Extra commands (EXTRA)

• Introduction.
• The menu (EXTRA)
  • Protein folding analysis
    • Buried surface upon folding (FOLD01)
    • Buried surface upon folding (FOLD02)
    • Buried surface upon folding (FOLD03)
    • Contacts in or with a folding unit (FLDCON)
  • Angles between helices
    • The angle between a pair of helices (HELANG)
    • Angles between helices (HELANS)
    • Angles between helices in the database (HLANDB)
  • Other options
    • Randomizing coordinates a bit (RANDOM)
    • Totally randomizing coordinates (RANALL)
• The menu (OTHER)
  • Evaluate phi-psi distributions (CHIHST)
  • Evaluate phi-psi distributions (CHSHOW)
  • T50 plots
    • (KINFIT)
    • (KINFT2)
    • (KINFT3)
    • (KINFT4)
  • Analysing mutation stability
    • (LUIS01)
    • (LUIS02)
  • Determine accessibility statistics over database (ACCEXT)
  • Interatomic distance distributions (ATMATM)
  • Find similar triplets of residues (FIND3A)
  • Communicate with Alwyn Jones' O program
    • Read an O datablock (GETOBL)
    • Write an O datablock (MAKOBL)
  • Polymeric units.
    • Find polymeric units (MSDB01)
    • Paste each chain into one molecule (MSDB02)
    • List which molecules are "identical" (MSDB03)
  • Write REMARK records for PDB files
    • Write REMARK (REM290)
    • Write REMARK (REM375)
    • Write REMARK (REM500)
  • Using your own menu MYMENU
    • Option 1 in your own menu (MYOPT1)
    • Option 2 in your own menu (MYOPT2)