Karsten Theis: New page: C:\Users\ktheis\AppData\Local\Programs\Python\Python38\python.exe C:/Users/ktheis/PycharmProjects/JmolSel/mine_proteopedia.py ==User:Karsten_Theis/Insulin== ===Initial view=== script: htt...

Karsten Theis — Sat, 20 Jul 2019 01:09:24 GMT

New page: C:\Users\ktheis\AppData\Local\Programs\Python\Python38\python.exe C:/Users/ktheis/PycharmProjects/JmolSel/mine_proteopedia.py ==User:Karsten_Theis/Insulin== ===Initial view=== script: htt...

New page

C:\Users\ktheis\AppData\Local\Programs\Python\Python38\python.exe C:/Users/ktheis/PycharmProjects/JmolSel/mine_proteopedia.py
==User:Karsten_Theis/Insulin==

===Initial view===
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/1.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?6ad5dfaced99e610859115fe197f5ef6 (always reloads)
<blockquote>Ribbon view of a monomer of mature insulin (chain A in green, chain B in orange, disulfide bridges in yellow). PDB ID 4ins.</blockquote>

===Mature insulin===
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/1.spt

coords: same as Initial view (always reloads)
<blockquote>Ribbon view of a monomer of mature insulin (chain A in green, chain B in orange, disulfide bridges in yellow). PDB ID 4ins.</blockquote>

===surface of insulin===
script: https://proteopedia.org/wiki/scripts/82/821037/Spacefilling/2.spt

coords: same as Initial view (always reloads)
<blockquote>Spacefilling view of single insulin molecule (main chain carbon atoms in white, side chains colored by element, charge or hydrophobic/hydrophilic). PDB ID 4ins.</blockquote>

===Proinsulin===
script: https://proteopedia.org/wiki/scripts/82/821037/Proinsulin/1.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?c6d5c9b879b8d9ac872a6b8043ac4284
<blockquote>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.</blockquote>

===T or R===
script: https://proteopedia.org/wiki/scripts/82/821037/Rvst/1.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?38e438064650097d9c9f87c964200009
<blockquote>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.</blockquote>

===animation===
script: https://proteopedia.org/wiki/scripts/82/821037/Rvst/2.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?c9eb17b4c76bc6071648e20be1513872
<blockquote>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.</blockquote>

===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
<blockquote>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).</blockquote>

===insulin binding sites===
script: https://proteopedia.org/wiki/scripts/82/821037/Spacefilling/5.spt

coords: same as Initial view
<blockquote>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<ref name="ecto"/>.</blockquote>

===contact residues===
script: https://proteopedia.org/wiki/scripts/82/821037/Ribbon/2.spt

coords: same as Initial view
<blockquote>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.</blockquote>

===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
<blockquote>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.</blockquote>
===Jmol commands: buttons etc===
====RadioGroup====
* '''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;
====RadioGroup====
* '''mature insulin''': select (29-64); backbone off;
* '''proinsulin''': select (29-64); backbone on;
====disordered====
jmolLink('anim mode loop; anim on...
===Summary===
Total of green links: 10 and total of Jmol buttons etc: 3
====coordinates 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

User talk:Karsten Theis/Insulin - Revision history

Karsten Theis: New page: C:\Users\ktheis\AppData\Local\Programs\Python\Python38\python.exe C:/Users/ktheis/PycharmProjects/JmolSel/mine_proteopedia.py ==User:Karsten_Theis/Insulin== ===Initial view=== script: htt...