About Macromolecular Structure: Difference between revisions
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For pages about specific molecules or families of molecules, see <big>'''[[Proteopedia:Topic Pages]]'''</big>. | For pages about specific molecules or families of molecules, see <big>'''[[Proteopedia:Topic Pages]]'''</big>. | ||
See also '''[[Teaching Strategies Using Proteopedia]]''', and the lists of pages under '''[[Research Groups|Research Groups and Institutes]]''' and '''[[Teaching Scenes, Tutorials, and Educators' Pages]]'''. | |||
For pages about Proteopedia, its contents, policies, implementation, and credits, see '''[[Proteopedia:About]]'''. | |||
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Below is a list of pages about macromolecular structure topics. This list excludes pages about specific molecules or families of molecules, and pages in the lists linked in the box at right. | |||
[[Image:New yellow1.gif]] means the article first became available in Proteopedia "recently", or that substantial new content was added "recently". See also [[What's New?]]. | |||
==A-F== | |||
*[[3D Molecular Models]] | |||
*[[Activity]] | |||
*[[AlphaFold/Index]] [[Image:New yellow1.gif]] has a list of pages in Proteopedia about AlphaFold, including: | |||
**[[AlphaFold]] [[Image:New yellow1.gif]] | |||
**[[How to predict structures with AlphaFold|AlphaFold, How To Predict Structures With]] [[Image:New yellow1.gif]] | |||
**[[AlphaFold2 examples from CASP 14]] [[Image:New yellow1.gif]] | |||
*[[Alternate locations]] | |||
*[[Structural alignment tools|Alignment, structural]] | |||
*[[Amino Acids]] | |||
*[[Amino acid composition]] | |||
*[[Anisotropic refinement]] | |||
*[[Asymmetric Unit]] | |||
*[[Atomic coordinate file|Atomic Coordinate File]] | |||
*[[Backbone representations]] | |||
*[[Believe It or Not]] | |||
*[[Biological process]] | |||
*[[Biological Unit]] | |||
*[[Buried charges detection]] [[Image:New yellow1.gif]] | |||
*[[CASP]] Biannual '''C'''ritical '''A'''ssessment of protein '''S'''tructure '''P'''rediction | |||
*[[Cation-pi interactions]] | |||
*[[Calculating GDT_TS]], the global distance test total score, used in [[CASP]] | |||
*[[Cellular component]] | |||
*[[CC*]], an alternative to the R value [[Image:New yellow1.gif]] | |||
*[[Chain]] | |||
*[[Clashes]] [[Image:New yellow1.gif]] | |||
*[[Classes of globular proteins]] | |||
*[[Cryo-EM|Cryo-electron microscopy]] [[Image:New yellow1.gif]] | |||
*[[Cystine]] | |||
*[[Conservation, Evolutionary]] | |||
*[[CPK|Corey-Pauling-Koltun]] | |||
*[[CPK]] | |||
*[[Crystal contacts]] | |||
*[[Introduction to Evolutionary Conservation|Conservation, Evolutionary, Introduction to]] | |||
*[[Disulfide bond]] | |||
*[[Domain|Domain, protein]] | |||
*[[DRuMS]] | |||
*[[Electron cryomicroscopy]] [[Image:New yellow1.gif]] | |||
*[[Electron density maps]] has [[Image:New yellow1.gif]] illustrations. | |||
*[[Electrostatic potential maps]] [[Image:New yellow1.gif]] | |||
*[[Empirical models]] [[Image:New yellow1.gif]] | |||
*[[Ester protein crosslinks]] [[Image:New yellow1.gif]] | |||
*[[Extremophiles]] | |||
*[[Favorites]] | |||
*[[Free R]] | |||
*[[Function]] | |||
*[[Functional annotation]] | |||
==G-M== | |||
*[[Gene]] | |||
*[[Forms of DNA|Helices in DNA]] compares A-, B- and Z- | |||
*[[Helices in Proteins]] compares alpha, pi and 3-10 | |||
*[[Hetero atoms]] | |||
*[[Highest impact structures]] | |||
*[[Histidine-tyrosine protein crosslinks]] [[Image:New yellow1.gif]] | |||
*[[History of Macromolecular Visualization]] | |||
*[[Practical Guide to Homology Modeling|Homology Modeling, Practical Guide]] | |||
*[[Homology modeling]] | |||
*[[Homology modeling servers]] | |||
*[[How To Find A Structure]] [[Image:New yellow1.gif]] | |||
*[[Hydrogen bonds]] | |||
*[[Hydrogen in macromolecular models]] | |||
*[[Improving published models]] | |||
*[[Interface analysis servers]] | |||
*[[Intrinsically Disordered Protein]] | |||
*[[Introduction to molecular visualization]] [[Image:New yellow1.gif]] | |||
*[[Isopeptide bond]] with [[Image:New yellow1.gif]] illustrations. A type of [[Protein crosslinks|protein crosslink]]. | |||
*[[Ligand]] | |||
*[[Lysine-cysteine NOS bonds]], a type of [[Protein crosslinks|protein crosslink]]. [[Image:New yellow1.gif]] | |||
*[[Maximum Occurrence]] | |||
*[[Jmol/Visualizing membrane position|Membrane position, visualizing]] [[Image:New yellow1.gif]] | |||
*[[Membrane proteins]] | |||
*[[Missing residues and incomplete sidechains]] [[Image:New_yellow1.gif]] | |||
*[[Molecular function]] | |||
*[[Molecular modeling and visualization software]] | |||
*[[Introduction to molecular visualization|Molecular visualization, introduction to]] | |||
*[[Morphs]] of conformational changes of macromolecules | |||
==N-R== | |||
*[[Nitrotyrosine]] | |||
*[[NMR Ensembles of Models]] | |||
*[[Non-covalent interactions]] | |||
*[[Nobel Prizes for 3D Molecular Structure]] | |||
*[[Non-Standard Residues]] (see also [[Standard Residues]]) | |||
*[[Peptide]] | |||
*[[Peptide bond]] | |||
*[[Personal favorites]] | |||
*[[PDB file format]] | |||
*[[PDB identification code]] | |||
*[[Post-translational modification]] | |||
*[[Practical Guide to Homology Modeling]] | |||
*[[Protein]] | |||
*[[Protein Data Bank]] | |||
*[[Protein crosslinks]] [[Image:New yellow1.gif]] | |||
*[[Protein primary, secondary, tertiary and quaternary structure]] [[Image:New yellow1.gif]] | |||
*[[Protein primary, secondary, tertiary and quaternary structure (Spanish)]] [[Image:New yellow1.gif]] | |||
*[[Pseudoenzyme]] | |||
*[[Pyrrolysine]], sometimes called the 22nd amino acid | |||
*[[Quality assessment for molecular models]] | |||
*[[R value]] | |||
*[[Ramachandran Plots]] | |||
*[[Renumbering PDB files]] | |||
*[[Resolution]] | |||
*[[Retractions and Fraud]] | |||
*[[RMSD]] [[Image:New_yellow1.gif]] | |||
==S-Z== | |||
*[[Salt bridges]] | |||
*[[Sculpting protein conformations]] | |||
*[[Selenocysteine]], the 21st amino acid | |||
*[[Selenomethionine]] | |||
*[[Unusual sequence numbering|Sequence numbering, unusual]] | |||
*[[Single protein]] | |||
*[[Sites|Sites, Functional]] | |||
*[[Molecular modeling and visualization software|Software for molecular modeling and visualization]] | |||
*[[Standard Residues]] (see also [[Non-Standard Residues]]) | |||
*[[Structural alignment tools]] | |||
*[[Structural annotation]] | |||
*[[User:Eric Martz/Introduction to Structural Bioinformatics|Structural Bioinformatics, Introduction to]] | |||
*[[Structural bioinformatics servers]] | |||
*[[Structural genomics]] | |||
*[[Structures Gallery Generator]] | |||
*[[Structure superposition tools]] | |||
*[[Suggestions for new articles]] | |||
*[[Teaching Strategies Using Proteopedia]] | |||
*[[Temperature value]] | |||
*[[Theoretical models]] has [[Image:New yellow1.gif]] coverage of the 2020 AlphaFold breakthrough. | |||
*[[Thioester protein crosslinks]] [[Image:New yellow1.gif]] | |||
*[[Thioether protein crosslinks]] [[Image:New yellow1.gif]] | |||
*[[Unknown amino acids and nucleic residues]] [[Image:New yellow1.gif]] | |||
*[[Water in macromolecular models]] | |||
*[[X-ray crystallography]] | |||
