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==INTRODUCTION==
This guide to the contents of Proteopedia is maintained manually (not automatically generated) and so is inevitably incomplete. Please be sure to use the [[Help:Searching|search slots at the left]] if you don't find what you are looking for below. Updated:  {{REVISIONDAY2}}-{{REVISIONMONTH}}-{{REVISIONYEAR}} (DD-MM-YYYY)
* Introduction to the Chemistry of Life
 
* Water
'''When you create a new page in Proteopedia, please add it to corresponding topic subpages.'''
 
==Topics Pages Organized by Category==
{{#tree:id=OrganizedByTopic|openlevels=0|
 
* [[Introduction to protein structure]] - A introductory overview of protein structure.
* [[About Macromolecular Structure]] - List of pages about macromolecular structure terms and concepts.
* [[Proteopedia:Topic Pages|Topic pages]] - List of pages about specific proteins or protein families.
* [[Index pages]] - List of pages that list other pages within Proteopedia.
* Basics of Protein Structure
**[[Introduction to protein structure]] - A introductory overview of protein structure
**[[Proteins: primary and secondary structure]]
**[[Myoglobin of Physeter catodon: structure]]
** The Building Blocks
*** [[Amino Acids]]
*** [[Backbone_representations]]
*** [[Peptide]]
**** [[User:Stephen Mills/Peptide tutorial 1|Peptide tutorial 1 part 1]]
**** [[User:Stephen Mills/Peptide tutorial 2|Peptide tutorial 1 part 2]]
 
** Conformational flexibility of a polypeptide chain
*** [[Phi and Psi Angles]]
*** [[Ramachandran Plots]]
*** [[Tutorial:Ramachandran principle and phi psi angles]]
** [[Secondary structure]]
*** [[Helices in Proteins]]
**** [[User:Stephen Mills/Secondary Structure: Helices|Secondary Structure tutorial - Helices]]
*** [[Sheets in Proteins]]
**** [[User:Stephen Mills/Secondary Structure: Sheets|Secondary Structure tutorial - Sheets]]
** [[Structural_templates]]
*** [[Globular_Proteins]]
**** [[Turns in Proteins]]
*** [[Fibrous Proteins]]
**** [[Coiled_coil]]
**** [[Collagen]] - Illustrates the structure of a collagen segment as well as the structure of a mutated tropocollagen.
**** [[Fibroins]]
 
 
** [[Unusual Motifs in Proteins]]
*** [[Cation-pi_interactions]]
*** [[Thermal_motion_of_peptide]]
 
** [[Intrinsically Disordered Protein]]


==BIOMOLECULES==
* Nucleotides, Nucleic Acids, and Genetic Information
**[[Z-DNA]]
* [[Amino_Acids]]
* Proteins: Primary Structure
* Proteins: Three-Dimensional Structure
* Protein Function: Myoglobin and Hemoglobin, Muscle Contraction, and Antibodies
* Carbohydrates
* Carbohydrates
* Lipids and Biological Membranes
**[[Carbohydrates]]
* Membrane Transport
**[[Carbohydrates II]]
**[[A Physical Model of the β2-Adrenergic Receptor]]
* Cytoskeletal Proteins
* Water in Structures
** [[Actin]]
**[[Water_in_macromolecular_models]]
** [[Keratins]]
** [[Tropomyosin]]
** [[Tubulin]]
 
* Lipids
**[[Lipids: structure and classification]]
 
* Diseases & Related Topics
** [[Alzheimer's Disease]]
** [[Antibody]]
** [[Bacterial Infections]]
** [[Cancer]]
** [[Coronavirus Disease 2019 (COVID-19)]]
** [[Diabetes & Hypoglycemia]]
** [[Hemophilia]]
** [[HIV]]
** [[Hypertension & Congestive Heart Failure]]
** [[Immune Response]]
** [[Inflammation & Rheumatoid Arthritis]]
** [[Influenza]]
** [[Metabolic Disorders]]
** [[Neurodevelopmental Disorders]]
** [[Oncogenes]]
** [[Pharmaceutical Drugs]]
** [[Pharmaceutical Drug Targets]]
** [[Toxins]]
** [[Viral Infections]]
 
* Enzymes
** [[Hydrolases]]
** [[Isomerases]]
** [[Ligases]]
** [[Lyases]]
** [[Oxidoreductases]]
** [[Transferases]]
 
* Gene Expression & Replication
** [[DNA Replication]]
** [[Nucleic Acids]]
** [[Regulation of Gene Expression]]
** [[RNAi]]
** [[Transcription & RNA Processing]]
** [[Translation]]  


==ENZYMES==
* Large Macromolecular Assemblies
* Enzymatic Catalysis
** [[Group:MUZIC|Muscle sarcomere: Z-Disk]]
** [[Aconitase]]
** [[Ribosome]]
** Serine Hydrolases
** [[Ribosoma 70S]]
*** [[Acetylcholinesterase]] (AChE)
** [[Nucleosomes]]
**** [[Acetylcholine]]
** [[Nucleosome structure]]
**** [[Flexibility_of_aromatic_residues_in_acetylcholinesterase]]
**** [[AChE inhibitors and substrates]]
***** [[1eve]] AChE-Aricept complex
***** [[AChE_bivalent_inhibitors]]
**[[Triose_Phosphate_Isomerase]]
* Enzyme Kinetics, Inhibition, and Control
* Biochemical Signaling


==METABOLISM==
* Metabolism
* Introduction to Metabolism
** [[Amino Acid Synthesis & Metabolism]]
* Glucose Catabolism
** [[Carbohydrate Metabolism]]
* Glycogen Metabolism and Gluconeogenesis
** [[Photosynthesis]]
* Citric Acid Cycle
** [[Regulation of Gene Expression]]
* Electron Transport and Oxidative Phosphorylation
** [[Drug Metabolism by CYP450 Enzymes]]
* Photosynthesis
* Lipid Metabolism
* Amino Acid Metabolism
* Mammalian Fuel Metabolism: Integration and Regulation


== GENE EXPRESSION AND REPLICATION ==
* Miscellaneous
* Nucleotide Metabolism
** [[Colored & Bioluminescent Proteins]]
* Nucleic Acid Structure
** [[Coronavirus Disease 2019 (COVID-19)]]
* DNA Replication, Repair, and Recombination
** [[Enzimas: complejo enzima-sustrato]]
* Transcription and RNA Processing
** [[3D Molecular Models]]
* Protein Synthesis
* Regulation of Gene Expression


== METHODS OF STRUCTURE DETERMINATION ==
* Signaling & Transport
* X-ray
** [[Hormone]]
**[[X-ray_crystallography]]
** [[Membrane Channels & Pumps]]
***[[Asymmetric_Unit]]
***[[Biological_Unit]]
**SAXS
* NMR
* Electron Microscopy


== METHODS OF STRUCTURE & SEQUENCE ANALYSIS  ==
}}
* STRUCTURAL ANALYSIS & VISUALIZATION
__NOTOC__
**[[User:Wayne Decatur/Teaching Proteopedia]]
__NOEDITSECTION__
**[[User:Wayne Decatur/Homology Modeling]]
**[[User:Wayne Decatur/Generate Unfolded Structures]]
*SEQUENCE ANALYSIS
**[[User:Wayne Decatur/Sequence analysis tools]]

Latest revision as of 01:18, 31 December 2021

This guide to the contents of Proteopedia is maintained manually (not automatically generated) and so is inevitably incomplete. Please be sure to use the search slots at the left if you don't find what you are looking for below. Updated: 31-12-2021 (DD-MM-YYYY)

When you create a new page in Proteopedia, please add it to corresponding topic subpages.

Topics Pages Organized by Category


Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Jaime Prilusky, Joel L. Sussman, Judy Voet, Eran Hodis, Tilman Schirmer, Eric Martz, Yuan-Ping Pang, Wayne Decatur, Helen Ginn, David Canner, Alexander Berchansky, Angel Herraez, Karl Oberholser, Tomas Klumpler, Arthur Cox, Karen L. Lee, Israel Hanukoglu, Alejandro Porto
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