User talk:Karsten Theis/Insulin
C:\Users\ktheis\AppData\Local\Programs\Python\Python38\python.exe C:/Users/ktheis/PycharmProjects/JmolSel/mine_proteopedia.py
User:Karsten_Theis/InsulinUser:Karsten_Theis/Insulin
Initial viewInitial view
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?6ad5dfaced99e610859115fe197f5ef6 (always reloads)
Ribbon view of a monomer of mature insulin (chain A in green, chain B in orange, disulfide bridges in yellow). PDB ID 4ins.
Mature insulinMature insulin
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/1.spt
coords: same as Initial view (always reloads)
Ribbon view of a monomer of mature insulin (chain A in green, chain B in orange, disulfide bridges in yellow). PDB ID 4ins.
surface of insulinsurface of insulin
script: https://proteopedia.org/wiki/scripts/82/821037/Spacefilling/2.spt
coords: same as Initial view (always reloads)
Spacefilling view of single insulin molecule (main chain carbon atoms in white, side chains colored by element, charge or hydrophobic/hydrophilic). PDB ID 4ins.
ProinsulinProinsulin
script: https://proteopedia.org/wiki/scripts/82/821037/Proinsulin/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?c6d5c9b879b8d9ac872a6b8043ac4284
NMR structure of proinsulin, 20 models. Chains B, C, and A are show as green, gray and orange alpha-carbon trace. Disulfide links are sketched in yellow.
T or RT or R
script: https://proteopedia.org/wiki/scripts/82/821037/Rvst/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?38e438064650097d9c9f87c964200009
Comparison of two conformations of insulin, R and T (PDB ID 4trz). The alpha-carbon trace of one conformation is shown in blue (chains A and B), the other in gold (chains C and D). The largest differences are at the N-terminus of the B (or D) chain.
animationanimation
script: https://proteopedia.org/wiki/scripts/82/821037/Rvst/2.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?c9eb17b4c76bc6071648e20be1513872
Animation (takes a while to load) showing a hypothetical transitions between insulin in the relaxed R-state and the tight T-state. Two insulin molecules (both with chain A and B linked by disulfides) combine to form a dimer via the beta sheet interaction in the center with residues 24-26 (shown as wireframe) forming a hydrophobic core.
T6 hexamer (e.g. structure 4INS)T6 hexamer (e.g. structure 4INS)
script: https://proteopedia.org/wiki/scripts/82/821037/T6/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?id=4INS
Hexamer of insulin with all 6 insulins in the T-conformation (PDB ID 4INS). The two zinc atoms are shown as gray spheres, coordinated by three histidine side chains each (yellow and green wireframe).
insulin binding sitesinsulin binding sites
script: https://proteopedia.org/wiki/scripts/82/821037/Spacefilling/5.spt
coords: same as Initial view
Spacefilling view of insulin highlighting selected contacts made when insulin binds to site 1 (red and orange) and site 2 (blue and sky blue) of the insulin receptor. Contacts mapped on insulin in a closed conformation. The darker colors refer to higher contact occupancy[1].
contact residuescontact residues
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/2.spt
coords: same as Initial view
Ribbon view of a monomer of mature insulin (chain A in green, chain B in orange, disulfide bridges in yellow), with contacts to receptor site 1 highlighted in red and orange and to site 2 in blue and skyblue. PDB ID 4ins.
Binding sites 1 and 1\Binding sites 1 and 1\
script: https://proteopedia.org/wiki/scripts/82/821037/Receptor_bound/1.spt
coords: https://proteopedia.org/cgi-bin/getfrozenstructure?065018542545372618282fe2d6d5b804
Detail of insulin bound in site 1 of the insulin receptor. Insulin is shown as cartoon in green and orange. Selected parts of the receptor contacting insulin are shown (sky blue: parts of N-terminal domain L1, dark red: C-terminal alpha helix). PDB ID 6ce9.
Jmol commands: buttons etcJmol commands: buttons etc
RadioGroupRadioGroup
- hydrophobiticity: background white; select sidechain; color magenta; select sidechain and (cys, met, ile, leu, val, phe, tyr, trp); color gray; set echo OFF; set echo ID bla 80% 0%; echo \"hydrophobic\"; color echo gray; frank off; set echo ID bla2 0% 0%; echo \"hydrophilic\"; color echo magenta
- charge: select sidechain; color white; select sidechain and (asp, glu); color red; select sidechain and (lys, arg, his); color blue; set echo OFF; set echo ID bla 80% 0%; echo \"positive\"; color echo blue; frank off; set echo ID bla2 0% 0%; echo \"negative\"; color echo red
- element: select sidechain; color cpk;set echo OFF; set echo ID bla 80% 0%; echo \"oxygen\"; color echo red; frank off; set echo ID bla2 0% 0%; echo \"nitrogen\"; color echo blue; set echo ID bla4 25% 0%; echo \"sulfur\"; color echo gold; set echo ID bla3 55% 0%; echo \"carbon\"; color echo gray;
RadioGroupRadioGroup
- mature insulin: select (29-64); backbone off;
- proinsulin: select (29-64); backbone on;
disordereddisordered
jmolLink('anim mode loop; anim on...
SummarySummary
Total of green links: 10 and total of Jmol buttons etc: 3
coordinates usedcoordinates used
- /cgi-bin/getfrozenstructure?6ad5dfaced99e610859115fe197f5ef6
- /cgi-bin/getfrozenstructure?c6d5c9b879b8d9ac872a6b8043ac4284
- /cgi-bin/getfrozenstructure?38e438064650097d9c9f87c964200009
- /cgi-bin/getfrozenstructure?c9eb17b4c76bc6071648e20be1513872
- /cgi-bin/getfrozenstructure?id=4INS
- /cgi-bin/getfrozenstructure?065018542545372618282fe2d6d5b804
Process finished with exit code 0