Dihedral/Index: Difference between revisions
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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]. | ||
** 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 YouTube video [https://tinyurl.com/RamachandranPrincipleYoutube in English]. | |||
* '''[[Dihedral/Dihedral_angles_in_proteins|Dihedral angles in proteins]]''': an interactive display of phi and psi dihedral angles using a model of a tripeptide. | * '''[[Dihedral/Dihedral_angles_in_proteins|Dihedral angles in proteins]]''': an interactive display of phi and psi dihedral angles using a model of a tripeptide. | ||
Revision as of 21:04, 14 July 2018
Dihedral angles in proteins and the Ramachandran plotDihedral angles in proteins and the Ramachandran plot
This in an index page pointing to several resources on these topics.
- 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.
- 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 in English and in Spanish.
- As a YouTube video in English.
- 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.
- Phi and Psi Angles: a more detailed, guided explanation of determination and display of angles in the 3D model.
- A regular page in Proteopedia.
- The Ramachandran Plot
- A regular page in Proteopedia. Featured in an article in Biochemistry and Molecular Biology Education, 2010.
- Extensive description.
- 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.
- The Ramachandran Principle, Phi (φ) and Psi (ψ) Angles in Proteins
- A special "Tutorial" page in Proteopedia (by Eric Martz)
- That tutorial repurposed as a slideshow with animated images (a Google Docs presentation):
- The slideshow is also available as a YouTube Video (in English), including explanation of dihedral angles with animated illustration.
- A quiz to self-assess understanding of the tutorial or the slideshow:
- 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.