Amino acid substitutions that specifically impair the transcriptional
... Brd4(L). As can be been seen in Figs. 2A and B, Brd4(L) was indeed detected in the eluates from the GST-E2 TAD column but not those from control columns. Similar experiments were then performed with the E2 TAD from HPV31. For this type also, the eluate from the column containing the GST-E2 TAD conta ...
... Brd4(L). As can be been seen in Figs. 2A and B, Brd4(L) was indeed detected in the eluates from the GST-E2 TAD column but not those from control columns. Similar experiments were then performed with the E2 TAD from HPV31. For this type also, the eluate from the column containing the GST-E2 TAD conta ...
Comparison of Protein Active Site Structures for
... features of active sites by using descriptors mimicking important properties of amino acids. Instead, the CPASS database is composed of ligand-defined protein active site structures culled from the protein data bank (PDB). A total of 34,000 X-ray and NMR structures that are currently available in t ...
... features of active sites by using descriptors mimicking important properties of amino acids. Instead, the CPASS database is composed of ligand-defined protein active site structures culled from the protein data bank (PDB). A total of 34,000 X-ray and NMR structures that are currently available in t ...
Chapter 17
... The Functional and Evolutionary Importance of Introns • Some genes can encode more than one kind of polypeptide, depending on which segments are treated as exons during RNA splicing • Such variations are called alternative RNA splicing • Because of alternative splicing, the number of different prot ...
... The Functional and Evolutionary Importance of Introns • Some genes can encode more than one kind of polypeptide, depending on which segments are treated as exons during RNA splicing • Such variations are called alternative RNA splicing • Because of alternative splicing, the number of different prot ...
Linking folding and binding
... to the much larger and folded Pal [25]. Colicin mimics key interactions within the TolB–Pal interface, while preventing the conformational change in TolB that is induced by binding of its cognate partner Pal. A feature of many disordered recognition elements is that they can fold into different str ...
... to the much larger and folded Pal [25]. Colicin mimics key interactions within the TolB–Pal interface, while preventing the conformational change in TolB that is induced by binding of its cognate partner Pal. A feature of many disordered recognition elements is that they can fold into different str ...
ecify proteins via transcription and translation
... grouped as prokaryotes because their cells lack a membranebounded nucleus-a defining feature of eukaryotic cells. Most studies of transcription and translation have been done on bacteria and eukaryotes, which are therefore our main focus in this chapter. Although our understanding of these processes ...
... grouped as prokaryotes because their cells lack a membranebounded nucleus-a defining feature of eukaryotic cells. Most studies of transcription and translation have been done on bacteria and eukaryotes, which are therefore our main focus in this chapter. Although our understanding of these processes ...
m.se.hccs.edu
... The Functional and Evolutionary Importance of Introns • Some genes can encode more than one kind of polypeptide, depending on which segments are treated as exons during RNA splicing • Such variations are called alternative RNA splicing • Because of alternative splicing, the number of different prot ...
... The Functional and Evolutionary Importance of Introns • Some genes can encode more than one kind of polypeptide, depending on which segments are treated as exons during RNA splicing • Such variations are called alternative RNA splicing • Because of alternative splicing, the number of different prot ...
Finding of a novel fungal immunomodulatory protein coding
... species’ bioactive therapeutic proteins has been cloned and efficiently expressed in molecular vectors (Wu et al., 2013). Furthermore, other Ganoderma species have also been shown to be effective in diverse biotechnological applications for medicinal use. Ganoderma applanatum, G. tsugae, G. sinense, ...
... species’ bioactive therapeutic proteins has been cloned and efficiently expressed in molecular vectors (Wu et al., 2013). Furthermore, other Ganoderma species have also been shown to be effective in diverse biotechnological applications for medicinal use. Ganoderma applanatum, G. tsugae, G. sinense, ...
Intrinsically Disordered Domains of the B Cell Receptor
... Intrinsically disordered proteins A long-standing belief has been that the functional properties of proteins depend upon their three-dimensional structure, the so-called structurefunction paradigm [9]. The primary origin for this paradigm was the "lockand-key" model (Emil Fischer 1894), wh ...
... Intrinsically disordered proteins A long-standing belief has been that the functional properties of proteins depend upon their three-dimensional structure, the so-called structurefunction paradigm [9]. The primary origin for this paradigm was the "lockand-key" model (Emil Fischer 1894), wh ...
Protein Dynamics in the Plant Extracellular Space
... receptor-like kinases (RLKs) [35]. Examples are: wall-associated kinases (WAKs), lectin receptor kinases (LecRKs), and receptor kinases containing Leucine-rich repeats (LRRs). These proteins have a cytoplasmic kinase domain and extracellular specific domains, and it was proposed they function by sen ...
... receptor-like kinases (RLKs) [35]. Examples are: wall-associated kinases (WAKs), lectin receptor kinases (LecRKs), and receptor kinases containing Leucine-rich repeats (LRRs). These proteins have a cytoplasmic kinase domain and extracellular specific domains, and it was proposed they function by sen ...
tRNA Core Hypothesis for the Transition from the RNA World to the
... by complementarity between nucleotides. Amino acids in prebiotic conditions were abundant, but their incorporation to primitive forms of life should have been dependent on the chemical interaction with the ribozymes, which introduced a compositional bias induced by hydropathic correlations between a ...
... by complementarity between nucleotides. Amino acids in prebiotic conditions were abundant, but their incorporation to primitive forms of life should have been dependent on the chemical interaction with the ribozymes, which introduced a compositional bias induced by hydropathic correlations between a ...
A mRNA localized to the vegetal cortex of Xenopus
... present evidence that Xcat-2 encodes a protein that belongs to the CCHC RNA-binding family of zinc finger proteins. Xcat-2’s closest relative in this family is nanos (Wang and Lehmann, 1991). Therefore, the region of homology between nanos and Xcat-2 may be responsible for the RNAbinding activity su ...
... present evidence that Xcat-2 encodes a protein that belongs to the CCHC RNA-binding family of zinc finger proteins. Xcat-2’s closest relative in this family is nanos (Wang and Lehmann, 1991). Therefore, the region of homology between nanos and Xcat-2 may be responsible for the RNAbinding activity su ...
Predictable Alteration of Sequence Recognition by RNA
... (B) REMSA showing binding of CLB19 and the variants P2[ND] and P2[TN] to Cy5-labeled clpP and fluorescein-labeled clpP-9C or clpP-9A RNA oligonucleotides. Protein concentrations varied from 87.5 to 700 nM. Labeled oligonucleotides were at 750 pM. Each reaction was done in triplicate. (C) Log(relative ...
... (B) REMSA showing binding of CLB19 and the variants P2[ND] and P2[TN] to Cy5-labeled clpP and fluorescein-labeled clpP-9C or clpP-9A RNA oligonucleotides. Protein concentrations varied from 87.5 to 700 nM. Labeled oligonucleotides were at 750 pM. Each reaction was done in triplicate. (C) Log(relative ...
How to obtain labeled proteins and what to do with... Marlon J Hinner and Kai Johnsson
... tags within cells. The specificity of biarsenical labels for their tag is not perfect; labeling and washing procedures therefore have to be carried out in presence of a competing thiol reagent to reduce background labeling. This labeling procedure – which is also slightly cytotoxic [31] – may be p ...
... tags within cells. The specificity of biarsenical labels for their tag is not perfect; labeling and washing procedures therefore have to be carried out in presence of a competing thiol reagent to reduce background labeling. This labeling procedure – which is also slightly cytotoxic [31] – may be p ...
Slide 1
... transports chemical compounds for use inside and outside of the cell. Rough ER is the site of phospholipid and protein synthesis, protein secretion, and the production of bilayer, protein studded membranes. It is attached to the doublelayered nuclear envelope, connecting between the nucleus to the c ...
... transports chemical compounds for use inside and outside of the cell. Rough ER is the site of phospholipid and protein synthesis, protein secretion, and the production of bilayer, protein studded membranes. It is attached to the doublelayered nuclear envelope, connecting between the nucleus to the c ...
Lecture 10. Glycoproteomics
... method for identifying the presence of a GPI anchor on a protein of interest • Another method is to treat the GPI-anchored protein with nitrous acid, which cleaves the unsubstituted glucosamine residue that links the glycan to the ...
... method for identifying the presence of a GPI anchor on a protein of interest • Another method is to treat the GPI-anchored protein with nitrous acid, which cleaves the unsubstituted glucosamine residue that links the glycan to the ...
Phosphate binding sites identification in protein
... Supplementary Table S1. The final data set contains 215 motifs binding 82 different ligands. The 10 most frequently occurring ligands are reported in Table 1. The structural comparison method Pfinder uses the Query3D structural comparison algorithm to search for the occurrence of PbMs in the structure ...
... Supplementary Table S1. The final data set contains 215 motifs binding 82 different ligands. The 10 most frequently occurring ligands are reported in Table 1. The structural comparison method Pfinder uses the Query3D structural comparison algorithm to search for the occurrence of PbMs in the structure ...
PDF file
... both BVP and PIR1 produced a product that migrates almost as fast as inorganic phosphate on PEI-cellulose plates (Fig. 3A, lanes 3–5 and 6 – 8). To determine if the observed product contained monophosphate-terminated trimeric RNA (not shown) or free phosphate (lane 1), the reaction products were fur ...
... both BVP and PIR1 produced a product that migrates almost as fast as inorganic phosphate on PEI-cellulose plates (Fig. 3A, lanes 3–5 and 6 – 8). To determine if the observed product contained monophosphate-terminated trimeric RNA (not shown) or free phosphate (lane 1), the reaction products were fur ...
Ch 17 HW - WordPress.com
... Ch 17 HW Drag the labels to the appropriate bins to identify the step in protein synthesis where each type of RNA first plays a role. If an RNA does not play a role in protein synthesis, drag it to the “not used in protein synthesis” bin. ...
... Ch 17 HW Drag the labels to the appropriate bins to identify the step in protein synthesis where each type of RNA first plays a role. If an RNA does not play a role in protein synthesis, drag it to the “not used in protein synthesis” bin. ...
In Silico Prediction of the Peroxisomal Proteome in Fungi, Plants
... requires around 20 PEX genes and their products, the peroxins.8 PTS1 interacts with the tetratricopeptide repeats (TPRs) of the receptor Pex5p.16 Proteins bearing PTS2 bind to the WD40 motifs of Pex7p.17 After binding of their cargo proteins, these receptors are thought to interact with a docking co ...
... requires around 20 PEX genes and their products, the peroxins.8 PTS1 interacts with the tetratricopeptide repeats (TPRs) of the receptor Pex5p.16 Proteins bearing PTS2 bind to the WD40 motifs of Pex7p.17 After binding of their cargo proteins, these receptors are thought to interact with a docking co ...
A New Method to Detect Related Function Among Proteins
... A new method has been developed to detect functional relationships among proteins independent of a given sequence or fold homology. It is based on the idea that protein function is intimately related to the recognition and subsequent response to the binding of a substrate or an endogenous ligand in ...
... A new method has been developed to detect functional relationships among proteins independent of a given sequence or fold homology. It is based on the idea that protein function is intimately related to the recognition and subsequent response to the binding of a substrate or an endogenous ligand in ...
Document
... – to separate, detect, and identify one or more proteins – first separating the individual proteins by SDS PAGE – transferred or “blotted” onto an overlying strip of ...
... – to separate, detect, and identify one or more proteins – first separating the individual proteins by SDS PAGE – transferred or “blotted” onto an overlying strip of ...
Hepatitis C Virus: Molecular Pathways and - e
... distinct established roles for structural proteins versus non-structural proteins [15]. Structural proteins were believed to be purely involved with physical virion components, whereas the non-structural components (with the exception of NS2) were essential for replication of HCV. This hypothesis wa ...
... distinct established roles for structural proteins versus non-structural proteins [15]. Structural proteins were believed to be purely involved with physical virion components, whereas the non-structural components (with the exception of NS2) were essential for replication of HCV. This hypothesis wa ...
Roles of F-box Proteins in Plant Hormone Responses
... least 700 putative F-box proteins [16,17]. Characteristics of F-box proteins F-box proteins contain a conserved F-box domain (35− 60 amino acids) in the amino-terminus and different substrate-binding domains in the carboxy-terminus [18]. The F-box domain was first described as a sequence motif found ...
... least 700 putative F-box proteins [16,17]. Characteristics of F-box proteins F-box proteins contain a conserved F-box domain (35− 60 amino acids) in the amino-terminus and different substrate-binding domains in the carboxy-terminus [18]. The F-box domain was first described as a sequence motif found ...
Lectures 1 and 2
... Proteins can bind at the ends of N-linked and O-linked chains, and typically have binding pockets ...
... Proteins can bind at the ends of N-linked and O-linked chains, and typically have binding pockets ...
Quantitative iTRAQ Proteomics Revealed Possible Roles for
... among which 4375–5082 proteins were found to be present at sufficient amounts to be reliably quantified (Table 1). To evaluate the quantitative precision and reproducibility of these analyses, a linear regression analysis was carried out. As an example, Figure 3 depicts the plots of the replicates o ...
... among which 4375–5082 proteins were found to be present at sufficient amounts to be reliably quantified (Table 1). To evaluate the quantitative precision and reproducibility of these analyses, a linear regression analysis was carried out. As an example, Figure 3 depicts the plots of the replicates o ...
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.