ADP-ribose) polymerase 4 by Ayhan Ünlü, Bircan Dinç

“…In our study, PARP1 and PARP2 and PARP4 sequences in different species were compared; it was found that active sites of PARP1 for human, rat and mouse have highly conserved sequence. Overall folding of PARP1, PARP2 and PARP4 confirms similarity in catalytic domains but can differ in substrate proteins. …”
Get full text

Biochemical and biophysical characterization of the deadenylase CrCaf1 from Chlamydomonas reinhardtii. by Jia-Quan Zhang, Guang-Jun He, Yong-Bin Yan

“…The results showed that CrCaf1 was a deadenylase with conserved sequence motifs, structural features, and catalytic properties of the Caf1 family. …”
Get full text

A conserved arginine-rich motif within the hypervariable N-domain of Drosophila centromeric histone H3 (CenH3) mediates BubR1 recruitment. by Mònica Torras-Llort, Sònia Medina-Giró, Olga Moreno-Moreno, Fernando Azorín

“…Finally, our results also indicate that two other conserved sequence motives within NCenH3(CID) might also be involved in interactions with kinetochore components.…”
Get full text

Hepatitis C virus core antigen assay: can we think beyond convention in resource limited settings? by Anita Chakravarti, Mayank S. Chauhan, Gaurav Dogra, Sayantan Banerjee

“…Estimation of hepatitis C virus core-antigen, a protein with highly conserved sequence, by enzyme-immunoassays is an economic and simpler alternative to RNA detection. …”
Get full text

Identifying functional groups among the diverse, recombining antigenic var genes of the malaria parasite Plasmodium falciparum from a local community in Ghana. by Mary M Rorick, Edward B Baskerville, Thomas S Rask, Karen P Day, Mercedes Pascual

“…This method for functional classification does not rely on an inferred phylogenetic history, nor does it rely on inferring function based on conserved sequence features. Instead, it infers functional similarity among recombining parts based on the sharing of similar co-occurrence interactions with other parts. …”
Get full text

An Evolutionary Marker of the Ribokinase Superfamily Is Responsible for Zinc-Mediated Regulation of Human Pyridoxal Kinase by César A. Ramírez-Sarmiento, Felipe Engelberger, Victoria Guixé

“…The ribokinase superfamily catalyzes the phosphorylation of a vast diversity of substrates, and its members are characterized by the conservation of a common structural fold along with highly conserved sequence motifs responsible for phosphoryl transfer (GXGD) and stabilization of the metal-nucleotide complex (NXXE). …”
Get full text

Initiation, extension, and termination of RNA synthesis by a paramyxovirus polymerase. by Paul C Jordan, Cheng Liu, Pauline Raynaud, Michael K Lo, Christina F Spiropoulou, Julian A Symons, Leo Beigelman, Jerome Deval

“…Using negative-stain electron microscopy, we demonstrated NiV polymerase forms ring-like particles resembling related RNA polymerases. We identified conserved sequence elements driving recognition of the 3'-terminal genomic promoter by NiV polymerase, and leading to initiation of RNA synthesis, primer extension, and transition to elongation mode. …”
Get full text

GANAB and <i>N</i>-Glycans Substrates Are Relevant in Human Physiology, Polycystic Pathology and Multiple Sclerosis: A Review by Roberto De Masi, Stefania Orlando

“…In particular, ER resident <i>N</i>-glycans participate with the Glc₃Man₉GlcNAc₂ highly conserved sequence, in protein folding process, where the physiological balance between glycosylation/deglycosylation on the innermost glucose residue takes place, according GANAB/UGGT concentration ratio. …”
Get full text

Long-range RNA structures in the human transcriptome beyond evolutionarily conserved regions by Sergey Margasyuk, Lev Zavileyskiy, Changchang Cao, Dmitri Pervouchine

“…Signatures of functional RNA structures can be found by detecting compensatory substitutions in homologous sequences, but a comparative approach is applicable only within conserved sequence blocks. Here, we developed a computational pipeline called PHRIC, which is not limited to conserved regions and relies on RNA contacts derived from RNA in situ conformation sequencing (RIC-seq) experiments. …”
Get full text