PDB file name : pdb1iub.ent

Chains and HETATMs selected: 
  ATOM        A

The following atoms are removed from PDB data on concern that they may have 
abnormally large fluctuations, because they interact with few atoms.
  ATOM    640  CG  LYS A  83      44.458   8.973  51.791  1.00 29.03           C  
  ATOM    641  CD  LYS A  83      44.965   8.040  52.875  1.00 38.99           C  
  ATOM    642  CE  LYS A  83      43.974   8.001  54.051  1.00 38.65           C  
  ATOM    643  NZ  LYS A  83      44.561   7.219  55.156  1.00 48.07           N  
  ATOM   2255  CG  LYS A 296      14.262  40.761  58.362  1.00 84.94           C  
  ATOM   2256  CD  LYS A 296      13.543  42.039  58.823  1.00 86.98           C  
  ATOM   2257  CE  LYS A 296      14.085  42.573  60.153  1.00 87.27           C  
  ATOM   2258  NZ  LYS A 296      13.908  41.616  61.285  1.00 86.95           N  

= Normal mode analysis calculation =

No. of modes used in the calculation : All modes.

Parameters of potential energies:
  1-4 and 1-5 non-bonded interactions: E(d) = A*exp(-d(PDB)**2/B**2)(d-d(PDB))**2.
  Loop-closing potential:              E(d) = A*(d-d(PDB))**2.
    for a disulfide bond and one of the bonds in the DNA and RNA sugar ring.
  where d and d(PDB) are distances between atoms in calculation and in PDB data, 
  respectively.

  Interaction type   A       B      Cutoff distance (A)
    1-4             1.00    5.00      100.00
    1-5             1.00    5.00      100.00
    Loop-closing  100.00

Temperature adjustment by magnitude of fluctuation:
  Set to mean displacements of atoms       0.500 A

Animation
  No. of frames: 11
  Mean displacements (A):    0.50

Displacement vector
  Mean length of vectors (A):    3.00
