Talk:Alpha helix

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Contents

List of figures

--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

Proteopedia Page Contributors and Editors (what is this?)

Karsten Theis

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