lecture 15
... ITC data shows Hsp70/Hsp90 preference for TPR1 or TPR2A binding sites n (ratio of binding) is ~1 for all Kd measured (lower μM means tighter binding) ...
... ITC data shows Hsp70/Hsp90 preference for TPR1 or TPR2A binding sites n (ratio of binding) is ~1 for all Kd measured (lower μM means tighter binding) ...
Studies of focal adhesion assembly
... composed of three different domain types: Fn1, Fn2 and Fn3. High-resolution structures of many of these component domains and domain combinations have been available for some time [6]; the main remaining uncertainties are associated with how Fn forms complexes with its various partners. Fn has confo ...
... composed of three different domain types: Fn1, Fn2 and Fn3. High-resolution structures of many of these component domains and domain combinations have been available for some time [6]; the main remaining uncertainties are associated with how Fn forms complexes with its various partners. Fn has confo ...
Poster
... produce chemical energy. Toxic ligands, such as carbon monoxide (CO) and cyanide, also bind to myoglobin. When CO binds to a free heme group, the heme's binding affinity for CO is 20,000 times that for O2. When heme is surrounded by myoglobin, that binding affinity ratio drops to only 25. The decrea ...
... produce chemical energy. Toxic ligands, such as carbon monoxide (CO) and cyanide, also bind to myoglobin. When CO binds to a free heme group, the heme's binding affinity for CO is 20,000 times that for O2. When heme is surrounded by myoglobin, that binding affinity ratio drops to only 25. The decrea ...
Characterizing transcription factor binding sites using formaldehyde
... In their article, A.S. Weinmann and P.J. Farnham (2002, Methods 26) described new techniques for isolating in vivo binding sites for any DNA-binding protein. In this article, we describe complementary methods for detailed in vivo characterizations of such identified protein–DNA interactions. First, w ...
... In their article, A.S. Weinmann and P.J. Farnham (2002, Methods 26) described new techniques for isolating in vivo binding sites for any DNA-binding protein. In this article, we describe complementary methods for detailed in vivo characterizations of such identified protein–DNA interactions. First, w ...
Theory of Coordination Chemistry
... with two claws, in the same way a metal can be attracted by two lone pairs from different groups on the same ligand). Example 1. Ethylenediamine H2NCH2CH2NH2 (en) Forms a 5-membered chelate ring; you can think of it havings “2 claws” coming in to grab the metal. ...
... with two claws, in the same way a metal can be attracted by two lone pairs from different groups on the same ligand). Example 1. Ethylenediamine H2NCH2CH2NH2 (en) Forms a 5-membered chelate ring; you can think of it havings “2 claws” coming in to grab the metal. ...
Rapid isolation of high-affinity protein binding peptides using
... synthesized by polymerase chain reaction (PCR), digested with SfiI, ligated into the display vector and transformed into the E.coli strain MC1061, which can be made highly transformation competent (Sidhu, 2000) and is ara, allowing the use of the araBAD promoter for controlled OmpA expression. Plas ...
... synthesized by polymerase chain reaction (PCR), digested with SfiI, ligated into the display vector and transformed into the E.coli strain MC1061, which can be made highly transformation competent (Sidhu, 2000) and is ara, allowing the use of the araBAD promoter for controlled OmpA expression. Plas ...
Document
... detected using proteolysis of His-CI; two digestive enzymes chymotrypsin and trypsin were used separately(Ganguly et al.) ...
... detected using proteolysis of His-CI; two digestive enzymes chymotrypsin and trypsin were used separately(Ganguly et al.) ...
Chapter 28 Discovery and Classification of Glycan
... A large group of GBPs that defy classification based on sequence or structure recognize sulfated GAGs (Chapter 38). The best-studied example is the interaction of heparin with antithrombin. Heparin was discovered in 1916 by Jay McLean, a medical student, but it was not until 1939 that heparin was ...
... A large group of GBPs that defy classification based on sequence or structure recognize sulfated GAGs (Chapter 38). The best-studied example is the interaction of heparin with antithrombin. Heparin was discovered in 1916 by Jay McLean, a medical student, but it was not until 1939 that heparin was ...
Bchm2000_P3 v1 - U of L Class Index
... processed. If ethanol and methanol are substrates for the same enzyme, how does ethanol prevent the oxidation of methanol? (5) The enyzme urease enhances the rate of urea hydrolysis at pH 8.0 and 20°C by a factor of 1014. If a given quantity of urease can completely hydrolyze a given quantity of ure ...
... processed. If ethanol and methanol are substrates for the same enzyme, how does ethanol prevent the oxidation of methanol? (5) The enyzme urease enhances the rate of urea hydrolysis at pH 8.0 and 20°C by a factor of 1014. If a given quantity of urease can completely hydrolyze a given quantity of ure ...
insulin-like growth factor binding proteins and their functions
... the cell surface. IGFBP-5 binds to extracellular matrix and IGFBP-3 interacts with membrane glycosaminoglycans. Cell-associated IGFBPs show lower affinity to IGFs and potentiate IGFs effects (HOSSNER et al. 1997). Proteolysis of IGFBP-3, -4 and -5 decreases their affinity to IGF-I for 50-100-fold. I ...
... the cell surface. IGFBP-5 binds to extracellular matrix and IGFBP-3 interacts with membrane glycosaminoglycans. Cell-associated IGFBPs show lower affinity to IGFs and potentiate IGFs effects (HOSSNER et al. 1997). Proteolysis of IGFBP-3, -4 and -5 decreases their affinity to IGF-I for 50-100-fold. I ...
Calcium/calmodulin-dependent protein kinase II
... physiological substrates and roles are still unknown • CaMKII- Calcium/calmodulin-dependent protein kinase II Particularly important in the nervous system. It is localized in pre- and postsynaptic compartment. Four isoforms can phosphorylate various proteins in every part of a cell. It posses also a ...
... physiological substrates and roles are still unknown • CaMKII- Calcium/calmodulin-dependent protein kinase II Particularly important in the nervous system. It is localized in pre- and postsynaptic compartment. Four isoforms can phosphorylate various proteins in every part of a cell. It posses also a ...
Application 1
... nanoparticles can serve as useful detection and targeting agents. These AuNPs when encapsulated with carbohydrate ligands can serve as a useful affinity probe for rapid, efficient separation of target proteins followed by on-probe analysis using mass spectroscopy. This technique of protein targeting ...
... nanoparticles can serve as useful detection and targeting agents. These AuNPs when encapsulated with carbohydrate ligands can serve as a useful affinity probe for rapid, efficient separation of target proteins followed by on-probe analysis using mass spectroscopy. This technique of protein targeting ...
1. The system: peptide class I MHC complexes
... aren’t that accurate as they require some fishy assumptions. However, our assumptions are less problematic for relative measurements, i.e. the difference in binding thermodynamics between two peptides (G, H, S). We could enhance this study by performing measurements with peptides designed t ...
... aren’t that accurate as they require some fishy assumptions. However, our assumptions are less problematic for relative measurements, i.e. the difference in binding thermodynamics between two peptides (G, H, S). We could enhance this study by performing measurements with peptides designed t ...
a pdf of this article as it appeared in Projects in Scientific
... in vertebrates is 125 megaDaltons, probably the largest protein complex in the cell. Not a single protein, the NPC is comprised of many distinct proteins, called nucleoporins — “Nups” for short. “There are whole machines in living cells that are made of hundreds or thousands of proteins,” says Schul ...
... in vertebrates is 125 megaDaltons, probably the largest protein complex in the cell. Not a single protein, the NPC is comprised of many distinct proteins, called nucleoporins — “Nups” for short. “There are whole machines in living cells that are made of hundreds or thousands of proteins,” says Schul ...
Model Description Sheet
... Major causes of homocystinuria are mutations in the enzyme cystathionine ß-synthase (CBS), which catalyzes the condensation of serine and homocysteine to cystathionine, an intermediate in cysteine synthesis. CBS is a pyridoxal 5’-phosphate (PLP) and heme dependent enzyme regulated by S-adenosylmethi ...
... Major causes of homocystinuria are mutations in the enzyme cystathionine ß-synthase (CBS), which catalyzes the condensation of serine and homocysteine to cystathionine, an intermediate in cysteine synthesis. CBS is a pyridoxal 5’-phosphate (PLP) and heme dependent enzyme regulated by S-adenosylmethi ...
Brookfield Academy Upper School SMART Team
... clotting. Major causes of homocystinuria are mutations in the enzyme cystathionine ß-synthase (CBS), which catalyzes the condensation of serine and homocysteine to cystathionine, an intermediate in cysteine synthesis. CBS is a pyridoxal 5’-phosphate (PLP) and heme dependent enzyme regulated by S-ade ...
... clotting. Major causes of homocystinuria are mutations in the enzyme cystathionine ß-synthase (CBS), which catalyzes the condensation of serine and homocysteine to cystathionine, an intermediate in cysteine synthesis. CBS is a pyridoxal 5’-phosphate (PLP) and heme dependent enzyme regulated by S-ade ...
Estrogen Receptor: New Paradigms in Localization, Function
... Numerous studies have examined the molecular mechanisms for the tissue selective action of SERMs, and collectively they indicate that different ER ligands induce distinct conformational changes in the receptor that influence its ability to interact with coregulatory proteins critical for the regulat ...
... Numerous studies have examined the molecular mechanisms for the tissue selective action of SERMs, and collectively they indicate that different ER ligands induce distinct conformational changes in the receptor that influence its ability to interact with coregulatory proteins critical for the regulat ...
Chapter 3
... Regulating Function by Ligand Binding The binding of a ligand to a protein typically triggers an allosteric ("other shape") conformational change resulting in the modification of its activity. An overview of regulation via allosteric transitions is presented here in the context of the tetrameric O2 ...
... Regulating Function by Ligand Binding The binding of a ligand to a protein typically triggers an allosteric ("other shape") conformational change resulting in the modification of its activity. An overview of regulation via allosteric transitions is presented here in the context of the tetrameric O2 ...
Structural Studies of Nitric Oxide Synthase Inhibitor Complexes: An
... mutagenesis. Effective binding in iNOS depends not only on interactions within the conserved enzyme active site, but also on interactions 20 Å away from the active site, much farther than was suspected. Inhibitors only bind strongly to iNOS to block NO production when they contain a “tail” large eno ...
... mutagenesis. Effective binding in iNOS depends not only on interactions within the conserved enzyme active site, but also on interactions 20 Å away from the active site, much farther than was suspected. Inhibitors only bind strongly to iNOS to block NO production when they contain a “tail” large eno ...
Lecture 3 - Classification and Nomenclature
... ligands. The sulfide groups are either two- or threecoordinated. A common motif features a four iron ions and four sulfide ions placed at the vertices of a cubane-type structure. 4Fe-4S clusters ...
... ligands. The sulfide groups are either two- or threecoordinated. A common motif features a four iron ions and four sulfide ions placed at the vertices of a cubane-type structure. 4Fe-4S clusters ...
Appendix Definitions ACTH: see adrenocorticotrophic hormone
... hCG (human chorionic gonadotropin): a placental glycoprotein hormone related to LH, FSH, and TSH. While hCG is primarily considered to have LH-like activity, at high concentrations it also exhibits some TSH-like activity. Heat shock protein (hsp): originally a protein produced by a cell in response ...
... hCG (human chorionic gonadotropin): a placental glycoprotein hormone related to LH, FSH, and TSH. While hCG is primarily considered to have LH-like activity, at high concentrations it also exhibits some TSH-like activity. Heat shock protein (hsp): originally a protein produced by a cell in response ...
Principles of Biochemistry 4/e
... their disk shape. Hemoglobin has four identical protein subunits, each designated as alpha (a). Hemoglobin and myoglobin both contain a prosthetic group called a heme. Hemoglobin utilizes a bound zinc (Zn2+) ion to bind oxygen. Hemoglobin has a higher affinity for oxygen at pH 7.2 than at pH 7.6. He ...
... their disk shape. Hemoglobin has four identical protein subunits, each designated as alpha (a). Hemoglobin and myoglobin both contain a prosthetic group called a heme. Hemoglobin utilizes a bound zinc (Zn2+) ion to bind oxygen. Hemoglobin has a higher affinity for oxygen at pH 7.2 than at pH 7.6. He ...
Cooperative binding
Molecular binding is an interaction between molecules that results in a stable physical association between those molecules. Cooperative binding occurs in binding systems that are constituted by more than one type (species) of molecule (say molecules A and B) and in which one of the partners is not mono-valent; i.e., it binds more than one molecule of the other molecular species. For example, one molecule of type A can bind 6 molecules of type B (in such cases, B is usually referred to as the ""ligand""). Binding in this type of system can be considered ""cooperative"" if the binding of B to one site on A is affected by the binding of B to other site(s) on A. In other words, the binding of B molecules to the different sites on A do not constitute mutually independent events. This can be due, for instance, to an affinity for the ligand that depends on the amount of ligand bound. Cooperativity can be positive or negative. Cooperative binding is observed in many biopolymers, including proteins and nucleic acids. Cooperative binding has been shown to be the mechanism underlying a large range of biochemical and physiological processes.