Modeling RNA Molecules
... the number of ncRNAs has exploded and appears to scale with biological complexity (Taft et al. 2007). Evidence is building that many of these ncRNAs, like those involved in splicing and translation, which have been known for many years, function at least in part by forming complex 3D structures to i ...
... the number of ncRNAs has exploded and appears to scale with biological complexity (Taft et al. 2007). Evidence is building that many of these ncRNAs, like those involved in splicing and translation, which have been known for many years, function at least in part by forming complex 3D structures to i ...
Molecular Chaperones - Cellular Machines for Protein Folding
... dissected into three domains. The equatorial domains comprise the center part of the barrel. They bind and hydrolyze ATP and mediate all the contacts between the two rings and most of the contacts between the subunits of the same ring. The apical domains are located on the outer rims of the barrel a ...
... dissected into three domains. The equatorial domains comprise the center part of the barrel. They bind and hydrolyze ATP and mediate all the contacts between the two rings and most of the contacts between the subunits of the same ring. The apical domains are located on the outer rims of the barrel a ...
Nucleic Acid AptamerssFrom Selection in Vitro to Applications in Vivo
... The two aptamers differ by only three mutations, yet each exhibits very high specificity for its cognate ligand. The three-dimensional fold defined by chemical probing analysis and NMR spectroscopy showed how the three mutations within the amino acid binding site of these RNAs determine which of the ...
... The two aptamers differ by only three mutations, yet each exhibits very high specificity for its cognate ligand. The three-dimensional fold defined by chemical probing analysis and NMR spectroscopy showed how the three mutations within the amino acid binding site of these RNAs determine which of the ...
“The function and synthesis of ribosomes.” Nature Reviews Mol Cell
... interactions is not enough to account for the high accuracy of translation, and a key function of the small subunit is to discriminate against aminoacyl-tRNAs that do not match the codon on the message48. This crucial step in the decoding process was poorly understood until the demonstration that th ...
... interactions is not enough to account for the high accuracy of translation, and a key function of the small subunit is to discriminate against aminoacyl-tRNAs that do not match the codon on the message48. This crucial step in the decoding process was poorly understood until the demonstration that th ...
the function and synthesis of ribosomes
... interactions is not enough to account for the high accuracy of translation, and a key function of the small subunit is to discriminate against aminoacyl-tRNAs that do not match the codon on the message48. This crucial step in the decoding process was poorly understood until the demonstration that th ...
... interactions is not enough to account for the high accuracy of translation, and a key function of the small subunit is to discriminate against aminoacyl-tRNAs that do not match the codon on the message48. This crucial step in the decoding process was poorly understood until the demonstration that th ...
The hepatitis C virus Core protein is a potent nucleic acid chaperone
... polyprotein of 3010 amino acids that is ¯anked by 5¢ and 3¢ untranslated regions (UTR) of ~340 and ~230 nt, respectively. The 5¢ and 3¢ UTRs bear highly conserved RNA structures that are essential for protein synthesis and viral RNA replication. The viral polyprotein precursor is cleaved by cellular ...
... polyprotein of 3010 amino acids that is ¯anked by 5¢ and 3¢ untranslated regions (UTR) of ~340 and ~230 nt, respectively. The 5¢ and 3¢ UTRs bear highly conserved RNA structures that are essential for protein synthesis and viral RNA replication. The viral polyprotein precursor is cleaved by cellular ...
Chapter 9: Introns and the RNA World
... had an intron–exon structure. The RNA genetic material consisted of RNA exons held together by self-splicing RNA introns, either group I or group II introns, both of which functions are catalyzed by RNA molecules acting as ribozymes. In this picture, the RNA genetic material would have an extended, ...
... had an intron–exon structure. The RNA genetic material consisted of RNA exons held together by self-splicing RNA introns, either group I or group II introns, both of which functions are catalyzed by RNA molecules acting as ribozymes. In this picture, the RNA genetic material would have an extended, ...
Instruction Manual, PureZOL RNA Isolation Reagent - Bio-Rad
... total RNA from animal and plant tissues, cultured mammalian cells, and bacterial and yeast cells in under 1 hour. PureZOL can also be used for the simultaneous extraction of RNA, DNA, and proteins from various samples. This reagent allows processing of small amounts of starting material (50 cells or ...
... total RNA from animal and plant tissues, cultured mammalian cells, and bacterial and yeast cells in under 1 hour. PureZOL can also be used for the simultaneous extraction of RNA, DNA, and proteins from various samples. This reagent allows processing of small amounts of starting material (50 cells or ...
Email:
... Potential new drug target sites were identified on the ribosome using new chemical probes. Studied mechanism of Cisplatin-RNA interaction by reverse transcription, HPLC, MALDI-TOF, LC-MS and Atomic absorption spectroscopy. For advanced understanding of how small molecules find their target sit ...
... Potential new drug target sites were identified on the ribosome using new chemical probes. Studied mechanism of Cisplatin-RNA interaction by reverse transcription, HPLC, MALDI-TOF, LC-MS and Atomic absorption spectroscopy. For advanced understanding of how small molecules find their target sit ...
Structure-activity Relationships in Flexible Protein Domains
... physiological role of the interaction of RhoGDI with the GTP-bound form of a GTPase remains to be established. Overall, when exogenously introduced into cells the GDIs behave as negative regulators by maintaining rho GTPases as inactive cytosolic forms which are unable to effectively interact with G ...
... physiological role of the interaction of RhoGDI with the GTP-bound form of a GTPase remains to be established. Overall, when exogenously introduced into cells the GDIs behave as negative regulators by maintaining rho GTPases as inactive cytosolic forms which are unable to effectively interact with G ...
Package `PPInfer`
... The OCSVM and classical SVM are sequentially used. First, we apply the OCSVM by training a one-class classifier using the data from the known class only and classify the background data. Let n be the number of proteins in the target class. This model is used to predict remaining N-n proteins in the ...
... The OCSVM and classical SVM are sequentially used. First, we apply the OCSVM by training a one-class classifier using the data from the known class only and classify the background data. Let n be the number of proteins in the target class. This model is used to predict remaining N-n proteins in the ...
Proteomic Analysis of the Arabidopsis Nucleolus Suggests Novel
... organization than making ribosomes; these differences may originate in other aspects of nucleolar function. In animal nucleoli, transcription occurs in the dense fibrillar component (DFC; Koberna et al., 2002), often at the surface of the closely associated fibrillar centers (FC). The early processi ...
... organization than making ribosomes; these differences may originate in other aspects of nucleolar function. In animal nucleoli, transcription occurs in the dense fibrillar component (DFC; Koberna et al., 2002), often at the surface of the closely associated fibrillar centers (FC). The early processi ...
cytoplasm nucleus and the A specific subset of
... domain is required for shuttling. This domain, however, is not sufficient to promote shuttling of an unrelated protein reporter, suggesting that stable RNA binding mediated by the RNA-recognition motifs may be required for shuttling. Consistent with such a requirement, a double point-mutation in RRM ...
... domain is required for shuttling. This domain, however, is not sufficient to promote shuttling of an unrelated protein reporter, suggesting that stable RNA binding mediated by the RNA-recognition motifs may be required for shuttling. Consistent with such a requirement, a double point-mutation in RRM ...
SPLIT RNA Extraction Kit: Pure Fractions for Demanding Applications
... with cell / tissue homogenization in a highly chaotropic buffer that also readily dissolves solid tissues (Fig. 1). Cell debris, proteins and DNA are then separated from the RNA in an acidic phenol extraction. This step is aided by the use of phase-lock gel tubes, significantly facilitating the hand ...
... with cell / tissue homogenization in a highly chaotropic buffer that also readily dissolves solid tissues (Fig. 1). Cell debris, proteins and DNA are then separated from the RNA in an acidic phenol extraction. This step is aided by the use of phase-lock gel tubes, significantly facilitating the hand ...
Abiogenesis
... • RNA strings merge with bilayer shells – Lipid bilayers form ‘vesicles’ or shells ...
... • RNA strings merge with bilayer shells – Lipid bilayers form ‘vesicles’ or shells ...
Gel electrophoresis - Caltech Particle Theory
... You have to remember that when we work with proteins, we work with many copies of each kind of protein. As a result, the collection of proteins of any given size tend to move through the gel at the same rate, even if they do not take exactly the same tunnels to get through. Back to our analogy of th ...
... You have to remember that when we work with proteins, we work with many copies of each kind of protein. As a result, the collection of proteins of any given size tend to move through the gel at the same rate, even if they do not take exactly the same tunnels to get through. Back to our analogy of th ...
Comparison of Protein Active Site Structures for
... A total of 34,000 X-ray and NMR structures that are currently available in the PDB were analyzed for the presence of a bound ligand. The CPASS database is expected to be routinely updated. Only protein structures that contain a bound ligand are included in the CPASS database. Conversely, structures ...
... A total of 34,000 X-ray and NMR structures that are currently available in the PDB were analyzed for the presence of a bound ligand. The CPASS database is expected to be routinely updated. Only protein structures that contain a bound ligand are included in the CPASS database. Conversely, structures ...
RNA-based life forms
... relative likelihood of its formation from the prebiotic mixture and the ease with which a transition to RNA might have been achieved. TNA consists of α-L-threofuranosyl sugars linked by 3´, 2´-phosphodiester bonds.9 The probability of TNA spontaneously forming from its components is much greater tha ...
... relative likelihood of its formation from the prebiotic mixture and the ease with which a transition to RNA might have been achieved. TNA consists of α-L-threofuranosyl sugars linked by 3´, 2´-phosphodiester bonds.9 The probability of TNA spontaneously forming from its components is much greater tha ...
Small AnDsense RNAs and RNA Interference
... • We have been following the narra)ve of the flow informa)on from DNA to proteins • Timur and S)rling men)oned various types of RNA so far: – mRNA*, messenger RNA (Module 5) – rRNA, ribosomal RNA (Module 6, transla)on) – tRNA, transfer RNA (Module 6, transla)on) – snRNA, small nuclear RN ...
... • We have been following the narra)ve of the flow informa)on from DNA to proteins • Timur and S)rling men)oned various types of RNA so far: – mRNA*, messenger RNA (Module 5) – rRNA, ribosomal RNA (Module 6, transla)on) – tRNA, transfer RNA (Module 6, transla)on) – snRNA, small nuclear RN ...
STRUCTURE AND ALLERGENICITY OF WHEAT GLUTEN PROTEINS
... Because both of these protein fractions play a significant role in the human diet, intensive research has been carried out to explore the biochemical and molecular reasons for their allergenicity, and the possibilities for eliminating or limiting it. In spite of much progress, this problem has not b ...
... Because both of these protein fractions play a significant role in the human diet, intensive research has been carried out to explore the biochemical and molecular reasons for their allergenicity, and the possibilities for eliminating or limiting it. In spite of much progress, this problem has not b ...
Abiogenesis
... • Experiment designed to simulate the early Earth • Synthesised organic compounds – The building blocks of life ...
... • Experiment designed to simulate the early Earth • Synthesised organic compounds – The building blocks of life ...
GEFs: master regulators of G
... RCC1 (acts on Ran) and EfTu families have been determined, and each has been shown to adopt a different threedimensional fold (Fig. 1). The GPCR GEFs constitute a distinct family of integral membrane proteins. How do they work? ...
... RCC1 (acts on Ran) and EfTu families have been determined, and each has been shown to adopt a different threedimensional fold (Fig. 1). The GPCR GEFs constitute a distinct family of integral membrane proteins. How do they work? ...
LSm
In molecular biology, LSm proteins are a family of RNA-binding proteins found in virtually every cellular organism. LSm is a contraction of 'like Sm', because the first identified members of the LSm protein family were the Sm proteins. LSm proteins are defined by a characteristic three-dimensional structure and their assembly into rings of six or seven individual LSm protein molecules, and play a large number of various roles in mRNA processing and regulation.The Sm proteins were first discovered as antigens targeted by so-called Anti-Sm antibodies in a patient with a form of Systemic lupus erythematosus (SLE), a debilitating autoimmune disease. They were named Sm proteins in honor of Stephanie Smith, a patient who suffered from SLE. Other proteins with very similar structures were subsequently discovered and named LSm proteins. New members of the LSm protein family continue to be identified and reported.Proteins with similar structures are grouped into a hierarchy of protein families, superfamilies, and folds. The LSm protein structure is an example of a small beta sheet folded into a short barrel. Individual LSm proteins assemble into a six or seven member doughnut ring (more properly termed a torus), which usually binds to a small RNA molecule to form a ribonucleoprotein complex. The LSm torus assists the RNA molecule to assume and maintain its proper three-dimensional structure. Depending on which LSm proteins and RNA molecule are involved, this ribonucleoprotein complex facilitates a wide variety of RNA processing including degradation, editing, splicing, and regulation.Alternate terms for LSm family are LSm fold and Sm-like fold, and alternate capitalization styles such as lsm, LSM, and Lsm are common and equally acceptable.