
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   36 (  144),  selected   36 , name T0335TS383_5-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS383_5-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       5      A       5           #
LGA    K       6      K       6           -
LGA    I       7      I       7           -
LGA    A       8      -       -           -
LGA    R       9      -       -           -
LGA    I      10      -       -           -
LGA    N      11      -       -           -
LGA    E      12      -       -           -
LGA    L      13      -       -           -
LGA    A      14      A       8           #
LGA    A      15      R       9           #
LGA    K      16      I      10           -
LGA    -       -      N      11           -
LGA    A      17      E      12           #
LGA    K      18      L      13           #
LGA    A      19      A      14          4.406
LGA    G      20      A      15          4.149
LGA    V      21      K      16          4.301
LGA    I      22      A      17          1.764
LGA    -       -      K      18           -
LGA    -       -      A      19           -
LGA    -       -      G      20           -
LGA    -       -      V      21           -
LGA    T      23      I      22          2.389
LGA    E      24      T      23          2.571
LGA    E      25      E      24          2.017
LGA    -       -      E      25           -
LGA    E      26      E      26          0.853
LGA    K      27      K      27          3.637
LGA    -       -      A      28           -
LGA    -       -      E      29           -
LGA    -       -      Q      30           -
LGA    A      28      Q      31          1.494
LGA    E      29      K      32          1.556
LGA    Q      30      L      33          3.025
LGA    Q      31      R      34          3.869
LGA    K      32      Q      35          3.217
LGA    L      33      E      36          1.238
LGA    R      34      Y      37          2.507
LGA    Q      35      L      38          4.285
LGA    E      36      K      39          3.652
LGA    Y      37      G      40          1.504
LGA    L      38      -       -           -
LGA    K      39      -       -           -
LGA    G      40      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     19    2.99    21.05     40.962     0.616

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.297201 * X  +  -0.588518 * Y  +  -0.751877 * Z  +  -2.134345
  Y_new =  -0.945486 * X  +   0.071587 * Y  +   0.317697 * Z  +  -2.849725
  Z_new =  -0.133146 * X  +   0.805309 * Y  +  -0.577711 * Z  + -10.495263 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.193091   -0.948502  [ DEG:   125.6548    -54.3452 ]
  Theta =   0.133543    3.008050  [ DEG:     7.6514    172.3486 ]
  Phi   =  -1.875354    1.266239  [ DEG:  -107.4498     72.5502 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0335TS383_5-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS383_5-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   19   2.99   21.05  40.962
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS383_5-D1
PFRMAT TS
TARGET T0335
MODEL 5
PARENT 2crjA
ATOM      5  N   ALA     5      -1.681 -14.374   1.454  1.00  0.00
ATOM      6  CA  ALA     5      -1.056 -15.576   1.994  1.00  0.00
ATOM      7  C   ALA     5      -1.584 -15.882   3.392  1.00  0.00
ATOM      8  O   ALA     5      -2.008 -17.000   3.676  1.00  0.00
ATOM      9  N   LYS     6      -1.552 -14.877   4.263  1.00  0.00
ATOM     10  CA  LYS     6      -2.025 -15.039   5.633  1.00  0.00
ATOM     11  C   LYS     6      -3.330 -15.828   5.668  1.00  0.00
ATOM     12  O   LYS     6      -3.477 -16.767   6.451  1.00  0.00
ATOM     13  N   ILE     7      -4.274 -15.440   4.817  1.00  0.00
ATOM     14  CA  ILE     7      -5.566 -16.111   4.751  1.00  0.00
ATOM     15  C   ILE     7      -5.411 -17.554   4.279  1.00  0.00
ATOM     16  O   ILE     7      -5.791 -18.491   4.983  1.00  0.00
ATOM     17  N   ALA     8      -4.852 -17.724   3.087  1.00  0.00
ATOM     18  CA  ALA     8      -4.647 -19.054   2.522  1.00  0.00
ATOM     19  C   ALA     8      -4.290 -20.059   3.613  1.00  0.00
ATOM     20  O   ALA     8      -4.801 -21.179   3.632  1.00  0.00
ATOM     21  N   ARG     9     -11.459 -19.839  -2.144  1.00  0.00
ATOM     22  CA  ARG     9     -10.919 -19.550  -3.475  1.00  0.00
ATOM     23  C   ARG     9     -10.351 -18.140  -3.576  1.00  0.00
ATOM     24  O   ARG     9     -10.093 -17.489  -2.562  1.00  0.00
ATOM     25  N   ILE    10     -10.157 -17.670  -4.804  1.00  0.00
ATOM     26  CA  ILE    10      -9.618 -16.336  -5.037  1.00  0.00
ATOM     27  C   ILE    10     -10.652 -15.265  -4.699  1.00  0.00
ATOM     28  O   ILE    10     -10.431 -14.399  -3.850  1.00  0.00
ATOM     29  N   ASN    11     -11.807 -15.323  -5.377  1.00  0.00
ATOM     30  CA  ASN    11     -12.898 -14.367  -5.167  1.00  0.00
ATOM     31  C   ASN    11     -13.572 -14.546  -3.811  1.00  0.00
ATOM     32  O   ASN    11     -14.698 -14.096  -3.605  1.00  0.00
ATOM     33  N   GLU    12     -12.874 -15.205  -2.891  1.00  0.00
ATOM     34  CA  GLU    12     -13.407 -15.442  -1.554  1.00  0.00
ATOM     35  C   GLU    12     -12.442 -14.940  -0.486  1.00  0.00
ATOM     36  O   GLU    12     -12.848 -14.614   0.630  1.00  0.00
ATOM     37  N   LEU    13     -11.161 -14.881  -0.834  1.00  0.00
ATOM     38  CA  LEU    13     -10.136 -14.418   0.093  1.00  0.00
ATOM     39  C   LEU    13      -9.956 -12.906   0.003  1.00  0.00
ATOM     40  O   LEU    13      -9.867 -12.219   1.020  1.00  0.00
ATOM     41  N   ALA    14      -9.903 -12.395  -1.223  1.00  0.00
ATOM     42  CA  ALA    14      -9.734 -10.964  -1.447  1.00  0.00
ATOM     43  C   ALA    14     -10.907 -10.176  -0.876  1.00  0.00
ATOM     44  O   ALA    14     -10.725  -9.097  -0.308  1.00  0.00
ATOM     45  N   ALA    15     -12.109 -10.719  -1.028  1.00  0.00
ATOM     46  CA  ALA    15     -13.313 -10.066  -0.525  1.00  0.00
ATOM     47  C   ALA    15     -13.219  -9.836   0.979  1.00  0.00
ATOM     48  O   ALA    15     -13.820  -8.904   1.512  1.00  0.00
ATOM     49  N   LYS    16     -12.461 -10.690   1.658  1.00  0.00
ATOM     50  CA  LYS    16     -12.286 -10.577   3.102  1.00  0.00
ATOM     51  C   LYS    16     -11.258  -9.504   3.442  1.00  0.00
ATOM     52  O   LYS    16     -11.498  -8.648   4.295  1.00  0.00
ATOM     53  N   ALA    17     -12.111  -5.533   3.319  1.00  0.00
ATOM     54  CA  ALA    17     -12.663  -4.934   4.528  1.00  0.00
ATOM     55  C   ALA    17     -11.556  -4.390   5.425  1.00  0.00
ATOM     56  O   ALA    17     -11.681  -3.304   5.989  1.00  0.00
ATOM     57  N   LYS    18     -10.475  -5.153   5.553  1.00  0.00
ATOM     58  CA  LYS    18      -9.348  -4.747   6.384  1.00  0.00
ATOM     59  C   LYS    18      -8.765  -3.421   5.900  1.00  0.00
ATOM     60  O   LYS    18      -8.558  -2.499   6.686  1.00  0.00
ATOM     61  N   ALA    19      -8.503  -3.337   4.599  1.00  0.00
ATOM     62  CA  ALA    19      -7.944  -2.127   4.010  1.00  0.00
ATOM     63  C   ALA    19      -8.662  -0.886   4.530  1.00  0.00
ATOM     64  O   ALA    19      -8.043   0.156   4.744  1.00  0.00
ATOM     65  N   GLY    20      -9.971  -1.005   4.730  1.00  0.00
ATOM     66  CA  GLY    20     -10.773   0.109   5.221  1.00  0.00
ATOM     67  C   GLY    20     -10.596   0.283   6.727  1.00  0.00
ATOM     68  O   GLY    20     -10.703   1.391   7.253  1.00  0.00
ATOM     69  N   VAL    21     -10.325  -0.820   7.415  1.00  0.00
ATOM     70  CA  VAL    21     -10.131  -0.792   8.861  1.00  0.00
ATOM     71  C   VAL    21      -8.653  -0.651   9.209  1.00  0.00
ATOM     72  O   VAL    21      -8.249  -0.881  10.349  1.00  0.00
ATOM     73  N   ILE    22      -7.851  -0.270   8.221  1.00  0.00
ATOM     74  CA  ILE    22      -6.417  -0.097   8.424  1.00  0.00
ATOM     75  C   ILE    22      -6.130   1.159   9.241  1.00  0.00
ATOM     76  O   ILE    22      -7.019   1.979   9.468  1.00  0.00
ATOM     77  N   THR    23      -4.883   1.302   9.679  1.00  0.00
ATOM     78  CA  THR    23      -4.481   2.458  10.471  1.00  0.00
ATOM     79  C   THR    23      -4.018   3.600   9.571  1.00  0.00
ATOM     80  O   THR    23      -3.652   3.399   8.413  1.00  0.00
ATOM     81  N   GLU    24      -4.034   4.825  10.113  1.00  0.00
ATOM     82  CA  GLU    24      -3.619   6.023   9.377  1.00  0.00
ATOM     83  C   GLU    24      -2.117   6.052   9.116  1.00  0.00
ATOM     84  O   GLU    24      -1.600   6.992   8.513  1.00  0.00
ATOM     85  N   GLU    25      -1.422   5.015   9.573  1.00  0.00
ATOM     86  CA  GLU    25       0.021   4.921   9.387  1.00  0.00
ATOM     87  C   GLU    25       0.374   3.828   8.385  1.00  0.00
ATOM     88  O   GLU    25       1.302   3.978   7.591  1.00  0.00
ATOM     89  N   GLU    26      -0.370   2.727   8.430  1.00  0.00
ATOM     90  CA  GLU    26      -0.131   1.608   7.526  1.00  0.00
ATOM     91  C   GLU    26      -0.706   1.894   6.142  1.00  0.00
ATOM     92  O   GLU    26      -0.008   1.792   5.134  1.00  0.00
ATOM     93  N   LYS    27      -1.985   2.253   6.101  1.00  0.00
ATOM     94  CA  LYS    27      -2.655   2.556   4.842  1.00  0.00
ATOM     95  C   LYS    27      -1.881   3.607   4.053  1.00  0.00
ATOM     96  O   LYS    27      -1.668   3.459   2.850  1.00  0.00
ATOM     97  N   ALA    28       2.645   4.685  -0.251  1.00  0.00
ATOM     98  CA  ALA    28       3.968   5.242  -0.507  1.00  0.00
ATOM     99  C   ALA    28       4.929   4.160  -0.992  1.00  0.00
ATOM    100  O   ALA    28       5.719   4.383  -1.909  1.00  0.00
ATOM    101  N   GLU    29       4.856   2.988  -0.369  1.00  0.00
ATOM    102  CA  GLU    29       5.720   1.873  -0.736  1.00  0.00
ATOM    103  C   GLU    29       5.574   1.535  -2.218  1.00  0.00
ATOM    104  O   GLU    29       6.514   1.058  -2.852  1.00  0.00
ATOM    105  N   GLN    30       4.389   1.790  -2.762  1.00  0.00
ATOM    106  CA  GLN    30       4.119   1.515  -4.168  1.00  0.00
ATOM    107  C   GLN    30       4.520   2.697  -5.044  1.00  0.00
ATOM    108  O   GLN    30       4.172   2.753  -6.223  1.00  0.00
ATOM    109  N   GLN    31       5.252   3.640  -4.459  1.00  0.00
ATOM    110  CA  GLN    31       5.699   4.822  -5.188  1.00  0.00
ATOM    111  C   GLN    31       7.147   4.665  -5.645  1.00  0.00
ATOM    112  O   GLN    31       7.439   4.699  -6.840  1.00  0.00
ATOM    113  N   LYS    32       8.047   4.493  -4.683  1.00  0.00
ATOM    114  CA  LYS    32       9.465   4.330  -4.984  1.00  0.00
ATOM    115  C   LYS    32       9.685   3.181  -5.962  1.00  0.00
ATOM    116  O   LYS    32      10.367   3.336  -6.974  1.00  0.00
ATOM    117  N   LEU    33       9.103   2.026  -5.652  1.00  0.00
ATOM    118  CA  LEU    33       9.237   0.850  -6.505  1.00  0.00
ATOM    119  C   LEU    33       8.733   1.143  -7.916  1.00  0.00
ATOM    120  O   LEU    33       9.419   0.869  -8.902  1.00  0.00
ATOM    121  N   ARG    34       7.531   1.700  -8.006  1.00  0.00
ATOM    122  CA  ARG    34       6.935   2.031  -9.294  1.00  0.00
ATOM    123  C   ARG    34       7.976   2.621 -10.241  1.00  0.00
ATOM    124  O   ARG    34       8.205   2.095 -11.330  1.00  0.00
ATOM    125  N   GLN    35       8.604   3.712  -9.817  1.00  0.00
ATOM    126  CA  GLN    35       9.622   4.370 -10.627  1.00  0.00
ATOM    127  C   GLN    35      10.464   3.347 -11.381  1.00  0.00
ATOM    128  O   GLN    35      10.636   3.446 -12.595  1.00  0.00
ATOM    129  N   GLU    36      10.987   2.366 -10.652  1.00  0.00
ATOM    130  CA  GLU    36      11.813   1.325 -11.252  1.00  0.00
ATOM    131  C   GLU    36      11.142   0.748 -12.495  1.00  0.00
ATOM    132  O   GLU    36      11.756   0.658 -13.558  1.00  0.00
ATOM    133  N   TYR    37       9.881   0.358 -12.352  1.00  0.00
ATOM    134  CA  TYR    37       9.128  -0.215 -13.462  1.00  0.00
ATOM    135  C   TYR    37       8.966   0.798 -14.590  1.00  0.00
ATOM    136  O   TYR    37       9.182   0.483 -15.762  1.00  0.00
ATOM    137  N   LEU    38       8.585   2.019 -14.230  1.00  0.00
ATOM    138  CA  LEU    38       8.395   3.083 -15.210  1.00  0.00
ATOM    139  C   LEU    38       9.557   3.128 -16.196  1.00  0.00
ATOM    140  O   LEU    38       9.365   2.999 -17.406  1.00  0.00
ATOM    141  N   LYS    39      10.764   3.312 -15.673  1.00  0.00
ATOM    142  CA  LYS    39      11.959   3.372 -16.505  1.00  0.00
ATOM    143  C   LYS    39      12.114   2.097 -17.327  1.00  0.00
ATOM    144  O   LYS    39      12.653   2.121 -18.433  1.00  0.00
ATOM    145  N   GLY    40      11.637   0.983 -16.778  1.00  0.00
ATOM    146  CA  GLY    40      11.724  -0.302 -17.461  1.00  0.00
ATOM    147  C   GLY    40      10.668  -0.407 -18.558  1.00  0.00
ATOM    148  O   GLY    40      10.516  -1.452 -19.191  1.00  0.00
TER
END
