Nutrient-Sensing Mechanisms across Evolution - Sabatini Lab
... Prokaryotes Bacteria have evolved many interesting mechanisms for sensing diverse nutrients, undoubtedly an adaptation to living in environments where the concentrations and types of nutrients can vary unpredictably. We have chosen to discuss mechanisms that serve as examples of important concepts, ...
... Prokaryotes Bacteria have evolved many interesting mechanisms for sensing diverse nutrients, undoubtedly an adaptation to living in environments where the concentrations and types of nutrients can vary unpredictably. We have chosen to discuss mechanisms that serve as examples of important concepts, ...
Photopolymerized Cross-Linked Polyacrylamide Gels for On
... technique employed photolithographically patterned, crosslinked gels fabricated in situ in <20 min. The effects of sieving gel composition on the migration properties of fluorescently labeled protein standards (ranging in molecular weight from 14.2 to 66 kDa) were quantified, as was the ability of t ...
... technique employed photolithographically patterned, crosslinked gels fabricated in situ in <20 min. The effects of sieving gel composition on the migration properties of fluorescently labeled protein standards (ranging in molecular weight from 14.2 to 66 kDa) were quantified, as was the ability of t ...
STING Millennium: a web-based suite of programs
... because any point on the structure/surface might be painted (colored) only once, following the color code designed for given amino acid characteristics. Amino acid sequence on the other hand, can be mapped by number of parameters, organized and displayed in underlying rows. Appropriate visualization ...
... because any point on the structure/surface might be painted (colored) only once, following the color code designed for given amino acid characteristics. Amino acid sequence on the other hand, can be mapped by number of parameters, organized and displayed in underlying rows. Appropriate visualization ...
Binding of von Willebrand factor by coagulase
... Coagulase-negative staphylococci (CNS) are the most common infectious microorganisms isolated from prosthetic devices. To determine whether von Willebrand factor (vWF) acts as an adhesin in bacterial recognition, bacterial binding of recombinant vWF (rvWF) was studied. Eleven CNS strains, belonging ...
... Coagulase-negative staphylococci (CNS) are the most common infectious microorganisms isolated from prosthetic devices. To determine whether von Willebrand factor (vWF) acts as an adhesin in bacterial recognition, bacterial binding of recombinant vWF (rvWF) was studied. Eleven CNS strains, belonging ...
Physical and chemical interactions between
... protein bodies in the past (Zee, 1968). However, recent investigations showed that they hardly have light-polarizing properties (WS Peters et al., unpublished results). Forisomes mostly possess a spindle-like appearance with or without tails (Lawton, 1978a, b). They disperse in response to damage or ...
... protein bodies in the past (Zee, 1968). However, recent investigations showed that they hardly have light-polarizing properties (WS Peters et al., unpublished results). Forisomes mostly possess a spindle-like appearance with or without tails (Lawton, 1978a, b). They disperse in response to damage or ...
SAbDab: the structural antibody database | Nucleic Acids Research
... clusters, often referred to as canonical conformations. The canonical conformations of a given CDR type and length were originally created with the aim of linking sequence with structure. These groupings have been studied extensively (14,16,26–29). Given the exponential growth of the number of antib ...
... clusters, often referred to as canonical conformations. The canonical conformations of a given CDR type and length were originally created with the aim of linking sequence with structure. These groupings have been studied extensively (14,16,26–29). Given the exponential growth of the number of antib ...
HIC-5 Is a Novel Repressor of Lymphoid Enhancer Factor/T
... Activation of Wnt/-catenin target genes is regulated by a heterodimer of -catenin and the high mobility group box transcription factors of the lymphoid enhancer factor (LEF)/T-cell factor (TCF) family. In vertebrates, four LEF/TCF family members have been identified. They all contain a conserved  ...
... Activation of Wnt/-catenin target genes is regulated by a heterodimer of -catenin and the high mobility group box transcription factors of the lymphoid enhancer factor (LEF)/T-cell factor (TCF) family. In vertebrates, four LEF/TCF family members have been identified. They all contain a conserved  ...
Eukaryotically Encoded and Chloroplast
... rubredoxin has a similar distribution to that of photosystem II complexes, suggested a co-localization of rubredoxin with PS II. To test if rubredoxin is attached to the photosynthesis machinery or is a part of it, we isolated PS II-enriched complexes from spinach thylakoids. One fraction consisted ...
... rubredoxin has a similar distribution to that of photosystem II complexes, suggested a co-localization of rubredoxin with PS II. To test if rubredoxin is attached to the photosynthesis machinery or is a part of it, we isolated PS II-enriched complexes from spinach thylakoids. One fraction consisted ...
Review of Osmotic Pressure Driven Release of Proteins from
... oxidation, thiol disulfide exchange, and βelimination in aqueous solutions (5). The major factors affecting these changes are mechanical forces such as shear, the presence of surfactants, buffers, ionic strength, the presence of oxidizers such as ions, radicals and peroxide, light, pH and temperatur ...
... oxidation, thiol disulfide exchange, and βelimination in aqueous solutions (5). The major factors affecting these changes are mechanical forces such as shear, the presence of surfactants, buffers, ionic strength, the presence of oxidizers such as ions, radicals and peroxide, light, pH and temperatur ...
tutorial_structurech..
... the D-/L- naming convention, naturally occurring amino acids are found in the L-configuration. Note, however, that D-amino acids do occur in biology, e. g., in cell walls of bacteria. Nucleic acids also have chiral centers. For example, in DNA the atoms C1’, C3’, and C4’ are chiral, while RNA has an ...
... the D-/L- naming convention, naturally occurring amino acids are found in the L-configuration. Note, however, that D-amino acids do occur in biology, e. g., in cell walls of bacteria. Nucleic acids also have chiral centers. For example, in DNA the atoms C1’, C3’, and C4’ are chiral, while RNA has an ...
Transport of Storage Proteins to Protein Storage Vacuoles Is
... suggests that the vesicles with a density of 1.24 g/cm 3 mediate the transport of major storage proteins to protein storage vacuoles in maturing seeds of pumpkin and castor bean. However, the origin of these vesicles remains unknown. The ultrastructure of these vesicles, which includes an electron-d ...
... suggests that the vesicles with a density of 1.24 g/cm 3 mediate the transport of major storage proteins to protein storage vacuoles in maturing seeds of pumpkin and castor bean. However, the origin of these vesicles remains unknown. The ultrastructure of these vesicles, which includes an electron-d ...
Protein Creation Pathway
... The nucleus (flashing circle) is nicknamed the “control center” of a cell. But why? The nucleus contains DNA in its active form and this DNA will ultimately be used as a blueprint to create proteins for use throughout the body. The process of creating a protein begins in the nucleus. Click the arrow ...
... The nucleus (flashing circle) is nicknamed the “control center” of a cell. But why? The nucleus contains DNA in its active form and this DNA will ultimately be used as a blueprint to create proteins for use throughout the body. The process of creating a protein begins in the nucleus. Click the arrow ...
“The function and synthesis of ribosomes.” Nature Reviews Mol Cell
... >95% conserved across all three kingdoms of life, supporting its key functional role. The domain is stabilized by the long extensions of four r-proteins, but these are too far away to participate directly in catalysis. From this, it was concluded that the peptidyl-transfer reaction is catalysed by R ...
... >95% conserved across all three kingdoms of life, supporting its key functional role. The domain is stabilized by the long extensions of four r-proteins, but these are too far away to participate directly in catalysis. From this, it was concluded that the peptidyl-transfer reaction is catalysed by R ...
the function and synthesis of ribosomes
... >95% conserved across all three kingdoms of life, supporting its key functional role. The domain is stabilized by the long extensions of four r-proteins, but these are too far away to participate directly in catalysis. From this, it was concluded that the peptidyl-transfer reaction is catalysed by R ...
... >95% conserved across all three kingdoms of life, supporting its key functional role. The domain is stabilized by the long extensions of four r-proteins, but these are too far away to participate directly in catalysis. From this, it was concluded that the peptidyl-transfer reaction is catalysed by R ...
Development of antifertility vaccine using sperm specific proteins
... peptide has been sequenced and its small fragments which immunobiologically mimic native protein have been identified and synthesized. Active/passive immunization with hSPI or its synthetic peptides results in about 75 per cent inhibition of fertility in male and female rats19-21. Active immunizatio ...
... peptide has been sequenced and its small fragments which immunobiologically mimic native protein have been identified and synthesized. Active/passive immunization with hSPI or its synthetic peptides results in about 75 per cent inhibition of fertility in male and female rats19-21. Active immunizatio ...
Specific amino acids in the BAR domain allow homodimerization
... with other BAR domain-containing proteins, in particular with its homologues SNX9 and SNX18, but also with the more distantly related SNX1. As a positive control, SNX33 was used. All four proteins were transiently expressed as HA-tagged proteins in HEK-293/FLAG–SNX33 cells and probed for co-immunopr ...
... with other BAR domain-containing proteins, in particular with its homologues SNX9 and SNX18, but also with the more distantly related SNX1. As a positive control, SNX33 was used. All four proteins were transiently expressed as HA-tagged proteins in HEK-293/FLAG–SNX33 cells and probed for co-immunopr ...
Chemical Shift Restraints Tools and Methods
... Chemical shifts values are indirectly related to geometry (SHIFTX, CamShift) NOEs have long-range information Chemical shifts are local NOEs are redundant There is only one chemical shift per atom Clear quality control (number of assigned NOEs, NOEs violation) ...
... Chemical shifts values are indirectly related to geometry (SHIFTX, CamShift) NOEs have long-range information Chemical shifts are local NOEs are redundant There is only one chemical shift per atom Clear quality control (number of assigned NOEs, NOEs violation) ...
2. Yi-Kuo Yu, John C. Wootton, and Stephen F. Altschul The compositional adjustment of amino acid substitution matrices PNAS 2003 100: 15688-15693.
... For this study, we constructed three test sets of sequence pairs for which ‘‘orthology’’ provided extrinsic evidence for alignment quality and a fourth test set supported by three-dimensional structural evidence (Tables 2–5, which are published as supporting information on the PNAS web site, www.pna ...
... For this study, we constructed three test sets of sequence pairs for which ‘‘orthology’’ provided extrinsic evidence for alignment quality and a fourth test set supported by three-dimensional structural evidence (Tables 2–5, which are published as supporting information on the PNAS web site, www.pna ...
Disulfide formation in plant storage vacuoles permits assembly
... compost and vermiculite under greenhouse conditions at 15°C with a 16 hour light / 8 hour dark cycle. Prior to planting, seeds were imbibed in running water overnight. The development of Ricinus communis seeds is divided into seven stages (A to G) based on size, testa formation and state of hydratio ...
... compost and vermiculite under greenhouse conditions at 15°C with a 16 hour light / 8 hour dark cycle. Prior to planting, seeds were imbibed in running water overnight. The development of Ricinus communis seeds is divided into seven stages (A to G) based on size, testa formation and state of hydratio ...
Differential localization of LTA synthesis proteins and their
... D-alanine is transferred from the D-alanine-D-alanyl carrier protein ligase DltA to the carrier protein DltC (Heaton and Neuhaus, 1992; 1994). As expected, an interaction between these proteins was detected using the twohybrid assay system (Fig. 1A and B). Furthermore, a DltA ...
... D-alanine is transferred from the D-alanine-D-alanyl carrier protein ligase DltA to the carrier protein DltC (Heaton and Neuhaus, 1992; 1994). As expected, an interaction between these proteins was detected using the twohybrid assay system (Fig. 1A and B). Furthermore, a DltA ...
2.3.1. Vector construction - Trace: Tennessee Research and
... combination of various image processing techniques and analytical models. This combined approach made it possible to estimate cell morphology parameters such as length, diameter, the effective laser probe volume, as well as to the mobile protein concentration in vivo, the number of bound molecules a ...
... combination of various image processing techniques and analytical models. This combined approach made it possible to estimate cell morphology parameters such as length, diameter, the effective laser probe volume, as well as to the mobile protein concentration in vivo, the number of bound molecules a ...
Periplasmic folding factors in Gram-negative bacteria
... Small, hydrophilic substances can cross the membrane through proteins known as porins, but the membrane is impermeable to hydrophobic molecules and hydrophilic molecules larger than approximately 600 Da (2). This barrier function protects bacteria from harmful substances in their environment, such a ...
... Small, hydrophilic substances can cross the membrane through proteins known as porins, but the membrane is impermeable to hydrophobic molecules and hydrophilic molecules larger than approximately 600 Da (2). This barrier function protects bacteria from harmful substances in their environment, such a ...
Methods for imaging and detecting modification of proteins
... primary components of the diet, biological membranes, and lipoproteins, and they are substrates for lipid peroxidation (LPO) [1–3]. They readily undergo nonenzymatic peroxidation during oxidative stress or are oxidized through reactions involving enzymes such as cyclooxygenase, cytochrome P450, or t ...
... primary components of the diet, biological membranes, and lipoproteins, and they are substrates for lipid peroxidation (LPO) [1–3]. They readily undergo nonenzymatic peroxidation during oxidative stress or are oxidized through reactions involving enzymes such as cyclooxygenase, cytochrome P450, or t ...
Molecular paleontology and complexity in the last eukaryotic
... places all three of the major domains, i.e. bacteria, archaea and eukaryota as monophyletic (top tree). This implies that the eukaryotes branched from the Archaea as a separate and independent lineage, with a stepwise topology, i.e. bacteria emerged first, from which archaea arose and then finally t ...
... places all three of the major domains, i.e. bacteria, archaea and eukaryota as monophyletic (top tree). This implies that the eukaryotes branched from the Archaea as a separate and independent lineage, with a stepwise topology, i.e. bacteria emerged first, from which archaea arose and then finally t ...
The Behavior of Proteins: Enzymes, Mechanisms
... assurances of any kind, express or implied, with respect to such information, including any information on linked sites and including, but not limited to, accuracy of the information or its completeness, timeliness, usefulness, adequacy, continued availability, or ownership. This solution is copyrig ...
... assurances of any kind, express or implied, with respect to such information, including any information on linked sites and including, but not limited to, accuracy of the information or its completeness, timeliness, usefulness, adequacy, continued availability, or ownership. This solution is copyrig ...
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.