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Talk:Alpha helix
From Proteopedia
Contents |
List of figure
--Karsten Theis 01:16, 20 July 2019 (UTC)
Initial view
script: https://proteopedia.org/wiki/scripts/77/778341/Ballstick/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?abb78d56d3e07a4e0290a8783dcb8b58
alpha helix
script: https://proteopedia.org/wiki/scripts/77/778341/Ballstick/2.spt
coords: same as Initial view
right-handed helix
script: https://proteopedia.org/wiki/scripts/77/778341/Ribbon/1.spt
coords: same as Initial view
hydrogen bonds
script: https://proteopedia.org/wiki/scripts/77/778341/Hbonds/2.spt
coords: same as Initial view
3.6 residues per turn
script: https://proteopedia.org/wiki/scripts/77/778341/Wheel/1.spt
coords: same as Initial view
kink in a helix
script: https://proteopedia.org/wiki/scripts/77/778341/Proline/4.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?edfb4ce39cfe73bccb63eb7f6261b144
proline
script: https://proteopedia.org/wiki/scripts/77/778341/Proline/5.spt
coords: same as kink in a helix
the helix in crambin
script: https://proteopedia.org/wiki/scripts/77/778341/Proline_cap/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?9366550c976e80068b9dc9648aff81c5
C-terminal end
script: https://proteopedia.org/wiki/scripts/77/778341/Proline_cap_detail/2.spt
coords: same as the helix in crambin
Jmol commands: buttons etc
side chains
jmolLink(' select 6-14:A and sidechain; spacefill 20%; wireframe 0.3; delay 0.8; select 4-16:A and backbone or 4-16:A.CB; restrict selected;\n ...
ON
jmolLink(' stereo 5\n ...
OFF
jmolLink(' stereo off\n ...
carbonyl oxygen
jmolLink(' select 6-10:A.O; spacefill 30%; delay 0.4; spacefill 20%; delay 0.4; spacefill 30%; delay 0.4; spacefill 20%l delay 0.4;\n ...
amino group
jmolLink(' select 10-14:A.N; spacefill 30%; delay 0.4; spacefill 20%; delay 0.4; spacefill 30%; delay 0.4; spacefill 20%l delay 0.4;\n ...
increase the sphere radii
jmolLink(' select visible; spacefill 30%; delay 0.2; spacefill 40%; delay 0.2; spacefill 50%; delay 0.2; spacefill 60%; delay 0.2; spacefill 70%; delay 0.2; spacefill 80%; delay 0.2; spacefill 90%; delay 0.2; spacefill 100%; delay 1.8; spacefill 20%;\n ...
phi and psi
jmolLink(' select 9-12:A; draw rama; restrict selected; restrict backbone; hbonds off\n ...
show helical axes with rockets
jmolLink(' select 58-61:A; structure turn; select 50-58:A; rockets on; select 60-69:A; rockets on;\n ...
Summary
Total of green links: 9 and total of Jmol buttons etc: 8
coordinates used
- /cgi-bin/getfrozenstructure?abb78d56d3e07a4e0290a8783dcb8b58
- /cgi-bin/getfrozenstructure?edfb4ce39cfe73bccb63eb7f6261b144
- /cgi-bin/getfrozenstructure?9366550c976e80068b9dc9648aff81c5
