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Dihedral/Index

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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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<!--[[Image:Ramachandran plot general 100K.jpg|right|200px]]-->
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[[Image:Dihedral angles-AH.png|right|200px]]
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* '''Definition of phi and psi''':
* '''Definition of phi and psi''':
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** 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].
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:* 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].
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[[Image:Phi-rotation-EM.gif|right]]
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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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:* 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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*** As a slideshow [http://tinyurl.com/RamachandranPrinciple in English] and [http://tinyurl.com/PrincipioRamachandran in Spanish].
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::* As a slideshow [http://tinyurl.com/RamachandranPrinciple in English] and [http://tinyurl.com/PrincipioRamachandran in Spanish].
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*** As a YouTube video [https://tinyurl.com/RamachandranPrincipleYoutube in English]. (Dihedral at 1:52 - 3:10)
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::* As a YouTube video [https://tinyurl.com/RamachandranPrincipleYoutube in English]. (Dihedral at 1:52 - 3:10)
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Revision as of 21:43, 14 July 2018

Dihedral 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):
  • 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 with instructions on how to display the Ramachandran plot for any protein structure.
  • 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.
  • 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.

Proteopedia Page Contributors and Editors (what is this?)

Eric Martz, Angel Herraez

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