Running PDBSTAT from Linux 
  Ayuda is on: /farm/software/PdbStat/PdbStat-5.7

  (C)
  (C)  Pdbstat -- A program to evaluate some statistics of macromolecules,
  (C)             given the cartesian coordinates.
  (C)
  (C)  (c) Copyright 1992-2012 Roberto Tejero and Gaetano T. Montelione
  (C)      Center for Advanced Technology and Medicine (CABM)
  (C)      Rutgers University
  (C)
       ** VERSION:  5.7-exp dom mar 10 23:17:04 UTC 2013  ** 
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
       ===============>  W E L C O M E  to PDBStat <================   
 PDBStat has become a tool able (between other things) of:
    a) read and interconvert between DISMAN, DYANA, PDB, DISCOVER, IMPACT 
    b) elaborate some info about the molecule as MW, Radius of gyration, .. 
    c) investigate the setereochemical quality of a protein by evaluating 
       phi, psi, chi1, impropers and chirality 
 The sequence of acts should be: 
       1.- read a file (coords, constr) 
       2.- read a sequence file (can be free format) 
       3.- Follow menu (calculating, writing ...) 

   NOTE: Be aware that if you read in a constraint file you 
         *ALWAYS* need to read a sequence file also

 HAVE FUN AND ENJOY !!
 **** For more info type `help' or `menu' **** 

  --> ... Reading/Loading Distances file  ...  125 distance records read
  --> ... Reading/Loading Dihedral Library .. 1119 library records read

PdbStat> [rea]d [hel]p [his]tory [men]u [phi] [qui]t...

PdbStat>  leyendo PDB 
  > locate_file(): file `SR384_NMR_em_bcr3.pdb' opened for reading 
  > ReadCoordsPdb(): >> HEADER    STRUCTURAL GENOMICS, UNKNOWN FUNCTION   18-SEP-07   2JVD              
  > ReadCoordsPdb(): >> TITLE     SOLUTION NMR STRUCTURE OF THE FOLDED N-TERMINAL FRAGMENT OF           
  > ReadCoordsPdb(): >> TITLE    2 UPF0291 PROTEIN YNZC FROM BACILLUS SUBTILIS. NORTHEAST               
  > ReadCoordsPdb(): >> TITLE    3 STRUCTURAL GENOMICS TARGET SR384-1-46                                
  > ReadCoordsPdb(): >> COMPND    MOL_ID: 1;                                                            
   1  > ReadCoordsPdb(): Counting models in file `SR384_NMR_em_bcr3.pdb'; Model:    2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19  20
  > ReadCoordsPdb(): After scanning there is(are) 20 model(s) 
  > ReadCoordsPdb(): what model do you want [(1 to 20) or all] ?_   > ReadCoordsPdb(): Reading *all* models in file SR384_NMR_em_bcr3.pdb
  > ReadCoordsPdb(): Reading a total of (20) models in file
  > ReadCoordsPdb(): I'm reading!, model   0

  > ReadCoordsPdb(): *** SUMMARY ***
  > ReadCoordsPdb(): --> 15720 ATOM records read from file
  > ReadCoordsPdb(): --> 15720 Regular IUPAC Atoms 
  > ReadCoordsPdb(): -->     0 Pseudo-atoms (DISMAN type) 
  > ReadCoordsPdb(): -->     0 Lone pairs
  > ReadCoordsPdb(): Bye ... 
  > ReadCoordsPdb(): ** monomer, 1 [1] chains ** 


PdbStat> 
  > calc_order_parameters(): ... Evaluating Dihedrals

      CHAIN                                                              .GT.  SUM.GT.
   RES  ID DIH  S(phi)  S(psi)  S(chi1) S(chi2) S(chi3) S(chi4) S(chi5)  0.90     1.6 
   ----------------------------------------------------------------------------------- 
   MET  A   1           0.767   0.256   0.299   0.402                               
   ILE  A   2   0.925   0.977   0.997   0.876                               2        2 
   SER  A   3   0.905   0.975   0.243                                       3        3 
   ASN  A   4   0.999   0.992   0.457   0.611                               4        4 
   ALA  A   5   0.999   0.998                                               5        5 
   LYS  A   6   0.997   0.998   0.996   0.998   0.998   0.495               6        6 
   ILE  A   7   0.999   0.999   1.000   1.000                               7        7 
   ALA  A   8   0.999   0.998                                               8        8 
   ARG  A   9   0.998   0.998   0.997   0.999   0.888   0.782   0.999       9        9 
   ILE  A  10   1.000   0.998   0.999   0.999                              10       10 
   ASN  A  11   0.998   0.997   0.995   0.887                              11       11 
   GLU  A  12   0.997   0.997   0.997   0.566   0.284                      12       12 
   LEU  A  13   0.998   0.995   0.999   0.998                              13       13 
   ALA  A  14   0.998   0.997                                              14       14 
   ALA  A  15   0.998   0.997                                              15       15 
   LYS  A  16   0.999   0.998   0.995   0.995   0.852   0.551              16       16 
   ALA  A  17   0.998   0.996                                              17       17 
   LYS  A  18   0.997   0.991   0.689   0.933   0.432   0.235              18       18 
   ALA  A  19   0.994   0.986                                              19       19 
   GLY  A  20   0.985   0.981                                              20       20 
   VAL  A  21   0.988   0.983   0.999                                      21       21 
   ILE  A  22   0.984   0.995   0.999   1.000                              22       22 
   THR  A  23   0.995   0.996   0.997                                      23       23 
   GLU  A  24   0.997   0.991   0.999   0.610   0.533                      24       24 
   GLU  A  25   0.996   0.998   0.924   0.749   0.699                      25       25 
   GLU  A  26   0.997   0.997   0.998   0.601   0.696                      26       26 
   LYS  A  27   0.999   0.995   0.998   0.989   0.788   0.876              27       27 
   ALA  A  28   0.998   0.998                                              28       28 
   GLU  A  29   0.999   0.996   0.996   0.596   0.577                      29       29 
   GLN  A  30   0.999   0.996   0.997   0.995   0.045                      30       30 
   GLN  A  31   0.998   0.997   0.616   0.851   0.506                      31       31 
   LYS  A  32   0.996   0.996   0.913   0.930   0.469   0.017              32       32 
   LEU  A  33   0.997   0.996   0.998   0.998                              33       33 
   ARG  A  34   0.999   0.996   0.997   0.996   0.538   0.820   0.999      34       34 
   GLN  A  35   0.999   0.996   0.986   0.465   0.270                      35       35 
   GLU  A  36   0.996   0.997   0.967   0.939   0.297                      36       36 
   TYR  A  37   0.998   0.995   0.997   0.798                              37       37 
   LEU  A  38   0.991   0.947   0.999   1.000                              38       38 
   LYS  A  39   0.730   0.933   0.990   0.631   0.546   0.409                       
   GLY  A  40   0.983   0.944                                              40       40 
   PHE  A  41   0.979   0.360   0.807   0.856                                       
   ARG  A  42   0.501   0.262   0.733   0.715   0.106   0.842   0.999               
   SER  A  43   0.499   0.472   0.336                                               
   SER  A  44   0.670   0.491   0.039                                               
   MET  A  45   0.746   0.472   0.350   0.348   0.217                               
   LYS  A  46   0.648   0.587   0.366   0.287   0.351   0.407                       
   LEU  A  47   0.648   0.678   0.260   0.350                                       
   GLU  A  48   0.882           0.182   0.609   0.321                               


   Ranges: 1
     from:  A    2   to    A   38


PdbStat>   > do_average_coords(): Making average for backbone atoms 
  > do_average_coords(): Calculating center of masses 
  > do_average_coords(): Calling optimal rotation for backbone onto model  1 
  > do_average_coords(): Calc. average coordinates backbone 

 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  1 is: 0.350
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  2 is: 0.306
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  3 is: 0.448
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  4 is: 0.191 (*)
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  5 is: 0.214
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  6 is: 0.351
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  7 is: 0.247
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  8 is: 0.325
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model  9 is: 0.294
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 10 is: 0.333
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 11 is: 0.251
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 12 is: 0.391
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 13 is: 0.332
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 14 is: 0.292
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 15 is: 0.245
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 16 is: 0.208
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 17 is: 0.456
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 18 is: 0.462
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 19 is: 0.445
 > Kabsch RMSD of backbone atoms in res. A[2..38],for model 20 is: 0.313
 >
 > Kabsch RMSD statistics for 20 structures: 
 > Mean RMSD using as refer. str. `average' for res.[2..38], is: 0.323 
 > Range of RMSD values to reference struct. is 0.191 to 0.462
  > do_average_coords(): Making average for heavy atoms 
  > do_average_coords(): Calculating center of masses 
  > do_average_coords(): Calling optimal rotation for heavy onto model  1 
  > do_average_coords(): Calc. average coordinates heavy 

 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  1 is: 0.892
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  2 is: 0.704
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  3 is: 0.777
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  4 is: 0.719
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  5 is: 0.713
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  6 is: 0.786
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  7 is: 0.710
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  8 is: 0.729
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model  9 is: 0.702
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 10 is: 0.904
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 11 is: 0.745
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 12 is: 0.808
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 13 is: 0.825
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 14 is: 0.825
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 15 is: 0.701
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 16 is: 0.674 (*)
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 17 is: 0.824
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 18 is: 0.833
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 19 is: 0.863
 > Kabsch RMSD of heavy atoms in res. A[2..38],for model 20 is: 0.724
 >
 > Kabsch RMSD statistics for 20 structures: 
 > Mean RMSD using as refer. str. `average' for res.[2..38], is: 0.773 
 > Range of RMSD values to reference struct. is 0.674 to 0.904

PdbStat> 
PdbStat>  *END* of program detected, BYE! ...