Search Results - "proteins"

Fuzzy protein theory for disordered proteins

Table of Contents: “…Contents: Intelligent decision-making mechanisms -- Structural disorder is maintained in protein assemblies -- Mechanisms and biological consequences of fuzziness -- Conformational diversity and context-dependence -- Fuzziness in cell differentiation and transcription factor evolution -- Material state and regulation of higher-order assemblies.…”
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Fuzzy protein theory for disordered proteins

Table of Contents: “…Contents: Intelligent decision-making mechanisms -- Structural disorder is maintained in protein assemblies -- Mechanisms and biological consequences of fuzziness -- Conformational diversity and context-dependence -- Fuzziness in cell differentiation and transcription factor evolution -- Material state and regulation of higher-order assemblies.…”
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Fuzzy protein theory for disordered proteins

Table of Contents: “…Contents: Intelligent decision-making mechanisms -- Structural disorder is maintained in protein assemblies -- Mechanisms and biological consequences of fuzziness -- Conformational diversity and context-dependence -- Fuzziness in cell differentiation and transcription factor evolution -- Material state and regulation of higher-order assemblies.…”
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Protein crystallography

Table of Contents: “…Contents: Protein crystallography -- Protein crystallization methods -- Crystal symmetry -- X-ray intensity data collection -- Electron density equation -- The Patterson function -- Multiple isomorphous replacement phasing -- Fitting the electron density with a model -- Refinement of the model -- Estimating quality of the model.…”
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Protein folding

Table of Contents: “…Contents: Introduction to principles of protein structure -- The basic facts about protein folding -- Cooperativity of protein structure formation -- Necessary and sufficient conditions for protein sequences to fold -- Concept of energy gap -- Protein folding kinetics -- Intermediates and transition state ensembles -- Allatom folding simulations -- Understanding protein folding pathways at atomic detail.…”
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Protein crystallography

Table of Contents: “…Contents: Protein crystallography -- Protein crystallization methods -- Crystal symmetry -- X-ray intensity data collection -- Electron density equation -- The Patterson function -- Multiple isomorphous replacement phasing -- Fitting the electron density with a model -- Refinement of the model -- Estimating quality of the model.…”
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Protein folding

Table of Contents: “…Contents: Introduction to principles of protein structure -- The basic facts about protein folding -- Cooperativity of protein structure formation -- Necessary and sufficient conditions for protein sequences to fold -- Concept of energy gap -- Protein folding kinetics -- Intermediates and transition state ensembles -- Allatom folding simulations -- Understanding protein folding pathways at atomic detail.…”
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Protein crystallography

Table of Contents: “…Contents: Protein crystallography -- Protein crystallization methods -- Crystal symmetry -- X-ray intensity data collection -- Electron density equation -- The Patterson function -- Multiple isomorphous replacement phasing -- Fitting the electron density with a model -- Refinement of the model -- Estimating quality of the model.…”
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Protein folding

Table of Contents: “…Contents: Introduction to principles of protein structure -- The basic facts about protein folding -- Cooperativity of protein structure formation -- Necessary and sufficient conditions for protein sequences to fold -- Concept of energy gap -- Protein folding kinetics -- Intermediates and transition state ensembles -- Allatom folding simulations -- Understanding protein folding pathways at atomic detail.…”
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The roles of intrinsic disorder in protein interaction networks

Table of Contents: “…Contents: Introducing the protein intrinsic disorder concept and intrinsically disordered proteins (IDPs) -- Structural peculiarities of IDPs -- Sequence peculiarities of IDPs -- Abundance of IDPs and their functions -- Intrinsic disorder in protein interaction networks -- Peculiarities of disorder-based binding and regulation -- Why are IDPs commonly involved in protein interactions?.…”
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Intrinsically unstructured proteins regulation and disease /

Table of Contents: “…Contents: Regulatory genomics and systems biology -- Intrinsically unstructured proteins (IUPs): structural and biophysical advantage -- Functional advantage -- Thermodynamic and kinetic advantage -- Conformational advantage -- Identification of IUPs -- Functions of IUPs -- Disadvantages of unstructured regions -- Unstructured regions in proteins -- Cells minimize the risks of unstructured proteins -- Tight regulation of IUPs -- Key regulatory events affecting protein availability -- IUPs in yeast -- Gene-ontology functional enrichment analysis -- Genome-scale datasets on transcript availability -- Transcripts encoding IUPs are tightly controlled -- Mechanisms affecting transcript stability -- Genome-scale datasets on protein availability -- IUPs are tightly controlled at the translational level -- PEST sequences -- Aggregation prone IUPs: more tightly regulated -- Control calculation -- Tight regulation of IUPs is evolutionarily conserved -- Control of IUP affects signaling fidelity/regulation -- Control of specific IUP affects protein aggregation.…”
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Protein folding and misfolding from theory to therapy /

Table of Contents: “…Contents: Protein nature, folding and complexity -- Folding in a cellular environment -- The underlying principles of folding -- Native and transition states -- Exploring the energy surface -- The folding of lysozyme -- The consequences of protein misfolding -- The relationship between folding and disease -- Protein deposition diseases -- Protein aggregates in amyloid diseases -- Amyloidogenic mutations of lysozyme -- Mechanism of amyloid formation -- Structure of the amyloidogenic intermediate -- Amyloid formation by lysozyme in vivo -- SH3 domain of PI3 kinase -- Model of an amyloid fibril -- The underlying origins of amyloid disease -- Generic toxicity of amyloid aggregates -- Cellular defences against aggregation -- Evolutionary design of proteins -- "Post-evolutionary" diseases.…”
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Protein structure principles

Table of Contents: “…Contents: Primary protein structure -- X-ray diffraction and protein 3D structure -- Interactions within proteins -- Peptide bond constraints -- Ramachandran maps.…”
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Observed protein structures

Table of Contents: “…Contents: Protein secondary structures: alpha helix, beta-sheet, turns, and collagen -- Collagen properties -- The "protein fold" -- Protein arrangement according to type of fold, superfamily and family.…”
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Intrinsically unstructured proteins regulation and disease /

Table of Contents: “…Contents: Regulatory genomics and systems biology -- Intrinsically unstructured proteins (IUPs): structural and biophysical advantage -- Functional advantage -- Thermodynamic and kinetic advantage -- Conformational advantage -- Identification of IUPs -- Functions of IUPs -- Disadvantages of unstructured regions -- Unstructured regions in proteins -- Cells minimize the risks of unstructured proteins -- Tight regulation of IUPs -- Key regulatory events affecting protein availability -- IUPs in yeast -- Gene-ontology functional enrichment analysis -- Genome-scale datasets on transcript availability -- Transcripts encoding IUPs are tightly controlled -- Mechanisms affecting transcript stability -- Genome-scale datasets on protein availability -- IUPs are tightly controlled at the translational level -- PEST sequences -- Aggregation prone IUPs: more tightly regulated -- Control calculation -- Tight regulation of IUPs is evolutionarily conserved -- Control of IUP affects signaling fidelity/regulation -- Control of specific IUP affects protein aggregation.…”
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Protein folding and misfolding from theory to therapy /

Table of Contents: “…Contents: Protein nature, folding and complexity -- Folding in a cellular environment -- The underlying principles of folding -- Native and transition states -- Exploring the energy surface -- The folding of lysozyme -- The consequences of protein misfolding -- The relationship between folding and disease -- Protein deposition diseases -- Protein aggregates in amyloid diseases -- Amyloidogenic mutations of lysozyme -- Mechanism of amyloid formation -- Structure of the amyloidogenic intermediate -- Amyloid formation by lysozyme in vivo -- SH3 domain of PI3 kinase -- Model of an amyloid fibril -- The underlying origins of amyloid disease -- Generic toxicity of amyloid aggregates -- Cellular defences against aggregation -- Evolutionary design of proteins -- "Post-evolutionary" diseases.…”
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Protein folding and misfolding from theory to therapy /

Table of Contents: “…Contents: Protein nature, folding and complexity -- Folding in a cellular environment -- The underlying principles of folding -- Native and transition states -- Exploring the energy surface -- The folding of lysozyme -- The consequences of protein misfolding -- The relationship between folding and disease -- Protein deposition diseases -- Protein aggregates in amyloid diseases -- Amyloidogenic mutations of lysozyme -- Mechanism of amyloid formation -- Structure of the amyloidogenic intermediate -- Amyloid formation by lysozyme in vivo -- SH3 domain of PI3 kinase -- Model of an amyloid fibril -- The underlying origins of amyloid disease -- Generic toxicity of amyloid aggregates -- Cellular defences against aggregation -- Evolutionary design of proteins -- "Post-evolutionary" diseases.…”
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Series

Intrinsically unstructured proteins regulation and disease /

Table of Contents: “…Contents: Regulatory genomics and systems biology -- Intrinsically unstructured proteins (IUPs): structural and biophysical advantage -- Functional advantage -- Thermodynamic and kinetic advantage -- Conformational advantage -- Identification of IUPs -- Functions of IUPs -- Disadvantages of unstructured regions -- Unstructured regions in proteins -- Cells minimize the risks of unstructured proteins -- Tight regulation of IUPs -- Key regulatory events affecting protein availability -- IUPs in yeast -- Gene-ontology functional enrichment analysis -- Genome-scale datasets on transcript availability -- Transcripts encoding IUPs are tightly controlled -- Mechanisms affecting transcript stability -- Genome-scale datasets on protein availability -- IUPs are tightly controlled at the translational level -- PEST sequences -- Aggregation prone IUPs: more tightly regulated -- Control calculation -- Tight regulation of IUPs is evolutionarily conserved -- Control of IUP affects signaling fidelity/regulation -- Control of specific IUP affects protein aggregation.…”
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Series

Protein structure principles

Table of Contents: “…Contents: Primary protein structure -- X-ray diffraction and protein 3D structure -- Interactions within proteins -- Peptide bond constraints -- Ramachandran maps.…”
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Series

Observed protein structures

Table of Contents: “…Contents: Protein secondary structures: alpha helix, beta-sheet, turns, and collagen -- Collagen properties -- The "protein fold" -- Protein arrangement according to type of fold, superfamily and family.…”
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Series