Sequence target

Finally, the deacetylation of histones in methylated gene regions may be selective with respect to the histone affected. Chromatin immunoprecipitation analysis of the histone acetylation status of proviral sequences targeted to defined genome loci in MEL cells showed that the in vitro methylated proviral sequences that were transcriptionally silent in vivo, were hypoacetylated only with respect to histone H3 in contrast, the acetylation status of histone H4 was comparable on the methylated and unmethylated provirus [78]. Moreover, the H3 acetylation status correlated closely with the location of methylated CpGs along the proviral sequence. 

Thermal denaturation profiles were done using one of the molecular beacon structures in solution, without the alkyl chain linker attached to the 3 -thymidine residue. The fully complementary and single base pair mismatched sequence targets were investigated. The differences of Tm from the melt profiles showed that single base pair mismatches could not be discriminated from the complementary target material. Melt curves were also... 

Pairwise comparison of two sequences is a fundamental process in sequence analysis. It defines the concepts of sequence identity, similarity, and homology as applied to two proteins, DNA or RNA sequences. Database interrogation can take the form of text queries or sequence similarity searches. Typically, the user employs a query sequence to conduct sequence similarity search so that the relationships between the query sequence (probe) and another sequence (target) can be quantified and their similarity assessed. 

Over the past few years, a number of strategies have been developed to screen random peptide libraries for sequences targeting specific proteins. Peptides with desired binding properties can be serially selected and amplified based on a physical link with the encoding cDNA. These technologies include mRNA/DNA, viral, ribosomal, and cell displays with phage display being by far the most commonly used and probably the best understood. 

Probe sequence, target/target hybridization [48,49], stacking interactions [40], experimental imprecision and other factors influence absolute hybridization scores. Due to these factors the full match scores for some probes can be lower than the mismatch scores of others. Because of these uncertainties, control samples or groups of sequence-related probes [12,29-32,39,50] are used to evaluate and transform absolute signals into relative values, which are then used in sequence determination. 

Amplified phage clone sequencing target identification... 

Vims family Query sequences Target sequences Hits... 

After its synthesis in cytoplasm, cytochrome c, must be translocated into the mitochondrial inner membrane space. (Recall that cytochrome c, is a component of complex III of the ETC.) The targeting of cytochrome q requires two sequences. The first targets the polypeptide to the matrix. After this sequence is removed by a protease, the second sequence targets the molecule to the inner membrane space. The second targeting sequence is then also removed. After folding and binding a heme, the molecule associates with complex HI in the inner membrane. 

Fig. 10.9 Chemical modification of siRNA may substantially decrease levels of off-target activity. Unmodified and modified siRNAs of identical sequences targeting mitogen-activated protein kinase 1 (MAPKl) were introduced into HeLa cells. Gene expression changes were evaluated by Agilent...

A Hydrophobic N-Terminal Signal Sequence Targets Nascent Secretory Proteins to the ER... 

Different or additional sequences target proteins to organelle membranes and subcompartments. See Chapter 12 for targeting sequences required for uptake of proteins into the nucleus. 

Like other secreted proteins, laminin is synthesized with a leader sequence targeting the three chains to the endoplasmic reticulum. Chain association occurs within the Golgi apparatus before secretion from the cell. After laminin is secreted by the cell, the amino terminal extensions promote self-association, as well as the binding to other ECM components. Disulfide linkages are formed to stabilize the trimer, but there is much less posttranslational processing of laminin than there is of collagen and elastin. 

The sequences targeted by restriction endonucleases are palindromes, meaning their sequence reads the same on both strands going in the same direction. 

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