Functional and Biochemical Analysis of Glucose-6
... (GST)/G6PD fusion protein in Escherichia coli; and observed that the values of kinetic parameters from the biochemical characterization of the resulting proteins were the same as those reported using the initial vectors. These results revealed that this new system was very useful for the expression ...
... (GST)/G6PD fusion protein in Escherichia coli; and observed that the values of kinetic parameters from the biochemical characterization of the resulting proteins were the same as those reported using the initial vectors. These results revealed that this new system was very useful for the expression ...
ASD v2.0: updated content and novel features
... the investigation of allosteric pathways. To facilitate the study of allosteric proteins and their modulators, the web interface and search engine have been redesigned and enhanced. Allosteric computational tools, original literature information related to allosteric entries and external cross-links ...
... the investigation of allosteric pathways. To facilitate the study of allosteric proteins and their modulators, the web interface and search engine have been redesigned and enhanced. Allosteric computational tools, original literature information related to allosteric entries and external cross-links ...
Lipoprotein structure
... apolipoproteins in response to the compositional changes. Finally, lipoproteins are taken up and catabolized in the liver, kidney, and peripheral tissues via receptor-mediated and other mechanisms. This chapter deals almost exclusively with the human lipoproteins. ...
... apolipoproteins in response to the compositional changes. Finally, lipoproteins are taken up and catabolized in the liver, kidney, and peripheral tissues via receptor-mediated and other mechanisms. This chapter deals almost exclusively with the human lipoproteins. ...
History of the Glycosaminoglycan Symposia in the Scientific Context
... Heinrich (Enrico) Mylius (1769-1854) and Frederike Schnauss (1771-1851) moved to Milan at the end of the 18th century from Frankfurt. They fostered cultural exchange between Italy and Germany. They acquired Villa Vigoni estate for their son and his wife. Unfortunately the son died and Heinrich trans ...
... Heinrich (Enrico) Mylius (1769-1854) and Frederike Schnauss (1771-1851) moved to Milan at the end of the 18th century from Frankfurt. They fostered cultural exchange between Italy and Germany. They acquired Villa Vigoni estate for their son and his wife. Unfortunately the son died and Heinrich trans ...
Sequence and Structure Classification of Kinases
... of available kinase structures and sequences. We have classified all available kinase sequences into structure/sequence families with evolutionary implications. We predicted a number of hypothetical proteins in the database that may possess kinase activity. Furthermore, we performed a large-scale st ...
... of available kinase structures and sequences. We have classified all available kinase sequences into structure/sequence families with evolutionary implications. We predicted a number of hypothetical proteins in the database that may possess kinase activity. Furthermore, we performed a large-scale st ...
Bacterial Protein Synthesis Inhibitors (Antimicrobials)
... also usually reduce activity. This group must have an a-configuration and partial conversion of this group to its β-epimer under acidic conditions at room ...
... also usually reduce activity. This group must have an a-configuration and partial conversion of this group to its β-epimer under acidic conditions at room ...
Phylogenetic Classification of Protozoa Based on the
... the linker in P. falciparum is 89 amino acids. The linker in ChDHFR-TS plays an important role in the structure of the enzyme. Compared with the structure of DHFR-TS from PfDHFR-TS (8) in which major portions of the linker domain are not built into the model, the entire linker domain of ChDHFR-TS is ...
... the linker in P. falciparum is 89 amino acids. The linker in ChDHFR-TS plays an important role in the structure of the enzyme. Compared with the structure of DHFR-TS from PfDHFR-TS (8) in which major portions of the linker domain are not built into the model, the entire linker domain of ChDHFR-TS is ...
Phylogenetic Classification of Protozoa Based on the Structure of
... the linker in P. falciparum is 89 amino acids. The linker in ChDHFR-TS plays an important role in the structure of the enzyme. Compared with the structure of DHFR-TS from PfDHFR-TS (8) in which major portions of the linker domain are not built into the model, the entire linker domain of ChDHFR-TS is ...
... the linker in P. falciparum is 89 amino acids. The linker in ChDHFR-TS plays an important role in the structure of the enzyme. Compared with the structure of DHFR-TS from PfDHFR-TS (8) in which major portions of the linker domain are not built into the model, the entire linker domain of ChDHFR-TS is ...
2.2. Garrido-Franco, M. Structure E. coli
... However, the backbone and most of the side chain atoms of loop 4 show continuos and unambiguous electron density in monomer D. The PNP synthase octamer is organized as a tetramer of dimers AE, BF, CG and DH. The (β/α)8 domains of the corresponding monomers interact extensively about an intervening c ...
... However, the backbone and most of the side chain atoms of loop 4 show continuos and unambiguous electron density in monomer D. The PNP synthase octamer is organized as a tetramer of dimers AE, BF, CG and DH. The (β/α)8 domains of the corresponding monomers interact extensively about an intervening c ...
Identification and Structural Characterization of the ATP/ADP
... GP96 or endoplasmin) localized to the endoplasmic reticulum, where it is involved in the assembly of immunoglobulins (Melnick et al., 1992) and other proteins destined for secretion or surface presentation. GRP94/ GP96 is also involved in the loading of proteosomegenerated antigenic peptides onto na ...
... GP96 or endoplasmin) localized to the endoplasmic reticulum, where it is involved in the assembly of immunoglobulins (Melnick et al., 1992) and other proteins destined for secretion or surface presentation. GRP94/ GP96 is also involved in the loading of proteosomegenerated antigenic peptides onto na ...
Protein Sequencing and Identification With Mass
... An Introduction to Bioinformatics Algorithms ...
... An Introduction to Bioinformatics Algorithms ...
Patterns, motifs, PSI-BLAST
... regions in protein or DNA sequences. These particular regions are usually associated with: • Signals (promoters, signatures for phosphorylation, cellular location, ...); • Structure (correct folding, protein-protein interactions...); • Chemical reactivity (catalytic sites,... ). ...
... regions in protein or DNA sequences. These particular regions are usually associated with: • Signals (promoters, signatures for phosphorylation, cellular location, ...); • Structure (correct folding, protein-protein interactions...); • Chemical reactivity (catalytic sites,... ). ...
Overview of relaxin
... connective tissue. Perhaps its most principle role is to regulate the synthesis and maintainence of collagen, our primary connective tissue protein. Every part of our body and virtually every body function is thus affected or potentially influenced by relaxin. Muscle/tendon and ligament integrity, n ...
... connective tissue. Perhaps its most principle role is to regulate the synthesis and maintainence of collagen, our primary connective tissue protein. Every part of our body and virtually every body function is thus affected or potentially influenced by relaxin. Muscle/tendon and ligament integrity, n ...
Keyhole Limpet Hemocyanin ( KLH )
... KLH is one of the most commonly used carriers in the conjugation of haptens (peptides) for antibody production. Thanks its large mass, KLH has numerous primary amines available for coupling haptens, and combined with its complex structure, KLH is well presented to the immune system, hence usually el ...
... KLH is one of the most commonly used carriers in the conjugation of haptens (peptides) for antibody production. Thanks its large mass, KLH has numerous primary amines available for coupling haptens, and combined with its complex structure, KLH is well presented to the immune system, hence usually el ...
Data mining for important amino acid residues in multiple sequence
... Enzymes are highly efficient bio-catalysts interesting for industries and medicine. Therefore, a goal of utmost importance in biochemical research is to understand how an enzyme catalyzes a chemical reaction. Here, the computational identification of functionally or structurally important residue po ...
... Enzymes are highly efficient bio-catalysts interesting for industries and medicine. Therefore, a goal of utmost importance in biochemical research is to understand how an enzyme catalyzes a chemical reaction. Here, the computational identification of functionally or structurally important residue po ...
From Sequence to Structure
... because its backbone nitrogen is not available for the hydrogen bonding required for helix formation. The aromatic side chain of phenylalanine can sometimes participate in weakly polar interactions. Hydrophilic amino-acid residues are able to make hydrogen bonds to one another, to the peptide backbo ...
... because its backbone nitrogen is not available for the hydrogen bonding required for helix formation. The aromatic side chain of phenylalanine can sometimes participate in weakly polar interactions. Hydrophilic amino-acid residues are able to make hydrogen bonds to one another, to the peptide backbo ...
Advanced Stochastic Protein Sequence Analysis
... initially found evidence for approximately 30 000 transcripts and recently only 20 000 to 25 000 genes were supposed [IHG04]. Surprisingly, the sets of genes found by both groups interleave only to a percentage of approximately 21% [Hog01]. It is believed that only about 60 percent of the proteins e ...
... initially found evidence for approximately 30 000 transcripts and recently only 20 000 to 25 000 genes were supposed [IHG04]. Surprisingly, the sets of genes found by both groups interleave only to a percentage of approximately 21% [Hog01]. It is believed that only about 60 percent of the proteins e ...
Project 3: Visualizing Three-Dimensional Protein Structures Using
... the crystallographer who determined that structure? Most scientists who determine macromolecular structures are highly motivated to publish their findings in journals such as Science, Nature, Journal of Biological Chemistry, Journal of Molecular Biology and Protein Science. These journals have an ag ...
... the crystallographer who determined that structure? Most scientists who determine macromolecular structures are highly motivated to publish their findings in journals such as Science, Nature, Journal of Biological Chemistry, Journal of Molecular Biology and Protein Science. These journals have an ag ...
Supplementary Table 1
... Up-regulated and down-regulated genes after the addition of 100 mM L-serine by microarray analysis Genes of strain BWG1-7A significantly up- or down-regulated during the four hours time-course of growth in the presence of 100 mM L-serine are listed in table IA and table IB respectively. Genes listed ...
... Up-regulated and down-regulated genes after the addition of 100 mM L-serine by microarray analysis Genes of strain BWG1-7A significantly up- or down-regulated during the four hours time-course of growth in the presence of 100 mM L-serine are listed in table IA and table IB respectively. Genes listed ...
Structural and Functional Studies on Proteinaceous Metallocarboxypeptidase Inhibitors Joan López Arolas
... each peptidase is assigned a unique EC number that serves as an unmistakable reference to this enzyme. In contrast to EC system, MEROPS has most to contribute in the upper two levels. The similarities in primary structure tend to reflect shared evolutionary origins, and a wealth of biological meanin ...
... each peptidase is assigned a unique EC number that serves as an unmistakable reference to this enzyme. In contrast to EC system, MEROPS has most to contribute in the upper two levels. The similarities in primary structure tend to reflect shared evolutionary origins, and a wealth of biological meanin ...
Structure of the ordered hydration of amino acids
... used to find hydration sites as maxima in the water distribution. In order to set an appropriate unit-cell size for the pseudo-electron-density calculation, minimum and maximum coordinates in Cartesian space (xyz) were measured for each Conformer1 cluster (all amino-acid residues in the cluster toge ...
... used to find hydration sites as maxima in the water distribution. In order to set an appropriate unit-cell size for the pseudo-electron-density calculation, minimum and maximum coordinates in Cartesian space (xyz) were measured for each Conformer1 cluster (all amino-acid residues in the cluster toge ...
E. Coli MurG: A Paradigm for a Superfamily of
... The Rossmann fold was first identified in proteins that contain domains that bind to diphosphate-containing cofactors such as NADH [41]. In a typical Rossman domain, the diphosphates are bound near a P-loop, a glycine-rich stretch of amino acids located at the carboxyl terminus of one β strand and i ...
... The Rossmann fold was first identified in proteins that contain domains that bind to diphosphate-containing cofactors such as NADH [41]. In a typical Rossman domain, the diphosphates are bound near a P-loop, a glycine-rich stretch of amino acids located at the carboxyl terminus of one β strand and i ...
Structural Analyses of Zinc Finger Domains for Specific Interactions
... interactions with specific sites in an internal control region (ICR) of 5S rRNA genes. The mutational studies proved that all zinc finger domains of TFIIIA contribute to DNA interactions, although they have different binding affinities to cognate DNAs [22]. TFIIIA has the same general sequence as ZI ...
... interactions with specific sites in an internal control region (ICR) of 5S rRNA genes. The mutational studies proved that all zinc finger domains of TFIIIA contribute to DNA interactions, although they have different binding affinities to cognate DNAs [22]. TFIIIA has the same general sequence as ZI ...
Fulltext - Jultika
... 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 been crystallized from a highly concentrated sample of purified recombinant α-methylacylCoA ...
... 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 been crystallized from a highly concentrated sample of purified recombinant α-methylacylCoA ...
Structural alignment
Structural alignment attempts to establish homology between two or more polymer structures based on their shape and three-dimensional conformation. This process is usually applied to protein tertiary structures but can also be used for large RNA molecules. In contrast to simple structural superposition, where at least some equivalent residues of the two structures are known, structural alignment requires no a priori knowledge of equivalent positions. Structural alignment is a valuable tool for the comparison of proteins with low sequence similarity, where evolutionary relationships between proteins cannot be easily detected by standard sequence alignment techniques. Structural alignment can therefore be used to imply evolutionary relationships between proteins that share very little common sequence. However, caution should be used in using the results as evidence for shared evolutionary ancestry because of the possible confounding effects of convergent evolution by which multiple unrelated amino acid sequences converge on a common tertiary structure.Structural alignments can compare two sequences or multiple sequences. Because these alignments rely on information about all the query sequences' three-dimensional conformations, the method can only be used on sequences where these structures are known. These are usually found by X-ray crystallography or NMR spectroscopy. It is possible to perform a structural alignment on structures produced by structure prediction methods. Indeed, evaluating such predictions often requires a structural alignment between the model and the true known structure to assess the model's quality. Structural alignments are especially useful in analyzing data from structural genomics and proteomics efforts, and they can be used as comparison points to evaluate alignments produced by purely sequence-based bioinformatics methods.The outputs of a structural alignment are a superposition of the atomic coordinate sets and a minimal root mean square deviation (RMSD) between the structures. The RMSD of two aligned structures indicates their divergence from one another. Structural alignment can be complicated by the existence of multiple protein domains within one or more of the input structures, because changes in relative orientation of the domains between two structures to be aligned can artificially inflate the RMSD.