PDB file name : pdb2k9r.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    330  CG  ARG B  22       0.309 -16.886  -1.237  1.00  0.00           C  
  ATOM    331  CD  ARG B  22       0.960 -18.186  -1.710  1.00  0.00           C  
  ATOM    332  NE  ARG B  22       0.635 -19.281  -0.752  1.00  0.00           N  
  ATOM    333  CZ  ARG B  22      -0.566 -19.791  -0.725  1.00  0.00           C  
  ATOM    334  NH1 ARG B  22      -1.197 -20.035  -1.840  1.00  0.00           N  
  ATOM    335  NH2 ARG B  22      -1.136 -20.055   0.419  1.00  0.00           N  
  ATOM    375  CG  LYS B  28      -0.662  -6.001 -18.682  1.00  0.00           C  
  ATOM    376  CD  LYS B  28      -0.975  -4.510 -18.549  1.00  0.00           C  
  ATOM    377  CE  LYS B  28      -0.257  -3.738 -19.656  1.00  0.00           C  
  ATOM    378  NZ  LYS B  28       0.067  -2.365 -19.175  1.00  0.00           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
