PDB file name : pdb1oo5.ent

Chains and HETATMs selected: 
  ATOM        A
  ATOM        B

The following atoms are removed from PDB data on concern that they may have 
abnormally large fluctuations, because they interact with few atoms.
  ATOM    920  CG  LYS A 119     -11.450  -5.920  56.041  1.00 62.33           C  
  ATOM    921  CD  LYS A 119     -12.920  -6.051  55.609  1.00 63.61           C  
  ATOM    922  CE  LYS A 119     -13.370  -7.519  55.554  1.00 64.00           C  
  ATOM    923  NZ  LYS A 119     -12.541  -8.354  54.614  1.00 64.21           N  
  ATOM   2606  CG  LYS B 119      23.665 -42.419  61.767  1.00 49.34           C  
  ATOM   2607  CD  LYS B 119      23.538 -43.168  63.109  1.00 51.86           C  
  ATOM   2608  CE  LYS B 119      24.919 -43.533  63.694  1.00 53.09           C  
  ATOM   2609  NZ  LYS B 119      25.727 -42.330  64.096  1.00 54.16           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
