procite - UWI St. Augustine
... protein plays an important role in the regulation of N-glycosylation [2]. It has been shown [3] that the presence of proline between Asn and Ser/Thr will inhibit N-glycosylation; this has been confirmed by a recent [4] statistical analysis of glycosylation sites, which also shows that about 50% of t ...
... protein plays an important role in the regulation of N-glycosylation [2]. It has been shown [3] that the presence of proline between Asn and Ser/Thr will inhibit N-glycosylation; this has been confirmed by a recent [4] statistical analysis of glycosylation sites, which also shows that about 50% of t ...
Understanding The Function And Regulation Of Eukaryotic Release
... eRF1 is able to mediate this essential function, we extensively analyzed two motifs known to play a significant role in stop codon recognition. We found that the YCF motif most often contributed to eRF1 selective stop codon specificity while changes in the TASNIKS motif displayed non-specific stop c ...
... eRF1 is able to mediate this essential function, we extensively analyzed two motifs known to play a significant role in stop codon recognition. We found that the YCF motif most often contributed to eRF1 selective stop codon specificity while changes in the TASNIKS motif displayed non-specific stop c ...
Nonstop mRNA Decay: a Special Attribute of Trans
... components of the translation machinery. Bacteria have evolved three seemingly independent pathways to resolve stalled translation complexes. The trans-translation process, orchestrated by the hybrid transfer-messenger RNA (tmRNA) and its essential protein co-factor, SmpB, is the principal translati ...
... components of the translation machinery. Bacteria have evolved three seemingly independent pathways to resolve stalled translation complexes. The trans-translation process, orchestrated by the hybrid transfer-messenger RNA (tmRNA) and its essential protein co-factor, SmpB, is the principal translati ...
two types of titin interactions lead to an asymmetrical sorting of actinin
... sorting of the molecule. Rather, a second Z-disk-specific binding site could be predicted from these observations, which should be important for the correct assembly of the Z-disk. In this work, we have identified this second sarcomeric binding site of α-actinin as an interaction between the spectri ...
... sorting of the molecule. Rather, a second Z-disk-specific binding site could be predicted from these observations, which should be important for the correct assembly of the Z-disk. In this work, we have identified this second sarcomeric binding site of α-actinin as an interaction between the spectri ...
The Bacterial Toxin RelE Displays Codon
... (relB) is located upstream of the toxin gene (relE) and both are translated from one mRNA transcript (Bech et al., 1985). RelB and RelE form a non-toxic protein complex (Galvani et al., 2001), which together with free RelB autogenously regulate transcription of relBE (Gotfredsen and Gerdes, 1998). D ...
... (relB) is located upstream of the toxin gene (relE) and both are translated from one mRNA transcript (Bech et al., 1985). RelB and RelE form a non-toxic protein complex (Galvani et al., 2001), which together with free RelB autogenously regulate transcription of relBE (Gotfredsen and Gerdes, 1998). D ...
Structure-based design and functional studies of novel noroviral 3C
... hydrogen bonds and five salt bridges. Both of these values compare very favourably with the equivalent values of − 19.5 kcal/mol (17 hydrogen bond and 12 salt bridges) for the two domains of the wild-type SV protease and − 21.1 kcal/mol (six hydrogen bonds and two salt bridges) for the wild-type MNV ...
... hydrogen bonds and five salt bridges. Both of these values compare very favourably with the equivalent values of − 19.5 kcal/mol (17 hydrogen bond and 12 salt bridges) for the two domains of the wild-type SV protease and − 21.1 kcal/mol (six hydrogen bonds and two salt bridges) for the wild-type MNV ...
Structure-Function Analysis of SH3 Domains: SH3
... family protein tyrosine kinases (13, 14). This domain mediates protein-protein interactions that are important for coupling of intracellular signaling pathways, regulation of catalytic activity of proteins, recruitment of substrates to enzymes, and localization of proteins to a specific subcellular ...
... family protein tyrosine kinases (13, 14). This domain mediates protein-protein interactions that are important for coupling of intracellular signaling pathways, regulation of catalytic activity of proteins, recruitment of substrates to enzymes, and localization of proteins to a specific subcellular ...
The Role of the N-Terminal Domains of Bacterial Initiator DnaA in
... and protein-DNA interactions between initiation complex components, and check-point steps vary among organisms, with greater differences occurring among more unrelated taxonomic groups [3,4]. It is assumed that the molecular mechanism of replication initiation and its control are simplest in bacteri ...
... and protein-DNA interactions between initiation complex components, and check-point steps vary among organisms, with greater differences occurring among more unrelated taxonomic groups [3,4]. It is assumed that the molecular mechanism of replication initiation and its control are simplest in bacteri ...
Interactions of Annexins with the mu Subunits of the Clathrin
... ABSTRACT: A number of biochemical and genetic studies have suggested that certain annexins play important roles in the endocytic pathway, possibly involving the generation, localization, or fusion of endocytic compartments. In a yeast two-hybrid screen for proteins that interact with the N-terminal ...
... ABSTRACT: A number of biochemical and genetic studies have suggested that certain annexins play important roles in the endocytic pathway, possibly involving the generation, localization, or fusion of endocytic compartments. In a yeast two-hybrid screen for proteins that interact with the N-terminal ...
Ribosomal Stalk Protein L12: Structure, Function and
... forms of life, where ribosome plays a crucial role together with its accessories. Ribosomes are large ribonucleoprotein complexes with 200- 250 Å in diameter and with an approximate mass of 2.5 MDa (for review see (Wilson and Nierhaus 2007; Schmeing and Ramakrishnan 2009)). The macromolecular nature ...
... forms of life, where ribosome plays a crucial role together with its accessories. Ribosomes are large ribonucleoprotein complexes with 200- 250 Å in diameter and with an approximate mass of 2.5 MDa (for review see (Wilson and Nierhaus 2007; Schmeing and Ramakrishnan 2009)). The macromolecular nature ...
Diacylglycerol kinase zeta in hypothalamus interacts with long form leptin receptor. Relation to dietary fat and body weight regulation
... pET-32a(⫹) (Novagen) for expression as thioredoxin (Trx) fusion proteins in bacterial strain BL21(DE3)pLysS (Novagen). To generate ObRbt, pET-32a(⫹)-Ob-Rbc was digested by KpnI, followed by T4 DNA polymerase and ligation. The bacteria expressing Trx-Ob-Rbc and TrxOb-Rbt were solubilized in buffer TU ...
... pET-32a(⫹) (Novagen) for expression as thioredoxin (Trx) fusion proteins in bacterial strain BL21(DE3)pLysS (Novagen). To generate ObRbt, pET-32a(⫹)-Ob-Rbc was digested by KpnI, followed by T4 DNA polymerase and ligation. The bacteria expressing Trx-Ob-Rbc and TrxOb-Rbt were solubilized in buffer TU ...
Glycation by Ascorbic Acid Causes Loss of Activity of Ribulose
... protein was also confirmed by autoradiography (Fig. 3B). In this experiment, radioactivity was detected both in monomeric and aggregated subunits after 6 d incubation (Fig. 3B). From the results of incorporation of [14C]AsA and changes in spectra curve (Fig. 1B, 2), the incorporation of AsA to Rubis ...
... protein was also confirmed by autoradiography (Fig. 3B). In this experiment, radioactivity was detected both in monomeric and aggregated subunits after 6 d incubation (Fig. 3B). From the results of incorporation of [14C]AsA and changes in spectra curve (Fig. 1B, 2), the incorporation of AsA to Rubis ...
Bacterial ribosome requires multiple L12 dimers for efficient initiation
... and was contradicted by an NMR structure where both the hinges were seen in fully extended form (9,11). Thus it is now universally accepted that the L12 dimer is ‘antiparallel’ where NTDs of two L12 molecules form a four-helix bundle dimer occupying the same site on L10. This model is supported by t ...
... and was contradicted by an NMR structure where both the hinges were seen in fully extended form (9,11). Thus it is now universally accepted that the L12 dimer is ‘antiparallel’ where NTDs of two L12 molecules form a four-helix bundle dimer occupying the same site on L10. This model is supported by t ...
Acyl-CoA oxidase is imported as a heteropentameric, cofactor
... isoforms constitute a 443-kD heteropentameric complex. (A) Peroxisomes purified from the 20KgP fraction of YPBO-grown wild-type (P01d) cells were lysed by addition of LC buffer and subjected to centrifugation to yield a supernatant enriched for matrix proteins. Matrix proteins were subjected to immu ...
... isoforms constitute a 443-kD heteropentameric complex. (A) Peroxisomes purified from the 20KgP fraction of YPBO-grown wild-type (P01d) cells were lysed by addition of LC buffer and subjected to centrifugation to yield a supernatant enriched for matrix proteins. Matrix proteins were subjected to immu ...
Laalami S., Zig L. and H. Putzer - Institut de Biologie Physico
... are often short (less than 450 aa) corresponding in length to E. coli RNase G or the catalytic domain of RNase E. This implies that they can not form an E. coli-type degradosome (see below). We could thus look at these nucleases as a toolkit provided by evolution to adapt the strategies directing mR ...
... are often short (less than 450 aa) corresponding in length to E. coli RNase G or the catalytic domain of RNase E. This implies that they can not form an E. coli-type degradosome (see below). We could thus look at these nucleases as a toolkit provided by evolution to adapt the strategies directing mR ...
The mechanism of Stx2 enrichment in outer membrane vesicles of
... association with outer membrane vesicles (OMVs). Inclusion into OMVs has been shown to increase toxin potency [9], enhance delivery [8, 9, 28-32], and protect from degradation [6, 8, 10, 29, 30, 33]. In addition, sequestration inside of OMVs can hide the toxins from antibodies which can bind and ina ...
... association with outer membrane vesicles (OMVs). Inclusion into OMVs has been shown to increase toxin potency [9], enhance delivery [8, 9, 28-32], and protect from degradation [6, 8, 10, 29, 30, 33]. In addition, sequestration inside of OMVs can hide the toxins from antibodies which can bind and ina ...
ASD v2.0: updated content and novel features
... In the new version of ASD 2.0, the allosteric proteins and allosteric modulators deposited have been approximately trebled to 1286 and 22 008, the allosteric interactions and allosteric diseases increased to 23 099 and 565, respectively, and for the first time, 218 unique allosteric site structures a ...
... In the new version of ASD 2.0, the allosteric proteins and allosteric modulators deposited have been approximately trebled to 1286 and 22 008, the allosteric interactions and allosteric diseases increased to 23 099 and 565, respectively, and for the first time, 218 unique allosteric site structures a ...
Organization of Physical Interactomes as
... That is, network schemas describe proteins and specify the topology of interactions among them. A single network schema can describe, for example, a common template that underlies several distinct cellular pathways, such as signaling pathways. We develop a computational methodology for identifying n ...
... That is, network schemas describe proteins and specify the topology of interactions among them. A single network schema can describe, for example, a common template that underlies several distinct cellular pathways, such as signaling pathways. We develop a computational methodology for identifying n ...
Cbp3–Cbp6 interacts with the yeast mitochondrial ribosomal tunnel
... mRNAs, we used strains carrying intronless mitochondrial genomes. Thus, the mRNAs are present in constant quantities, allowing us to assess their translation independent of the splicing processes. Mitochondrial translation products of wild type or cells lacking CBP3 were pulse labeled with [35S]meth ...
... mRNAs, we used strains carrying intronless mitochondrial genomes. Thus, the mRNAs are present in constant quantities, allowing us to assess their translation independent of the splicing processes. Mitochondrial translation products of wild type or cells lacking CBP3 were pulse labeled with [35S]meth ...
Developement of strategies for the isotopic labeling of methyl
... to cope with this scarce structural information, relying on the simultaneous labeling of several methyl groups to increase the number of probes. For optimized combinatorial labeling, the choice of the amino acids to label simultaneously and the precursors as well as the protocol for their incorporat ...
... to cope with this scarce structural information, relying on the simultaneous labeling of several methyl groups to increase the number of probes. For optimized combinatorial labeling, the choice of the amino acids to label simultaneously and the precursors as well as the protocol for their incorporat ...
Early events in protein folding
... has only three possible configurations. If the sampling takes place at a rate equal to that of bond vibrations, i.e. 1013 s–1, then it would take 1027 years for an unfolded polypeptide chain to complete the search for its native conformation1. The discrepancy between this large time estimate and the ...
... has only three possible configurations. If the sampling takes place at a rate equal to that of bond vibrations, i.e. 1013 s–1, then it would take 1027 years for an unfolded polypeptide chain to complete the search for its native conformation1. The discrepancy between this large time estimate and the ...
Origin of the catalytic activity of bovine seminal ribonuclease against
... EDTA, 10 mM reduced glutathione, 1 mM oxidized glutathione, 1 mM PMSF, and 0.02% NaN3) and the proteins were refolded for 6-12 h at 4 °C. The solution was centrifuged (7000g, 30 min, 4 °C), and the supernatant was dialyzed against NH4OAc buffer (20 mM, with 0.02% NaN3, pH 8). A small amount of preci ...
... EDTA, 10 mM reduced glutathione, 1 mM oxidized glutathione, 1 mM PMSF, and 0.02% NaN3) and the proteins were refolded for 6-12 h at 4 °C. The solution was centrifuged (7000g, 30 min, 4 °C), and the supernatant was dialyzed against NH4OAc buffer (20 mM, with 0.02% NaN3, pH 8). A small amount of preci ...
With No Lysine (WNK) Family Proteins and Their
... FIGURE 2-2 Domain structure of WNK kinases .............................................................. 9 FIGURE 2-3 Domain structure of OSR1.......................................................................... 26 FIGURE 2-4 RFXV bound to OSR1 PF2 domain....................................... ...
... FIGURE 2-2 Domain structure of WNK kinases .............................................................. 9 FIGURE 2-3 Domain structure of OSR1.......................................................................... 26 FIGURE 2-4 RFXV bound to OSR1 PF2 domain....................................... ...
Gene silencing in Caenorhabditis elegans by transitive RNA
... Unc-22 animals were generated when GFP–unc-22 haircompetent to induce a lethal phenotype as GFP–FL for both pin dsRNA produced in bacteria was fed to animals carrying pha-4::GFP and tlf-1::GFP transgenes. This result suggests pha-4::GFP, pGFP, or tlf-1::GFP transgenes (Figs. 4B and that dsRNA synthe ...
... Unc-22 animals were generated when GFP–unc-22 haircompetent to induce a lethal phenotype as GFP–FL for both pin dsRNA produced in bacteria was fed to animals carrying pha-4::GFP and tlf-1::GFP transgenes. This result suggests pha-4::GFP, pGFP, or tlf-1::GFP transgenes (Figs. 4B and that dsRNA synthe ...
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.