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Talk:Green Fluorescent Protein
From Proteopedia
List of figures: Green_Fluorescent_Protein
Initial view
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1ema_gfp_default/2.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?c633a54d03b8b50318876fc5555cdc4c
default scene
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1ema_gfp_default/2.spt
coords: same as Initial view
secondary structure
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1ema_gfp_barrel/2.spt
coords: same as Initial view
\"stripes\"
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Water_stripes/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?a144edeb1a0e1f7ef8ec555f19d99243
α-helix
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Central_helix/1.spt
coords: same as \"stripes\"
perpendicular
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Perpendicular/1.spt
coords: same as \"stripes\"
contacts
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Spacefill/1.spt
coords: same as \"stripes\"
chromophore
script: https://proteopedia.org/wiki/scripts/10/100139/Chromophore/2.spt Available on this page: Green_Fluorescent_Protein
coords: same as \"stripes\"
top view
script: https://proteopedia.org/wiki/scripts/10/100139/Green_fluorescent_protein/1.spt Available on this page: Green_Fluorescent_Protein
coords: same as Initial view
4-(p-hydroxybenzylidene)-imidazolidin-5-one
script: https://proteopedia.org/wiki/scripts/10/100139/Chromophore_structure/3.spt Available on this page: Green_Fluorescent_Protein
coords: same as \"stripes\"
Chromophore structure post-translational modifications
larger conjugated system
script: https://proteopedia.org/wiki/scripts/10/100139/Chromophore/3.spt Available on this page: Green_Fluorescent_Protein
coords: same as \"stripes\"
four water molecules
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Water_molecules/1.spt
coords: same as \"stripes\"
side chains
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Gln69_glu222/1.spt
coords: same as \"stripes\"
polar interactions
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Polar_interactions/2.spt
coords: same as \"stripes\"
edge-face interaction
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Edge_face_interaction/1.spt
coords: same as \"stripes\"
base
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Arg96/1.spt
coords: same as \"stripes\"
truncated the ends
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Truncated_ends/3.spt
coords: same as \"stripes\"
see without truncated ends
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1ema_gfp_barrel/2.spt
coords: same as Initial view
amino terminus
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/Amino_terminus/2.spt
coords: same as \"stripes\"
dimer
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1gfl/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?cef2bb867c0302e8598fb8875c984cf4
multimers
script: https://proteopedia.org/wiki/scripts/Green_Fluorescent_Protein/1w7s/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?22ea3e9e5eef2bdbdb16d8b8ebd93110
Jmol commands: buttons etc
make bonds
select (64.C or 66.N1 or 66.C3 or 68.N); connect 1.1 1.6; select 64, 66, 68; wireframe 0.2;
Fancy, high-quality cartoons on/off
if (~fancyoff); set ribbonborder off; set antialiasdisplay off;~fancyoff=false; else; set ribbonborder on; set antialiasdisplay on; select protein; cartoon on; ~fancyoff=true; endif;\n
⚞Thr 65⚟
select (*.C1, *.CA1, *.N1, *.CB1, *.CG1, *.OG1) and 66; selectionHalos ON; delay 1.5;selectionHalos OFF;
⚞Tyr 66⚟
select (*.C2, *.O2, *.CA2, *.N2, *.CB2, *.CG2, *.CD1, *.CD2, *.CE1, *.CE2, *.CZ, *.OH) and 66; selectionHalos ON; delay 1.5;selectionHalos OFF;
⚞Gly 67⚟
select (*.O3,*.C3,*.CA3,*.N3) and 66; selectionHalos ON; delay 1.5;selectionHalos OFF;
Fancy, high-quality cartoons on/off
if (~fancyoff); set ribbonborder off; set antialiasdisplay off;~fancyoff=false; else; set ribbonborder on; set antialiasdisplay on; select protein; cartoon on; ~fancyoff=true; endif;\n
Fancy, high-quality cartoons on/off
if (~fancyoff); set ribbonborder off; set antialiasdisplay off;~fancyoff=false; else; set ribbonborder on; set antialiasdisplay on; select protein; cartoon on; ~fancyoff=true; endif;\n
Summary
Total of green links: 21
Total of Jmol buttons etc: 7
coordinates used
- 1EMA: https://proteopedia.org/cgi-bin/getfrozenstructure?c633a54d03b8b50318876fc5555cdc4c
- 1EMA: https://proteopedia.org/cgi-bin/getfrozenstructure?a144edeb1a0e1f7ef8ec555f19d99243
- 1GFL: https://proteopedia.org/cgi-bin/getfrozenstructure?cef2bb867c0302e8598fb8875c984cf4
- 1W7S: https://proteopedia.org/cgi-bin/getfrozenstructure?22ea3e9e5eef2bdbdb16d8b8ebd93110
3D scenes
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