Phi and Psi Angles: Difference between revisions

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Karl Oberholser, Joel L. Sussman, Angel Herraez, Lynmarie K Thompson, Eric Martz

Revision as of 22:51, 18 June 2012 view source Karl Oberholser (talk \| contribs) 1,665 edits No edit summary ← Older edit		Revision as of 22:55, 18 June 2012 view source Karl Oberholser (talk \| contribs) 1,665 edits No edit summary Newer edit →
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	The <scene name='Phi_and_Psi_Angles/First_view_phi/1'>four atoms</scene> making up φ are a carbonyl carbon, the connecting α-carbon, an amide nitrogen and the next carbonyl carbon (all marked with green halos). After toggling off spin and rotating the structure so that you can clearly see that you are not clicking on a transparent atom, determine and display the numerical value of φ by double clicking on a carbonyl carbon of the angle, single clicking on the next two atoms and then double clicking on the second carbonly. (If the structure rotates in the course of clicking on the atoms or if you encounter some other problem, re-click on the green link 'four atoms' and restart clicking on the atoms.) The <scene name='Phi_and_Psi_Angles/First__view_psi/1'>four atoms </scene>which constitute a ψ are an amide nitrogen, a carbonyl carbon, an α-carbon and a second nitrogen. After rotating the structure so that the four atoms can be clearly seen, measure and display the numerical value of ψ using the technique described above. <scene name='Phi_and_Psi_Angles/First_draw_rama/1'>Confirm</scene> that you correctly determined direction of rotation and the values of φ and ψ.		The <scene name='Phi_and_Psi_Angles/First_view_phi/1'>four atoms</scene> making up φ are a carbonyl carbon, the connecting α-carbon, an amide nitrogen and the next carbonyl carbon (all marked with green halos). After toggling off spin and rotating the structure so that you can clearly see that you are not clicking on a transparent atom, determine and display the numerical value of φ by double clicking on a carbonyl carbon of the angle, single clicking on the next two atoms and then double clicking on the second carbonly. (If the structure rotates in the course of clicking on the atoms or if you encounter some other problem, re-click on the green link 'four atoms' and restart clicking on the atoms.) The <scene name='Phi_and_Psi_Angles/First__view_psi/1'>four atoms </scene>which constitute a ψ are an amide nitrogen, a carbonyl carbon, an α-carbon and a second nitrogen. After rotating the structure so that the four atoms can be clearly seen, measure and display the numerical value of ψ using the technique described above. <scene name='Phi_and_Psi_Angles/First_draw_rama/1'>Confirm</scene> that you correctly determined direction of rotation and the values of φ and ψ.

	<scene name='~~Psi_and_Phi_Angles~~/First_view_planes2/1'>Draw the planes</scene> of two other peptide bonds, and then using the technique described above identify the atoms contained in and the numerical values of the φ and ψ angles of the α-carbon connected to these two planes. <scene name='~~Psi_and_Phi_Angles~~/Second_draw_rama/2'>Confirm</scene> that you obtained the correct values.		<scene name='Phi_and_Psi_Angles/First_view_planes2/1'>Draw the planes</scene> of two other peptide bonds, and then using the technique described above identify the atoms contained in and the numerical values of the φ and ψ angles of the α-carbon connected to these two planes. <scene name='Phi_and_Psi_Angles/Second_draw_rama/1'>Confirm</scene> that you obtained the correct values.