Feeney_ku_0099D_12934_DATA_1 - KU ScholarWorks
... Purpose: Oxidative post-translational modification of protein-bound tyrosine residues can have a significant impact on protein structure and function and thus may be important to physiological and pathological processes. Oxidative stress has been correlated with biological aging and many disease sta ...
... Purpose: Oxidative post-translational modification of protein-bound tyrosine residues can have a significant impact on protein structure and function and thus may be important to physiological and pathological processes. Oxidative stress has been correlated with biological aging and many disease sta ...
M6PRs are found in a subset of PC12 cell ISGs
... Fig. 1. Subcellular fractionation reveals that both the CI- and the CDM6PR are found in fractions which contain ISGs but not MSGs. (A) Fractions from a velocity sucrose gradient of a post-nuclear supernatant obtained from PC12 cells were immunoblotted with antibodies to the CI- and CD-M6PRs. The loc ...
... Fig. 1. Subcellular fractionation reveals that both the CI- and the CDM6PR are found in fractions which contain ISGs but not MSGs. (A) Fractions from a velocity sucrose gradient of a post-nuclear supernatant obtained from PC12 cells were immunoblotted with antibodies to the CI- and CD-M6PRs. The loc ...
Ro52: Structure and interactions of constructs of RING and B-box
... The ubiquitination process is vital to maintain the protein homeostasis in the cell. With high specificity it regulates degradation of proteins by tagging them with a small protein called ubiquitin. Four proteins are involved to perform the process and in this thesis one of these proteins is studied ...
... The ubiquitination process is vital to maintain the protein homeostasis in the cell. With high specificity it regulates degradation of proteins by tagging them with a small protein called ubiquitin. Four proteins are involved to perform the process and in this thesis one of these proteins is studied ...
scf and cullin/ring h2-based
... inhibitor Sic1. Sic1 is normally destroyed as wild-type cells progress from G1 to S phase but persists indefinitely in the cdc mutants. Subsequently, it was shown that skp1ts mutants have a similar phenotype (Bai et al 1996). yCdc34 was a logical candidate for a Sic1 destabilizing factor because it ...
... inhibitor Sic1. Sic1 is normally destroyed as wild-type cells progress from G1 to S phase but persists indefinitely in the cdc mutants. Subsequently, it was shown that skp1ts mutants have a similar phenotype (Bai et al 1996). yCdc34 was a logical candidate for a Sic1 destabilizing factor because it ...
PDZ proteins retain and regulate membrane transporters in
... opposing membrane domain (i.e., transcytosis). As discussed below, PDZ proteins have been implied in one or more of these steps for both apical and basolateral membrane proteins. PDZ DOMAINS, PROTEINS, AND LIGANDS ...
... opposing membrane domain (i.e., transcytosis). As discussed below, PDZ proteins have been implied in one or more of these steps for both apical and basolateral membrane proteins. PDZ DOMAINS, PROTEINS, AND LIGANDS ...
Interactions of liposomes and lipid-based carrier systems with blood
... Noteworthy are two proteins with apparent molecular weights of 22 000 and 14 000 that are associated with LUVs in vivo but are absent from recovered LUVs in vitro [8]. PB values have turned out to be very useful in assessing the relation between the surface adsorption properties and the clearance be ...
... Noteworthy are two proteins with apparent molecular weights of 22 000 and 14 000 that are associated with LUVs in vivo but are absent from recovered LUVs in vitro [8]. PB values have turned out to be very useful in assessing the relation between the surface adsorption properties and the clearance be ...
Protein phosphorylation in chloroplasts – a survey of
... study. Unless cumulated datasets are re-analysed with well-defined database matching parameters, it is not possible to determine their false discovery rate (FDR). This problem is small when the cumulated data originate from a few up-to-date studies that usually operate at FDRs between 0.1 and 1% at ...
... study. Unless cumulated datasets are re-analysed with well-defined database matching parameters, it is not possible to determine their false discovery rate (FDR). This problem is small when the cumulated data originate from a few up-to-date studies that usually operate at FDRs between 0.1 and 1% at ...
Introduction - ART
... constitutes a functional portion of a single protein, in which a protein interaction domain or domains are also present for the substrate recruitment. One of the earliest identified E3s of this subgroup is Cbl. Cbl is a 120 kDa protooncogene product that is comprised of an N-terminal tyrosine kinase ...
... constitutes a functional portion of a single protein, in which a protein interaction domain or domains are also present for the substrate recruitment. One of the earliest identified E3s of this subgroup is Cbl. Cbl is a 120 kDa protooncogene product that is comprised of an N-terminal tyrosine kinase ...
Sample pages 1 PDF
... (Fig. 2.4). In bacteria, the 30S subunit directly binds mRNA in the vicinity of the start codon. This process is mediated by the Shine–Dalgarno sequence, a unique feature of bacterial mRNAs that is located upstream of the start codon (Shine and Dalgarno 1974). This sequence interacts with a compleme ...
... (Fig. 2.4). In bacteria, the 30S subunit directly binds mRNA in the vicinity of the start codon. This process is mediated by the Shine–Dalgarno sequence, a unique feature of bacterial mRNAs that is located upstream of the start codon (Shine and Dalgarno 1974). This sequence interacts with a compleme ...
Short hydrogen bonds in proteins - Molecular Biophysics Unit
... 2.7 Å. The distribution of the SC-SC SHBs is also high, and increases gradually from 2.3 Å to 2.65 Å. The distribution of the BB-SC and the SC-BB cases increases gradually from 2.45 Å to 2.65 Å though the numbers are significantly less when compared to the occurrence of the BB-BB and the SC-SC c ...
... 2.7 Å. The distribution of the SC-SC SHBs is also high, and increases gradually from 2.3 Å to 2.65 Å. The distribution of the BB-SC and the SC-BB cases increases gradually from 2.45 Å to 2.65 Å though the numbers are significantly less when compared to the occurrence of the BB-BB and the SC-SC c ...
Limited Complexity of the RNA in Micromeres of
... 64-cell RNA hybridization reaction proceeds more rapidly, as might be expected since there are now more than two times as many nuclei in the same mass of cytoplasm. This is apparently due to an increase in the concentration of complex sequences in the total RNA. The dashed lines in Fig. 2 (see legen ...
... 64-cell RNA hybridization reaction proceeds more rapidly, as might be expected since there are now more than two times as many nuclei in the same mass of cytoplasm. This is apparently due to an increase in the concentration of complex sequences in the total RNA. The dashed lines in Fig. 2 (see legen ...
Isotope-labeled Peptides
... In recent times, there have been dramatic improvements in the identification and development of novel biomarkers for diagnostic and therapeutic applications. The advent of stable isotopes has allowed the relative or even absolute quantification of proteins by mass spectrometric techniques based upon ...
... In recent times, there have been dramatic improvements in the identification and development of novel biomarkers for diagnostic and therapeutic applications. The advent of stable isotopes has allowed the relative or even absolute quantification of proteins by mass spectrometric techniques based upon ...
Methodology for predicting semantic annotations of protein
... The basis of cell and molecular biology: a) DNA replication one doublestranded DNA molecule produces two identical copies of the DNA, b) RNA transcription a segment of DNA is copied into RNA by the enzyme RNA polymerase, if the gene transcribed encodes a protein, the result of transcription is the m ...
... The basis of cell and molecular biology: a) DNA replication one doublestranded DNA molecule produces two identical copies of the DNA, b) RNA transcription a segment of DNA is copied into RNA by the enzyme RNA polymerase, if the gene transcribed encodes a protein, the result of transcription is the m ...
Hitting the Target: Emerging Technologies in the Search for Kinase
... against by the kinase at each site surrounding the phosphorylation site. These data can then be formatted into a selectivity matrix for protein database searches for candidate kinase substrates with the Web-based program Scansite [http://scansite. mit.edu (15)]. Thus far, the amino acid selectivitie ...
... against by the kinase at each site surrounding the phosphorylation site. These data can then be formatted into a selectivity matrix for protein database searches for candidate kinase substrates with the Web-based program Scansite [http://scansite. mit.edu (15)]. Thus far, the amino acid selectivitie ...
The nucleolus through the years
... precursors of patients treated with targeted cytostatic therapy and possibly was not followed by a further differentiation of these cells (Smetana et al. 2009). Nucleolin and nucleophosmin, participating in the RNA processing and assembly of pre-ribosomes, bind silver under defined conditions of the ...
... precursors of patients treated with targeted cytostatic therapy and possibly was not followed by a further differentiation of these cells (Smetana et al. 2009). Nucleolin and nucleophosmin, participating in the RNA processing and assembly of pre-ribosomes, bind silver under defined conditions of the ...
Chapter 3 Kinetic analysis of ribozyme cleavage
... ‘ribozyme’. Strictly speaking, a catalyst accelerates a multiple-turnover reaction without being changed itself. A few catalytic RNAs have this property, for example, RNase P and 23S rRNA; however, most ribozymes, in natural or evolved form, do not. For example, hairpin, HDV, VS1, and group I and gr ...
... ‘ribozyme’. Strictly speaking, a catalyst accelerates a multiple-turnover reaction without being changed itself. A few catalytic RNAs have this property, for example, RNase P and 23S rRNA; however, most ribozymes, in natural or evolved form, do not. For example, hairpin, HDV, VS1, and group I and gr ...
RT-PCR Master Mix (2X)
... RNA compared to contaminating genomic DNA. For primers crossing an exon-exon border, PCR product should not be generated from genomic DNA. Be aware that common housekeeping genes such as β-actin or GAPDH have intron-less pseudogenes in many organisms. In those cases, it is important to have RNA whic ...
... RNA compared to contaminating genomic DNA. For primers crossing an exon-exon border, PCR product should not be generated from genomic DNA. Be aware that common housekeeping genes such as β-actin or GAPDH have intron-less pseudogenes in many organisms. In those cases, it is important to have RNA whic ...
Fluorescent Probe Studies of Proteins
... acid (ANS): Catalytic assays of phosphorylase kinase A number of fluorescent probes exhibit fluorescence char- ...
... acid (ANS): Catalytic assays of phosphorylase kinase A number of fluorescent probes exhibit fluorescence char- ...
Protein Structure and Interactions
... folding of other proteins often by preventing aggregation of folding intermediates. Another important class of chaperones is ribonucleic acid (RNA) chaperones. RNA chaperones are proteins that facilitate conformational changes of RNA molecules to assist the assembly and disassembly of RNA–RNA and RN ...
... folding of other proteins often by preventing aggregation of folding intermediates. Another important class of chaperones is ribonucleic acid (RNA) chaperones. RNA chaperones are proteins that facilitate conformational changes of RNA molecules to assist the assembly and disassembly of RNA–RNA and RN ...
Pokeweed Antiviral Protein, a Ribosome Inactivating Protein: Activity
... (lac) promoter with an extremely low yield (0.13%–0.16% of the total bacterial protein) [82]. It was found that even the low level of gene expression slowed down bacterial growth significantly. Chen et al., also found that elimination of N-terminal signal peptide codons (22 amino acids) from the PAP ...
... (lac) promoter with an extremely low yield (0.13%–0.16% of the total bacterial protein) [82]. It was found that even the low level of gene expression slowed down bacterial growth significantly. Chen et al., also found that elimination of N-terminal signal peptide codons (22 amino acids) from the PAP ...
Localization of protein-binding sites within families of proteins
... We address the question of whether or not the positions of protein-binding sites on homologous protein structures are conserved irrespective of the identities of their binding partners. First, for each domain family in the Structural Classification of Proteins (SCOP), protein-binding sites are extra ...
... We address the question of whether or not the positions of protein-binding sites on homologous protein structures are conserved irrespective of the identities of their binding partners. First, for each domain family in the Structural Classification of Proteins (SCOP), protein-binding sites are extra ...
The HSP90-SGT1 Chaperone Complex for NLR
... may disrupt its packing conformation, resulting in an open and active state. Several autoactive or autoimmune mutants of plant NLR proteins contain mutations in this pocket (10, 108, 117). Because similar mutations in human NOD2 cause autoimmune phenotypes, this domain likely represents a conserved ...
... may disrupt its packing conformation, resulting in an open and active state. Several autoactive or autoimmune mutants of plant NLR proteins contain mutations in this pocket (10, 108, 117). Because similar mutations in human NOD2 cause autoimmune phenotypes, this domain likely represents a conserved ...
and gender-specific hallmarks
... addressed. Most of the studies have largely relied on a variety of experimental models of obesity and cultured adipocytes, and most of them have resorted to electrophoretic protein separation, which has very limited proteome coverage and results in a poor representation of low-abundant or very hydro ...
... addressed. Most of the studies have largely relied on a variety of experimental models of obesity and cultured adipocytes, and most of them have resorted to electrophoretic protein separation, which has very limited proteome coverage and results in a poor representation of low-abundant or very hydro ...
The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to
... 1974, 1975). SPBs in fission yeast have a similar but not identical structure. Importantly, the S. pombe SPB is also embedded in the nuclear envelope, possibly by its SUN protein, Sad1 (Hagan and Yanagida, 1995). Until now, the budding yeast orthologue of Sad1 had not been identified. The half-bridg ...
... 1974, 1975). SPBs in fission yeast have a similar but not identical structure. Importantly, the S. pombe SPB is also embedded in the nuclear envelope, possibly by its SUN protein, Sad1 (Hagan and Yanagida, 1995). Until now, the budding yeast orthologue of Sad1 had not been identified. The half-bridg ...
the selective interruption of nucleolar rna synthesis in hela cells by
... of 3'dA on the incorporation of labeled precursors into whole cell TCA-precipitable material . A concentration of 25 µg/ml depresses uridine incorporation (total RNA synthesis) by 50%, while thymidine incorporation (DNA synthesis) and amino acid incorporation (protein synthesis) are unaffected at 50 ...
... of 3'dA on the incorporation of labeled precursors into whole cell TCA-precipitable material . A concentration of 25 µg/ml depresses uridine incorporation (total RNA synthesis) by 50%, while thymidine incorporation (DNA synthesis) and amino acid incorporation (protein synthesis) are unaffected at 50 ...
SR protein
SR proteins are a conserved family of proteins involved in RNA splicing. SR proteins are named because they contain a protein domain with long repeats of serine and arginine amino acid residues, whose standard abbreviations are ""S"" and ""R"" respectively. SR proteins are 50-300 amino acids in length and composed of two domains, the RNA recognition motif (RRM) region and the RS binding domain. SR proteins are more commonly found in the nucleus than the cytoplasm, but several SR proteins are known to shuttle between the nucleus and the cytoplasm.SR proteins were discovered in the 1990s in Drosophila and in amphibian oocytes, and later in humans. In general, metazoans appear to have SR proteins and unicellular organisms lack SR proteins.SR proteins are important in constitutive and alternative pre-mRNA splicing, mRNA export, genome stabilization, nonsense-mediated decay, and translation. SR proteins alternatively splice pre-mRNA by preferentially selecting different splice sites on the pre-mRNA strands to create multiple mRNA transcripts from one pre-mRNA transcript. Once splicing is complete the SR protein may or may not remain attached to help shuttle the mRNA strand out of the nucleus. As RNA Polymerase II is transcribing DNA into RNA, SR proteins attach to newly made pre-mRNA to prevent the pre-mRNA from binding to the coding DNA strand to increase genome stabilization. Topoisomerase I and SR proteins also interact to increase genome stabilization. SR proteins can control the concentrations of specific mRNA that is successfully translated into protein by selecting for nonsense-mediated decay codons during alternative splicing. SR proteins can alternatively splice NMD codons into its own mRNA transcript to auto-regulate the concentration of SR proteins. Through the mTOR pathway and interactions with polyribosomes, SR proteins can increase translation of mRNA.Ataxia telangiectasia, neurofibromatosis type 1, several cancers, HIV-1, and spinal muscular atrophy have all been linked to alternative splicing by SR proteins.