Package `PPInfer`
... Title Inferring functionally related proteins using protein interaction networks Description Interactions between proteins occur in many, if not most, biological processes. Most proteins perform their functions in networks associated with other proteins and other biomolecules. This fact has motivate ...
... Title Inferring functionally related proteins using protein interaction networks Description Interactions between proteins occur in many, if not most, biological processes. Most proteins perform their functions in networks associated with other proteins and other biomolecules. This fact has motivate ...
Intrinsically Disordered Linker and Plasma Membrane
... putative PMB domain of Ssy1 interact with one or more components of the PM, the entire N-terminus (1–280), the putative ‘PMB-ID linker’ region (167–283) or solely the 30-amino acid long sequence (167–196) efficiently sorted GFP to the PM (Figure 2D). Finally, we asked whether the PMB domain of Ssy1 ...
... putative PMB domain of Ssy1 interact with one or more components of the PM, the entire N-terminus (1–280), the putative ‘PMB-ID linker’ region (167–283) or solely the 30-amino acid long sequence (167–196) efficiently sorted GFP to the PM (Figure 2D). Finally, we asked whether the PMB domain of Ssy1 ...
Youngs, Noah: Progress in the Side-Chain Prediction Problem
... Bringing a new approach to the table, the SCWRL algorithm, first proposed in 1997, circumvented the need to search rotamer space for a global minimum [Bower et al., 1997]. The strategy instead was to use a rotamer library to choose the most favorable conformation for each residue, and then systemati ...
... Bringing a new approach to the table, the SCWRL algorithm, first proposed in 1997, circumvented the need to search rotamer space for a global minimum [Bower et al., 1997]. The strategy instead was to use a rotamer library to choose the most favorable conformation for each residue, and then systemati ...
Corn MON 88017 - Biotechnology Philippines
... degraded by proteolytic enzymes (digestibility in vitro), limiting the exposure of the GIT and less likelihood that the protein can exert pharmacological, toxic or allergic effects. The CryBB1 produced in MON 88017 coming from B. thuringiensis subsp.kumamotoensis was shown to be physicochemically an ...
... degraded by proteolytic enzymes (digestibility in vitro), limiting the exposure of the GIT and less likelihood that the protein can exert pharmacological, toxic or allergic effects. The CryBB1 produced in MON 88017 coming from B. thuringiensis subsp.kumamotoensis was shown to be physicochemically an ...
Anti-UBR1 Antibody
... The UBR1-selective antibodies were generated against unique N-terminal peptides characteristics of the particular UBR1 family. FabGennix has generated highly specific rabbit UBR1 polyclonal antibodies utilizing mostly C-terminal sequences. These antibodies have been fully characterized for cross rea ...
... The UBR1-selective antibodies were generated against unique N-terminal peptides characteristics of the particular UBR1 family. FabGennix has generated highly specific rabbit UBR1 polyclonal antibodies utilizing mostly C-terminal sequences. These antibodies have been fully characterized for cross rea ...
Heterologous protein production of a His-tagged peroxidase
... Unfortunately, since every protein is different, in many cases production and purification protocols and strategies must be developed for each individual protein. In E. coli the fusion of proteins to oligo-histidine tags followed by affinity chromatography is a very common protein purification strat ...
... Unfortunately, since every protein is different, in many cases production and purification protocols and strategies must be developed for each individual protein. In E. coli the fusion of proteins to oligo-histidine tags followed by affinity chromatography is a very common protein purification strat ...
T-cell regulator RNF125/TRAC-1 belongs to a novel family of
... isolation. COS-7, HeLa and HEK-293T (human embryonic kidney) cells were grown in DMEM (Dulbecco’s modified Eagle’s medium) (Cambrex), 10 % (v/v) FCS, 100 units/ml penicillin and 0.1 mg/ml streptomycin. For transfection, 107 Jurkat T-cells were electroporated in 250 µl of RPMI 1640 medium containing ...
... isolation. COS-7, HeLa and HEK-293T (human embryonic kidney) cells were grown in DMEM (Dulbecco’s modified Eagle’s medium) (Cambrex), 10 % (v/v) FCS, 100 units/ml penicillin and 0.1 mg/ml streptomycin. For transfection, 107 Jurkat T-cells were electroporated in 250 µl of RPMI 1640 medium containing ...
Transmembrane domains control exclusion of membrane proteins
... membrane proteins. We used CD1b as a reporter protein because this protein normally traffics through endocytic compartments (Jackman et al., 1998) and thus should not be sensitive to proteases found in endosomal compartments. Indeed, we have observed that both CD1b and its specific monoclonal antibo ...
... membrane proteins. We used CD1b as a reporter protein because this protein normally traffics through endocytic compartments (Jackman et al., 1998) and thus should not be sensitive to proteases found in endosomal compartments. Indeed, we have observed that both CD1b and its specific monoclonal antibo ...
Exam questions used in the past
... 13. Why is Proline often observed at the surface of a protein? ...
... 13. Why is Proline often observed at the surface of a protein? ...
SP1 Protein production order form
... using E. coli as expression host will be performed in high throughput format. Expression will also be offered using Pichia pastoris as expression host. The customer can select between N- and C-terminal His-tag. Expression of target proteins will be verified by SDS-PAGE and MS. More details of the st ...
... using E. coli as expression host will be performed in high throughput format. Expression will also be offered using Pichia pastoris as expression host. The customer can select between N- and C-terminal His-tag. Expression of target proteins will be verified by SDS-PAGE and MS. More details of the st ...
Mycobacterial Heat Shock Proteins as Vaccines - A Model
... between species [70]. It is also a common protein that is shared by many prokaryotes and eukaryotes and the mycobacterial hsp60 shares 41% homology with the human protein [71]. As in other bacteria, the M. tuberculosis hsp60 gene (GroEL1/cpn60-1) is found in a single operon together with its cochape ...
... between species [70]. It is also a common protein that is shared by many prokaryotes and eukaryotes and the mycobacterial hsp60 shares 41% homology with the human protein [71]. As in other bacteria, the M. tuberculosis hsp60 gene (GroEL1/cpn60-1) is found in a single operon together with its cochape ...
protein sequence
... The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. ...
... The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. ...
Surviving protein quality control catastrophes – from cells to organisms
... encodes a bZIP transcription factor that regulates UPR target genes. Dissociation of BiP from ATF6 results in ATF6 trafficking to the Golgi where it is cleaved by the site-1-protease (S1P) and site-2-protease (S2P), with release of the 50 kDa cytosolic domain of ATF6, a transcription factor controll ...
... encodes a bZIP transcription factor that regulates UPR target genes. Dissociation of BiP from ATF6 results in ATF6 trafficking to the Golgi where it is cleaved by the site-1-protease (S1P) and site-2-protease (S2P), with release of the 50 kDa cytosolic domain of ATF6, a transcription factor controll ...
Make:targeting signals
... mutations in the EF hand regions of the calmodulin. Glutamate E31 is in the first EF hand (at p12') and E104 is in the third EF hand (also at p12'). ...
... mutations in the EF hand regions of the calmodulin. Glutamate E31 is in the first EF hand (at p12') and E104 is in the third EF hand (also at p12'). ...
J-Domain Protein CDJ2 and HSP70B Are a Plastidic Chaperone
... 2001a). Other specialized functions of stromal Hsp70 were deduced from functions attributed to plastidic DnaJ-like proteins. The maize bsd2 mutant impaired in Rubisco assembly was shown to lack a protein exhibiting high sequence similarity to the zinc finger domain of DnaJ proteins (Brutnell et al., ...
... 2001a). Other specialized functions of stromal Hsp70 were deduced from functions attributed to plastidic DnaJ-like proteins. The maize bsd2 mutant impaired in Rubisco assembly was shown to lack a protein exhibiting high sequence similarity to the zinc finger domain of DnaJ proteins (Brutnell et al., ...
Document
... compound to produce a color change. The change is a result of the chemical reactions between the indicator and the specific molecular arrangement (structure) of the compound being tested. In this lab, you will test for specific compounds in food from McDonalds by using various indicators. If a color ...
... compound to produce a color change. The change is a result of the chemical reactions between the indicator and the specific molecular arrangement (structure) of the compound being tested. In this lab, you will test for specific compounds in food from McDonalds by using various indicators. If a color ...
Exam Questions_230516_final
... the normal translocation machinery. This protein has an N-terminal, 18-amino-acid hydrophilic segment that is located on the outside of the membrane, a 19-amino-acid hydrophobic transmembrane segment flanked by negatively and positively charged amino acids, and a C-terminal domain that resides inside ...
... the normal translocation machinery. This protein has an N-terminal, 18-amino-acid hydrophilic segment that is located on the outside of the membrane, a 19-amino-acid hydrophobic transmembrane segment flanked by negatively and positively charged amino acids, and a C-terminal domain that resides inside ...
Functional Control by Codon Bias in Magnetic Bacteria
... IRP1 and IRP2) from mammalian18–20 as well as bacterial sources (in bacteria, IRP1 is called aconitase) in the magnetic bacterial genome. The logic behind these searches was that if IRPs are present in magnetic bacteria, then one would expect primary sequences of these proteins to be identical to th ...
... IRP1 and IRP2) from mammalian18–20 as well as bacterial sources (in bacteria, IRP1 is called aconitase) in the magnetic bacterial genome. The logic behind these searches was that if IRPs are present in magnetic bacteria, then one would expect primary sequences of these proteins to be identical to th ...
Protein translocation across mitochondrial membranes
... removed by a membrane bound pe ti ). Furthermore, it was found that precursors dase equivalent to the bacterial leader peptidase(' . imported after urea denaturation remained in an Re-export from the matrix to the intermembrane unfolded state in tight association with the mutated mtspace was found t ...
... removed by a membrane bound pe ti ). Furthermore, it was found that precursors dase equivalent to the bacterial leader peptidase(' . imported after urea denaturation remained in an Re-export from the matrix to the intermembrane unfolded state in tight association with the mutated mtspace was found t ...
BIOCHEMISTRY Medical biochemistry is an essential component of
... 2- Semiessential amino acids: These are formed in the body but not in sufficient amount for body requirements especially in children. arginine and histidine 3- Non essential amino acids: These are the rest of amino acids that are formed in the body in amount enough for adults and children. They are ...
... 2- Semiessential amino acids: These are formed in the body but not in sufficient amount for body requirements especially in children. arginine and histidine 3- Non essential amino acids: These are the rest of amino acids that are formed in the body in amount enough for adults and children. They are ...
Characterization of proteins secreted from a Type III secretion
... Insertion mutation was carried out in the eseB, eseC, macrophages is important for efficient intracellular and eseD genes in the wild-type strain as described growth of bacteria in the macrophages (Okuda et al. previously (Tan et al. 2005) with a slight modification 2006). However, only scant inform ...
... Insertion mutation was carried out in the eseB, eseC, macrophages is important for efficient intracellular and eseD genes in the wild-type strain as described growth of bacteria in the macrophages (Okuda et al. previously (Tan et al. 2005) with a slight modification 2006). However, only scant inform ...
(2016) Target selection during protein quality control. Trends
... sharpen discrimination of subtly different interaction affinities between clients and QC machinery to determine client fate. ...
... sharpen discrimination of subtly different interaction affinities between clients and QC machinery to determine client fate. ...
Document
... operator sites, O64 and OL. The N-terminal domain mediates the interaction with RNA polymerase (lysogenic promoter for repressor maintenance) and thus, activating the CI gene. (Bell et al.) Therefore, above reasons are why the structure of repressor protein (CI, containing CTD and NTD) is important ...
... operator sites, O64 and OL. The N-terminal domain mediates the interaction with RNA polymerase (lysogenic promoter for repressor maintenance) and thus, activating the CI gene. (Bell et al.) Therefore, above reasons are why the structure of repressor protein (CI, containing CTD and NTD) is important ...
Molecular Chaperones - Cellular Machines for Protein Folding
... 1.3.3. Controlled Release of Bound Polypeptides Hydrophobic interactions not only contribute to the stability of the folded structure of a protein, they are also important for the stability of oligomeric proteins and protein complexes. The contact areas often contain hydrophobic residues that become ...
... 1.3.3. Controlled Release of Bound Polypeptides Hydrophobic interactions not only contribute to the stability of the folded structure of a protein, they are also important for the stability of oligomeric proteins and protein complexes. The contact areas often contain hydrophobic residues that become ...
Intrinsically disordered proteins
An intrinsically disordered protein (IDP) is a protein that lacks a fixed or ordered three-dimensional structure. IDPs cover a spectrum of states from fully unstructured to partially structured and include random coils, (pre-)molten globules, and large multi-domain proteins connected by flexible linkers. They constitute one of the main types of protein (alongside globular, fibrous and membrane proteins).The discovery of IDPs has challenged the traditional protein structure paradigm, that protein function depends on a fixed three-dimensional structure. This dogma has been challenged over the last decades by increasing evidence from various branches of structural biology, suggesting that protein dynamics may be highly relevant for such systems. Despite their lack of stable structure, IDPs are a very large and functionally important class of proteins. In some cases, IDPs can adopt a fixed three-dimensional structure after binding to other macromolecules.