PeptidePicker: a Tool for Determining Most Appropriate Peptides for
... an XIC signal, the ESP predictor, however, correctly selected on average only two out of the top five experimentally validated MRM peptides per protein (#9).12 PeptideAtlas5, 16 has combined its database of observed peptides with PABST (Peptide Atlas Best SRM Transition)17 to select the best peptide ...
... an XIC signal, the ESP predictor, however, correctly selected on average only two out of the top five experimentally validated MRM peptides per protein (#9).12 PeptideAtlas5, 16 has combined its database of observed peptides with PABST (Peptide Atlas Best SRM Transition)17 to select the best peptide ...
ASMS 2004 de Novo
... Ionization of peptides and protein digests via MALDI preferentially yields singly charged analyte ions, and the fragmentations of these precursor ions often generate higher background in MS/MS spectra and undergo preferential cleavages. Selective fragmentation reactions limit the amount of de Novo p ...
... Ionization of peptides and protein digests via MALDI preferentially yields singly charged analyte ions, and the fragmentations of these precursor ions often generate higher background in MS/MS spectra and undergo preferential cleavages. Selective fragmentation reactions limit the amount of de Novo p ...
Characters of Chymosin Gene Isolated from Different Animal A. G. Attallah
... and Foltmann [4 ] due to the presence of two isozymes of bovine chymosin, such as chymosin A and B, while chymosin C (molecular weight of around 8.5 kDa, a degradation product of chymosin A) that moves a long with the dye in front of SDS-PAGE. The heterogeneity of buffalo chymosin may be presumed to ...
... and Foltmann [4 ] due to the presence of two isozymes of bovine chymosin, such as chymosin A and B, while chymosin C (molecular weight of around 8.5 kDa, a degradation product of chymosin A) that moves a long with the dye in front of SDS-PAGE. The heterogeneity of buffalo chymosin may be presumed to ...
Effect of Alanine-293 Replacement on the Activity, ATP Binding, and
... leucylation of tRNALeu. Several mutants in the CP1 domain of Escherichia coli LeuRS were obtained by introduction of restriction endonuclease sites into its gene, leuS. Of these mutants, only LeuRS-A293F had decreased activity (46%) compared to the native enzyme. To investigate the effect of A293 on ...
... leucylation of tRNALeu. Several mutants in the CP1 domain of Escherichia coli LeuRS were obtained by introduction of restriction endonuclease sites into its gene, leuS. Of these mutants, only LeuRS-A293F had decreased activity (46%) compared to the native enzyme. To investigate the effect of A293 on ...
Proteome analysis of tobacco BY-2 cell culture - ETH E
... Chromoplasts generally occur in mature tissue and derive from pre-existing mature plastids. During fruit ripening, chloroplasts differentiate into nonphotosynthetic chromoplasts and during this process chlorophyll is degraded and large amounts of carotenoids accumulate. The aim of this work is to ad ...
... Chromoplasts generally occur in mature tissue and derive from pre-existing mature plastids. During fruit ripening, chloroplasts differentiate into nonphotosynthetic chromoplasts and during this process chlorophyll is degraded and large amounts of carotenoids accumulate. The aim of this work is to ad ...
What is Double Expeller-Pressed Canola Meal?
... amino acid balance, with a slightly higher digestibility than conventional canola meal. Viterra canola meal does not undergo the same toasting that conventional canola meal undergoes. Since no solvents are used, no steam processing is required. Viterra canola meal contains high levels of essential f ...
... amino acid balance, with a slightly higher digestibility than conventional canola meal. Viterra canola meal does not undergo the same toasting that conventional canola meal undergoes. Since no solvents are used, no steam processing is required. Viterra canola meal contains high levels of essential f ...
Hydrolysis of a Series of Synthetic Peptide Substrates by the Human
... Shih et al., 1978, 1979; Ypma-Wong et al., 1987a, b) and may represent an ideal target enzyme for antiviral chemotherapy. By analogy, this is almost certainly true for the 3C proteins of all picornaviruses, including human rhinoviruses. However there have been relatively few comprehensive studies on ...
... Shih et al., 1978, 1979; Ypma-Wong et al., 1987a, b) and may represent an ideal target enzyme for antiviral chemotherapy. By analogy, this is almost certainly true for the 3C proteins of all picornaviruses, including human rhinoviruses. However there have been relatively few comprehensive studies on ...
Recent Developments in Patent Law
... encoded protein is known; and – General method employing a probe specifically corresponding to the known amino acid sequence for the protein. – Discloses that it is advantageous to design the probe based on amino acids specified by unique codons. ...
... encoded protein is known; and – General method employing a probe specifically corresponding to the known amino acid sequence for the protein. – Discloses that it is advantageous to design the probe based on amino acids specified by unique codons. ...
108. Regulation of the L-arabinose Operon in Escherichia coli, in
... AraC then prefers to bind to the adjacent I1 and I2 half-sites. Binding to the I2 half-site probably results in direct interactions with RNA polymerase, whereas RNA polymerase also contacts the DNA-binding domain bound at I1 by reaching over the polymerase proximal subunit of AraC. Hence induction e ...
... AraC then prefers to bind to the adjacent I1 and I2 half-sites. Binding to the I2 half-site probably results in direct interactions with RNA polymerase, whereas RNA polymerase also contacts the DNA-binding domain bound at I1 by reaching over the polymerase proximal subunit of AraC. Hence induction e ...
Biochemical, biophysical and interaction studies of the stress
... Firstly I would like to thank all my supervisors, Dr Alexander Golovanov, Dr Costas Demonacos and Dr Stephen Prince for their continual guidance throughout this PhD. I would also like to thank my adviser Professor Andrew Doig for all his support and advice on PhD related issues and CD experiments. A ...
... Firstly I would like to thank all my supervisors, Dr Alexander Golovanov, Dr Costas Demonacos and Dr Stephen Prince for their continual guidance throughout this PhD. I would also like to thank my adviser Professor Andrew Doig for all his support and advice on PhD related issues and CD experiments. A ...
12659942_three sites - University of Canterbury
... Tyr binding mode in site 3 In contrast to Tyr binding in site 2, specific interactions with the phenolic hydroxyl of Tyr are established when Tyr binds in site 3: the main-chain carbonyl of Pro16 and a water molecule, which in turn interacts with the backbone amide N–H of Leu261, are located 2.7 and ...
... Tyr binding mode in site 3 In contrast to Tyr binding in site 2, specific interactions with the phenolic hydroxyl of Tyr are established when Tyr binds in site 3: the main-chain carbonyl of Pro16 and a water molecule, which in turn interacts with the backbone amide N–H of Leu261, are located 2.7 and ...
Glucansucrases: mechanism of action and structure–function
... glucansucrase sequences and by structure^function relationship studies (see Section 3). Tsuchiya et al. [46] proposed that the glucan synthesis mechanism may be separated in three di¡erent steps: (1) initiation; (2) elongation; and (3) termination. The last step corresponds to the dissociation of th ...
... glucansucrase sequences and by structure^function relationship studies (see Section 3). Tsuchiya et al. [46] proposed that the glucan synthesis mechanism may be separated in three di¡erent steps: (1) initiation; (2) elongation; and (3) termination. The last step corresponds to the dissociation of th ...
Review: Derivatization in mass spectrometry—6. Formation of mixed
... step-wise or one-step modification or protection of functional groups. Some chemical aspects of mixed derivatization performed for improving the physical–chemical properties and mass spectral characteristics are discussed. Application of mixed derivatization to qualitative and quantitative analysis ...
... step-wise or one-step modification or protection of functional groups. Some chemical aspects of mixed derivatization performed for improving the physical–chemical properties and mass spectral characteristics are discussed. Application of mixed derivatization to qualitative and quantitative analysis ...
REVIEWS Structural insights into the function of the
... We4 and others 26,31 have found that amino acid residues in the [32/loop 2 region of the Rab effector domain are also essential for binding GDI. By analogy to the RaplA-RBD complex, Rab might dock to GDI through the B-strand of its effector loop by an analogous extended B-sheet configuration (Fig. 3 ...
... We4 and others 26,31 have found that amino acid residues in the [32/loop 2 region of the Rab effector domain are also essential for binding GDI. By analogy to the RaplA-RBD complex, Rab might dock to GDI through the B-strand of its effector loop by an analogous extended B-sheet configuration (Fig. 3 ...
... (Losso, 2008). These classes of proteins has been studied due to its application in the treatment of different pathologies as cancer (Zhang et al., 2011), antifungal activity (Kim et al., 2005), inflammation and coagulation (Machado et al., 2013) or as bioinsecticides (Rai et al., 2010), demonstra ...
Serine racemase: a KEY PLAYER in NEURON activity and in
... All these SRs crystallized as dimers, whereas in solution SR forms dimers with traces of tetramers (12). Dimers are stabilized by the formation of hydrophobic contacts, without the involvement of any disulfide bridge (20-22). Covalently cross-linked dimers were observed in the presence of reactive o ...
... All these SRs crystallized as dimers, whereas in solution SR forms dimers with traces of tetramers (12). Dimers are stabilized by the formation of hydrophobic contacts, without the involvement of any disulfide bridge (20-22). Covalently cross-linked dimers were observed in the presence of reactive o ...
Fulltext - Jultika
... of two enzymes, (1) α-methylacyl-CoA racemase from Mycobacterium tuberculosis (MCR) and (2) argininosuccinate lyase from Escherichia coli (eASL) have been studied using X-ray crystallography. The main focus of this study has been understanding the structure-function relationship of MCR. The eASL has ...
... of two enzymes, (1) α-methylacyl-CoA racemase from Mycobacterium tuberculosis (MCR) and (2) argininosuccinate lyase from Escherichia coli (eASL) have been studied using X-ray crystallography. The main focus of this study has been understanding the structure-function relationship of MCR. The eASL has ...
Rubisco Synthesis, Assembly, Mechanism, and Regulation
... of two different-sized subunits. In addition to eight L-subunits, the enzyme requires an equivalent number of S-subunits to be fully active. Although the quaternary structures of the two forms are apparently very distinct, they are nevertheless related by the domain structure of the larger subunit a ...
... of two different-sized subunits. In addition to eight L-subunits, the enzyme requires an equivalent number of S-subunits to be fully active. Although the quaternary structures of the two forms are apparently very distinct, they are nevertheless related by the domain structure of the larger subunit a ...
SBT202 - SibTech, Inc.
... Functional activity in tissue culture: The ability of EGF/Si to bind to and activate EGF receptor was tested in two tissue culture assays: stimulation of EGFR tyrosine autophosphorylation and competition with EGF-toxin fusion protein (SibTech product # SBT076.012) for binding to EGFR expressed on MD ...
... Functional activity in tissue culture: The ability of EGF/Si to bind to and activate EGF receptor was tested in two tissue culture assays: stimulation of EGFR tyrosine autophosphorylation and competition with EGF-toxin fusion protein (SibTech product # SBT076.012) for binding to EGFR expressed on MD ...
A Molecular Switch for Targeting between Endoplasmic Reticulum
... encoded by exon 5 in the same place. At the 5⬘ end, however, encode several DAKAP1 variants by a leaky scanning mechaDAKAP1c is identical to DAKAP1a. nism (37). In vitro translation was used to determine whether There are three longer forms that are derived from differ- multiple start sites in DAKAP ...
... encoded by exon 5 in the same place. At the 5⬘ end, however, encode several DAKAP1 variants by a leaky scanning mechaDAKAP1c is identical to DAKAP1a. nism (37). In vitro translation was used to determine whether There are three longer forms that are derived from differ- multiple start sites in DAKAP ...
Unconventional serine proteases: Variations on the catalytic Ser/His
... proton exchanges were thought to occur (from Ser195 to His57 and from His57 to Asp102) (Blow et al. 1969). Later NMR data (Robillard and Shulman 1974; Bachovchin 1985) and neutron diffraction structural data (Kossiakoff and Spencer 1981) suggest a single proton exchange from Ser195 Og to the His57Ne ...
... proton exchanges were thought to occur (from Ser195 to His57 and from His57 to Asp102) (Blow et al. 1969). Later NMR data (Robillard and Shulman 1974; Bachovchin 1985) and neutron diffraction structural data (Kossiakoff and Spencer 1981) suggest a single proton exchange from Ser195 Og to the His57Ne ...
reprint - Charles Brenner Laboratory
... succinate, and there must be a supply of each citric acid cycle intermediate to keep the cycle running. Fuel oxidation is coupled to function of the electron transport chain (ETC) in which O2 must be present as the ultimate electron acceptor – this allows reoxidation of NADH and FADH2 back to NADþ a ...
... succinate, and there must be a supply of each citric acid cycle intermediate to keep the cycle running. Fuel oxidation is coupled to function of the electron transport chain (ETC) in which O2 must be present as the ultimate electron acceptor – this allows reoxidation of NADH and FADH2 back to NADþ a ...
Protein structure prediction
Protein structure prediction is the prediction of the three-dimensional structure of a protein from its amino acid sequence — that is, the prediction of its folding and its secondary, tertiary, and quaternary structure from its primary structure. Structure prediction is fundamentally different from the inverse problem of protein design. Protein structure prediction is one of the most important goals pursued by bioinformatics and theoretical chemistry; it is highly important in medicine (for example, in drug design) and biotechnology (for example, in the design of novel enzymes). Every two years, the performance of current methods is assessed in the CASP experiment (Critical Assessment of Techniques for Protein Structure Prediction). A continuous evaluation of protein structure prediction web servers is performed by the community project CAMEO3D.