Recipe: 698 JPred structs

created by gramps

Profile

• Name: 698 JPred structs
• ID: 45887
• Shared with: Public
• Parent: None
• Children: None
• Created on: April 08, 2013 at 18:18 PM UTC
• Updated on: April 08, 2013 at 18:18 PM UTC
• Description:

  yields the structures predicted by the JPred site for the puzzle 698 AA string

Code

newprog = "698 JPred structs"
--
-- autogenerated code

local Struct_Types = {
["L"] = "Loop",
["E"] = "Sheet",
["H"] = "Helix",
["M"] = "Ligand" }

function Make_All_Loop()
  selection.SelectAll()
  structure.SetSecondaryStructureSelected("L")
  print("everything has been changed to a loop")
  selection.DeselectAll()
end -- function Make_All_Loop

function Restore_One_Stuct(s_start,s_end,s_type)
selection.SelectRange(s_start,s_end)
print(Struct_Types[s_type].."("..s_start..","..s_end..")")
structure.SetSecondaryStructureSelected(s_type)
selection.DeselectAll()
end -- function Restore_One_Stuct

function Restore_Structs()
  Restore_One_Stuct(1,11,"L")
  Restore_One_Stuct(12,15,"E")
  Restore_One_Stuct(16,21,"L")
  Restore_One_Stuct(22,37,"H")
  Restore_One_Stuct(38,54,"L")
  Restore_One_Stuct(55,64,"H")
  Restore_One_Stuct(65,68,"L")
  Restore_One_Stuct(69,71,"H")
  Restore_One_Stuct(72,76,"L")
  Restore_One_Stuct(77,84,"H")
  Restore_One_Stuct(85,92,"L")
  Restore_One_Stuct(93,112,"H")
  Restore_One_Stuct(113,134,"L")
end -- function Restore_Structs

print("begin ",newprog)

if structure.GetCount() == 	134	 then -- num segs match
  Make_All_Loop()
  Restore_Structs()
else -- print warning line
  print("segment number mismatch -- no action taken")
end

print("end ",newprog)

Comments

[gramps]

begin 698 JPred structs
everything has been changed to a loop
Loop(1,11)
Sheet(12,15)
Loop(16,21)
Helix(22,37)
Loop(38,54)
Helix(55,64)
Loop(65,68)
Helix(69,71)
Loop(72,76)
Helix(77,84)
Loop(85,92)
Helix(93,112)
Loop(113,134)
end 698 JPred structs

JPred link (good for about 48 hours):
http://www.compbio.dundee.ac.uk/www-jpred/results/jp_wbEfM6T/jp_wbEfM6T.html

puzzle 698 page:
http://fold.it/portal/node/994905

NOTE: these structs are just a guess, have a look at your start and edit your structs accordingly