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| | ''This in an index page pointing to several resources on these topics.'' | | ''This in an index page pointing to several resources on these topics.'' |
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| - | <table><tr><td> | + | <table cellpadding=5><tr><td> |
| | <!--[[Image:Ramachandran plot general 100K.jpg|right|200px]]--> | | <!--[[Image:Ramachandran plot general 100K.jpg|right|200px]]--> |
| | [[Image:Dihedral angles-AH.png|right|200px]] | | [[Image:Dihedral angles-AH.png|right|200px]] |
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| | * '''Definition of phi and psi''': | | * '''Definition of phi and psi''': |
| - | ** Simplified 3D models in JSmol that can be rotated with your mouse, and set to various dihedral angles: [http://biomodel.uah.es/model5/prot/diedros_en.htm in English] and [http://biomodel.uah.es/model5/prot/diedros.htm Spanish].
| + | :* Simplified 3D models in JSmol that can be rotated with your mouse, and set to various dihedral angles: [http://biomodel.uah.es/model5/prot/diedros_en.htm in English] and [http://biomodel.uah.es/model5/prot/diedros.htm Spanish]. |
| - | </td></tr><tr><td> | + | </td></tr><tr><td bgcolor="#f0f0f0"> |
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| | [[Image:Phi-rotation-EM.gif|right]] | | [[Image:Phi-rotation-EM.gif|right]] |
| - | ** Animated explanation identifying the 4 atoms for phi in a polypeptide, and rotating it clockwise (positive angles) and counter-clockwise (negative angles):
| + | :* Animated explanation identifying the 4 atoms for phi in a polypeptide, and rotating it clockwise (positive angles) and counter-clockwise (negative angles): |
| - | *** As a slideshow [http://tinyurl.com/RamachandranPrinciple in English] and [http://tinyurl.com/PrincipioRamachandran in Spanish].
| + | ::* As a slideshow [http://tinyurl.com/RamachandranPrinciple in English] and [http://tinyurl.com/PrincipioRamachandran in Spanish]. |
| - | *** As a YouTube video [https://tinyurl.com/RamachandranPrincipleYoutube in English]. (Dihedral at 1:52 - 3:10)
| + | ::* As a YouTube video [https://tinyurl.com/RamachandranPrincipleYoutube in English]. (Dihedral at 1:52 - 3:10) |
| | </td></tr><tr><td> | | </td></tr><tr><td> |
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- Definition of phi and psi:
- Simplified 3D models in JSmol that can be rotated with your mouse, and set to various dihedral angles: in English and Spanish.
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- Animated explanation identifying the 4 atoms for phi in a polypeptide, and rotating it clockwise (positive angles) and counter-clockwise (negative angles):
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- Dihedral angles in proteins: an interactive display of phi and psi dihedral angles using a model of a tripeptide.
- A regular page in Proteopedia.
- Simple presentation, featuring a 3D model with planes, clashes and animations.
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- Phi and Psi Angles: a more detailed, guided explanation of determination and display of angles in the 3D model.
- A regular page in Proteopedia.
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- The Ramachandran Plot
- A regular page in Proteopedia. Featured in an article in Biochemistry and Molecular Biology Education, 2010.
- Extensive description with instructions on how to display the Ramachandran plot for any protein structure.
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- Ramachandran Plot Inspection
- A special "Tutorial" page in Proteopedia (by Angel Herráez) and an equivalent page in Spanish
- Interactive Ramachandran plot with many controls and details, connecting the Ramachandran plot with the display on the 3D model. Includes planes, clashes and animations.
- You can display phi and psi for any pair of amino acids in any protein structure.
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- Another animation of phi and psi angles connected to a Ramachandran plot (by David Jollie)
- Ramachandran outlier showcases a special case where a residue is not conforming to the favored values in the Ramachandran plot.
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