Identification and characterization of novel interaction partners of
... proapoptotic proteins Reaper Hid and Grim (RHG). Structurally DIAP1 has two BIRdomains, which mediate binding to caspases and also to RHG proteins. Additionally, DIAP1 contains a C-terminal RING E3 ubiquitin ligase domain. Although DIAP1 is a key anti-apoptotic protein in Drosophila, little is known ...
... proapoptotic proteins Reaper Hid and Grim (RHG). Structurally DIAP1 has two BIRdomains, which mediate binding to caspases and also to RHG proteins. Additionally, DIAP1 contains a C-terminal RING E3 ubiquitin ligase domain. Although DIAP1 is a key anti-apoptotic protein in Drosophila, little is known ...
MPN+, a putative catalytic motif found in a subset of MPN domain
... rpn11 mutants could therefore be due to a slowdown in either proteasome associated deubiquitination or proteasome-dependent proteolysis. Stabilization of short-lived proteasome substrate In order to test whether the accumulation of polyubiquitinated conjugates is directly correlated with a defect in ...
... rpn11 mutants could therefore be due to a slowdown in either proteasome associated deubiquitination or proteasome-dependent proteolysis. Stabilization of short-lived proteasome substrate In order to test whether the accumulation of polyubiquitinated conjugates is directly correlated with a defect in ...
mechanism of the flagellar export system and its potential
... characteristic of export substrates. Approximately the first 190 residues encompass the complete highly conserved N-terminal part of the molecule, and the first report demonstrating that the N-terminal part of flagellin contains the signal used about the same fragment size. These 18 constructs were ...
... characteristic of export substrates. Approximately the first 190 residues encompass the complete highly conserved N-terminal part of the molecule, and the first report demonstrating that the N-terminal part of flagellin contains the signal used about the same fragment size. These 18 constructs were ...
Coarse-Grained Modeling of ProteinDynamics
... 1999; Simmons et al. 1996) detect forces in the pico-Newton range, they are useful tools for studying mechanical unfolding of biomolecules. In both techniques two major strategies are used. In the first technique, protein is pulled by a force ramped linearly with time, while monitoring the force (me ...
... 1999; Simmons et al. 1996) detect forces in the pico-Newton range, they are useful tools for studying mechanical unfolding of biomolecules. In both techniques two major strategies are used. In the first technique, protein is pulled by a force ramped linearly with time, while monitoring the force (me ...
Lysine Inhibition of in vivo Homocitrate Synthesis in
... (idiophase) subsequent to the growth phase (trophophase). Mutant L, was useful for such an experiment, since its ‘leakiness’ allows it to produce penicillin as well as accumulate homocitrate. Mutant L, was grown in the defined penicillin production medium containing lysine. At various times, flasks ...
... (idiophase) subsequent to the growth phase (trophophase). Mutant L, was useful for such an experiment, since its ‘leakiness’ allows it to produce penicillin as well as accumulate homocitrate. Mutant L, was grown in the defined penicillin production medium containing lysine. At various times, flasks ...
Molecular Weight Estimation - Bio-Rad
... the blotted membrane (blot). After the remaining binding sites are blocked with a detergent or protein reagent, the blot is probed with the primary antibody and then washed. The antibody-antigen complexes are subsequently identified by horseradish peroxidase (HRP) or alkaline phosphatase (AP) couple ...
... the blotted membrane (blot). After the remaining binding sites are blocked with a detergent or protein reagent, the blot is probed with the primary antibody and then washed. The antibody-antigen complexes are subsequently identified by horseradish peroxidase (HRP) or alkaline phosphatase (AP) couple ...
The Generic Nature of Protein Folding and Misfolding
... folding process (Matouschek et al., 1989; Fersht, 1999, 2000; Vendruscolo et al., 2001). The results of a wide range of studies suggest that the fundamental mechanism of folding can be described as “nucleation-condensation,” in which a folding nucleus of a small number of residues forms, about which ...
... folding process (Matouschek et al., 1989; Fersht, 1999, 2000; Vendruscolo et al., 2001). The results of a wide range of studies suggest that the fundamental mechanism of folding can be described as “nucleation-condensation,” in which a folding nucleus of a small number of residues forms, about which ...
Intrinsic Disorder in Cell-signaling and Cancer
... respectively, indicating significantly more intrinsic disorder in cancerassociated and signaling proteins as compared to the two control sets. The disorder analysis was extended to 11 additional functionally diverse categories of human proteins from SWISS-PROT. The proteins involved in metabolism, b ...
... respectively, indicating significantly more intrinsic disorder in cancerassociated and signaling proteins as compared to the two control sets. The disorder analysis was extended to 11 additional functionally diverse categories of human proteins from SWISS-PROT. The proteins involved in metabolism, b ...
What Does the Microsporidian E. cuniculi Tell Us About the Origin of
... S. cerevisiae proteins with proteins of D. melanogaster, C. elegans, A. thaliana, and G. lamblia and those of 44 bacteria and archaea species. We used a blast score of 55 bits. This score was based on our consultation with experts in bioinformatics, as the Giardia database was in contigs only and wa ...
... S. cerevisiae proteins with proteins of D. melanogaster, C. elegans, A. thaliana, and G. lamblia and those of 44 bacteria and archaea species. We used a blast score of 55 bits. This score was based on our consultation with experts in bioinformatics, as the Giardia database was in contigs only and wa ...
SISYPHUS—structural alignments for proteins with non
... structural diversity within Families and Superfamilies. Thus homologous levels within the classification may contain proteins with technically different folds. These non-trivial cases of protein evolution add extra complexity and create practical difficulties for their presentation on the tree-like ...
... structural diversity within Families and Superfamilies. Thus homologous levels within the classification may contain proteins with technically different folds. These non-trivial cases of protein evolution add extra complexity and create practical difficulties for their presentation on the tree-like ...
Unit 4 proteins
... • Use of proteins in manufacturing is a time-tested technology – Beer brewing and winemaking ...
... • Use of proteins in manufacturing is a time-tested technology – Beer brewing and winemaking ...
Thai Sports Supplements Co., Ltd.
... constant supply of protein throughout the night. It contains three times as much calcium as whey so is excellent for energy production, bone, tendon and muscle growth. ...
... constant supply of protein throughout the night. It contains three times as much calcium as whey so is excellent for energy production, bone, tendon and muscle growth. ...
Repeat proteins challenge the concept of structural domains
... correlate with biological activities and many modern proteins can be described as composed by novel ‘domain arrangements’ [2]. For globular proteins, this fact facilitates the description, evolution and construction of single amino acid chains that comprise a set of integrated biological functions, ...
... correlate with biological activities and many modern proteins can be described as composed by novel ‘domain arrangements’ [2]. For globular proteins, this fact facilitates the description, evolution and construction of single amino acid chains that comprise a set of integrated biological functions, ...
Do asparagine-linked carbohydrate chains in glycoproteins have a
... The strict requirement of carbohydrate attachment for an Asn-X-Ser/Thr sequence suggests that the polypeptide substrate should have a very specific conformation--at least temporarily--in order to be recognized by the active site of the glycosylating enzyme system. A hypothetical structure of such a ...
... The strict requirement of carbohydrate attachment for an Asn-X-Ser/Thr sequence suggests that the polypeptide substrate should have a very specific conformation--at least temporarily--in order to be recognized by the active site of the glycosylating enzyme system. A hypothetical structure of such a ...
Protein Folding at the Exit Tunnel
... Since Christian Anfinsen’s pioneering article on the relation between protein sequence and structure in 1954 (1) and his formulation of the thermodynamic hypothesis of protein folding in 1962, thousands of articles have been written on how proteins travel through energy landscapes and reach their na ...
... Since Christian Anfinsen’s pioneering article on the relation between protein sequence and structure in 1954 (1) and his formulation of the thermodynamic hypothesis of protein folding in 1962, thousands of articles have been written on how proteins travel through energy landscapes and reach their na ...
Enzyme
... How are you going to measure your results (dependent variable)? • Are you measuring the increase of a product or the dissapearance of a substrate? • Are you measuring directly (e.g. testing for the concentration of the product) or indirectly (change in pH)? • What equipment will you be using to meas ...
... How are you going to measure your results (dependent variable)? • Are you measuring the increase of a product or the dissapearance of a substrate? • Are you measuring directly (e.g. testing for the concentration of the product) or indirectly (change in pH)? • What equipment will you be using to meas ...
Polyubiquitination in diseases: implications in skeletal muscle
... Medical School, Gwangju 501-746.Chonnam National University Medical School ...
... Medical School, Gwangju 501-746.Chonnam National University Medical School ...
Usha`s project - The University of Texas at Dallas
... function of a protein. This is because it was assumed that proteins with similar sequences have similar functions and structures and are evolutionary related.. However sequence similarity searches can evolutionary relationships only when there is a sequence identity up to 25%. For those proteins bel ...
... function of a protein. This is because it was assumed that proteins with similar sequences have similar functions and structures and are evolutionary related.. However sequence similarity searches can evolutionary relationships only when there is a sequence identity up to 25%. For those proteins bel ...
The Salmonella Effector Protein SopA Modulates Innate Immune
... 34]. In contrast, TRIM65 has been reported to be a repressor of microRNA-guided mRNA silencing and its potential involvement in innate immune responses is uncertain [35, 36]. To better understand the potential significance of its interaction with SopA, we searched for TRIM65-interacting proteins. We ...
... 34]. In contrast, TRIM65 has been reported to be a repressor of microRNA-guided mRNA silencing and its potential involvement in innate immune responses is uncertain [35, 36]. To better understand the potential significance of its interaction with SopA, we searched for TRIM65-interacting proteins. We ...
The epidermal intermediate filament proteins of
... positions 105 ± 107 fits into the Kozak sequence context required for translational initiation. This assumption was confirmed by expression in E. coli using the entire open reading frame between nucleotides 21 and 1389. Microsequencing of the recombinant protein (see below) provided the Nterminal se ...
... positions 105 ± 107 fits into the Kozak sequence context required for translational initiation. This assumption was confirmed by expression in E. coli using the entire open reading frame between nucleotides 21 and 1389. Microsequencing of the recombinant protein (see below) provided the Nterminal se ...
2_5 Slides
... 2.5.7 Design of experiments to test the effect of temperature, pH, and substrate concentration on the activity of enzymes. How are you going to make sure it is a fair test (control variables)? • What variables other than your independent variable could affect the results? • Why would these variable ...
... 2.5.7 Design of experiments to test the effect of temperature, pH, and substrate concentration on the activity of enzymes. How are you going to make sure it is a fair test (control variables)? • What variables other than your independent variable could affect the results? • Why would these variable ...
Full-Text PDF
... results were interpreted in the context of the docking results. The results suggest that an extended surface along the active site cleft is involved in binding of a protein substrate. Furthermore, it appears that a number of hydrophobic and aromatic residues are important for interacting with Z-QG, ...
... results were interpreted in the context of the docking results. The results suggest that an extended surface along the active site cleft is involved in binding of a protein substrate. Furthermore, it appears that a number of hydrophobic and aromatic residues are important for interacting with Z-QG, ...
Proteomic capacity of recent fluorescent dyes for
... Several features are of importance to select a 2D gel staining procedure in projects aiming at large-scale quantitative and differential proteome analysis. These include: (i) the sensitivity which determines the number of spots detected for a given protein amount; (ii) the occurrence of saturation in ...
... Several features are of importance to select a 2D gel staining procedure in projects aiming at large-scale quantitative and differential proteome analysis. These include: (i) the sensitivity which determines the number of spots detected for a given protein amount; (ii) the occurrence of saturation in ...
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 ...
A protein domain interaction interface database: InterPare | BMC
... fatal disorders in cells. Rational drug discovery includes computational methods to identify the interaction sites of lead compounds to the target molecules. Identifying and classifying protein interaction interfaces on a large scale can help researchers discover drug targets more efficiently. Descr ...
... fatal disorders in cells. Rational drug discovery includes computational methods to identify the interaction sites of lead compounds to the target molecules. Identifying and classifying protein interaction interfaces on a large scale can help researchers discover drug targets more efficiently. Descr ...
Ubiquitin
Ubiquitin is a small (8.5 kDa) regulatory protein that has been found in almost all tissues (ubiquitously) of eukaryotic organisms. It was discovered in 1975 by Goldstein and further characterized throughout the 1970s and 1980s. There are four genes in the human genome that produce ubiquitin: UBB, UBC, UBA52 and RPS27A.The addition of ubiquitin to a substrate protein is called ubiquitination or ubiquitylation. Ubiquitination can affect proteins in many ways: It can signal for their degradation via the proteasome, alter their cellular location, affect their activity, and promote or prevent protein interactions. Ubiquitination is carried out in three main steps: activation, conjugation, and ligation, performed by ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s), respectively. The result of this sequential cascade binds ubiquitin to lysine residues on the protein substrate via an isopeptide bond or to the amino group of the protein's N-terminus via a peptide bond.The protein modifications can be either a single ubiquitin protein (monoubiquitination) or a chain of ubiquitin (polyubiquitination). The ubiquitination bonds are always formed with one of the seven lysine residues from the ubiquitin molecule. These 'linking' lysines are represented by a ""K"" (which is the one-letter amino acid notation of lysine) and a number, referring to its position in the ubiquitin molecule. First, a ubiquitin molecule is bonded by its C-terminus to a specific lysine residue (e.g. K48, K29, K63,...) on the target protein. Poly-ubiquitination occurs when the C-terminus of another ubiquitin, will be linked again to a lysine residue (for example again K48 or K29) on the previously added ubiquitin molecule, forming a chain. This process repeats several times, leading to the addition of several ubiquitins. Only poly-ubiquitination on defined lysines, mostly on K48 and K29, is related to degradation with the proteasome (referred to as the ""molecular kiss of death""), while other polyubiquitinations (e.g. on K63, K11, K6) and monoubiquitinations may regulate processes such as endocytic trafficking, inflammation, translation and DNA repair.Lysine 48-linked chains have been much-studied. They are the forms of chains that signal proteins to the proteasome, which destroys and recycles proteins. This discovery won the Nobel Prize for chemistry in 2004.