
#######################################################
#                                                     #
#                        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 (  178),  selected   36 , name T0335TS239_2-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS239_2-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      A       8           -
LGA    R       9      R       9           -
LGA    I      10      I      10           -
LGA    N      11      N      11           -
LGA    E      12      E      12           -
LGA    L      13      L      13           -
LGA    A      14      A      14           -
LGA    A      15      A      15           -
LGA    K      16      K      16           -
LGA    A      17      A      17           -
LGA    K      18      K      18           -
LGA    A      19      A      19           -
LGA    G      20      G      20           -
LGA    V      21      V      21          1.094
LGA    I      22      I      22          0.831
LGA    T      23      T      23          1.191
LGA    E      24      E      24          0.364
LGA    E      25      E      25          0.752
LGA    E      26      E      26          0.426
LGA    K      27      K      27          0.195
LGA    A      28      A      28          0.809
LGA    E      29      E      29          0.515
LGA    Q      30      Q      30          0.741
LGA    Q      31      Q      31          1.547
LGA    K      32      K      32          1.154
LGA    L      33      L      33          0.531
LGA    R      34      R      34          0.599
LGA    Q      35      Q      35          0.802
LGA    E      36      E      36          0.442
LGA    Y      37      Y      37          0.401
LGA    L      38      L      38          0.931
LGA    K      39      K      39          0.682
LGA    G      40      G      40          2.091

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     20    0.92   100.00     54.471     1.969

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.145740 * X  +  -0.828907 * Y  +  -0.540068 * Z  +  69.505112
  Y_new =  -0.979099 * X  +  -0.042571 * Y  +  -0.198877 * Z  +  89.687004
  Z_new =   0.141859 * X  +   0.557765 * Y  +  -0.817786 * Z  +  75.744041 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.543021   -0.598572  [ DEG:   145.7043    -34.2956 ]
  Theta =  -0.142340   -2.999253  [ DEG:    -8.1555   -171.8445 ]
  Phi   =  -1.423030    1.718563  [ DEG:   -81.5336     98.4664 ]
 
# 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: T0335TS239_2-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS239_2-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   20   0.92  100.00  54.471
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS239_2-D1
PFRMAT TS
TARGET T0335
MODEL 2
PARENT 1o7d_A
ATOM     21  N   ALA     5       5.042  -4.780 -26.242  1.00  9.99
ATOM     22  CA  ALA     5       4.710  -3.722 -27.185  1.00  9.99
ATOM     23  C   ALA     5       4.020  -2.600 -26.437  1.00  9.99
ATOM     24  O   ALA     5       4.538  -1.476 -26.375  1.00  9.99
ATOM     25  CB  ALA     5       3.789  -4.257 -28.248  1.00  9.99
ATOM     26  N   LYS     6       2.852  -2.923 -25.870  1.00  9.99
ATOM     27  CA  LYS     6       2.048  -1.966 -25.105  1.00  9.99
ATOM     28  C   LYS     6       2.872  -1.278 -24.019  1.00  9.99
ATOM     29  O   LYS     6       2.850  -0.060 -23.898  1.00  9.99
ATOM     30  CB  LYS     6       0.822  -2.654 -24.454  1.00  9.99
ATOM     31  N   ILE     7       3.605  -2.063 -23.236  1.00  9.99
ATOM     32  CA  ILE     7       4.457  -1.523 -22.170  1.00  9.99
ATOM     33  C   ILE     7       5.489  -0.494 -22.680  1.00  9.99
ATOM     34  O   ILE     7       5.735   0.519 -22.019  1.00  9.99
ATOM     35  CB  ILE     7       5.158  -2.672 -21.432  1.00  9.99
ATOM     36  N   ALA     8       6.080  -0.757 -23.846  1.00  9.99
ATOM     37  CA  ALA     8       7.052   0.152 -24.464  1.00  9.99
ATOM     38  C   ALA     8       6.361   1.476 -24.825  1.00  9.99
ATOM     39  O   ALA     8       6.904   2.573 -24.643  1.00  9.99
ATOM     40  CB  ALA     8       7.610  -0.476 -25.741  1.00  9.99
ATOM     41  N   ARG     9       5.153   1.346 -25.356  1.00  9.99
ATOM     42  CA  ARG     9       4.356   2.489 -25.744  1.00  9.99
ATOM     43  C   ARG     9       4.040   3.331 -24.521  1.00  9.99
ATOM     44  O   ARG     9       4.497   4.469 -24.412  1.00  9.99
ATOM     45  CB  ARG     9       3.051   2.023 -26.406  1.00  9.99
ATOM     46  N   ILE    10       3.275   2.755 -23.597  1.00  9.99
ATOM     47  CA  ILE    10       2.863   3.443 -22.380  1.00  9.99
ATOM     48  C   ILE    10       4.003   4.153 -21.661  1.00  9.99
ATOM     49  O   ILE    10       3.824   5.243 -21.102  1.00  9.99
ATOM     50  CB  ILE    10       2.184   2.462 -21.397  1.00  9.99
ATOM     51  N   ASN    11       5.181   3.547 -21.680  1.00  9.99
ATOM     52  CA  ASN    11       6.318   4.145 -20.999  1.00  9.99
ATOM     53  C   ASN    11       6.683   5.457 -21.660  1.00  9.99
ATOM     54  O   ASN    11       7.200   6.370 -21.016  1.00  9.99
ATOM     55  CB  ASN    11       7.497   3.185 -21.025  1.00  9.99
ATOM     56  N   GLU    12       6.409   5.549 -22.953  1.00  9.99
ATOM     57  CA  GLU    12       6.691   6.774 -23.686  1.00  9.99
ATOM     58  C   GLU    12       5.640   7.869 -23.377  1.00  9.99
ATOM     59  O   GLU    12       5.946   9.077 -23.400  1.00  9.99
ATOM     60  CB  GLU    12       6.718   6.486 -25.185  1.00  9.99
ATOM     61  N   LEU    13       4.405   7.438 -23.110  1.00  9.99
ATOM     62  CA  LEU    13       3.326   8.362 -22.775  1.00  9.99
ATOM     63  C   LEU    13       3.653   8.999 -21.431  1.00  9.99
ATOM     64  O   LEU    13       3.359  10.173 -21.201  1.00  9.99
ATOM     65  CB  LEU    13       1.985   7.631 -22.676  1.00  9.99
ATOM     66  N   ALA    14       4.259   8.209 -20.546  1.00  9.99
ATOM     67  CA  ALA    14       4.649   8.690 -19.228  1.00  9.99
ATOM     68  C   ALA    14       5.880   9.579 -19.399  1.00  9.99
ATOM     69  O   ALA    14       5.947  10.661 -18.830  1.00  9.99
ATOM     70  CB  ALA    14       4.963   7.502 -18.255  1.00  9.99
ATOM     71  N   ALA    15       6.844   9.139 -20.205  1.00  9.99
ATOM     72  CA  ALA    15       8.061   9.928 -20.411  1.00  9.99
ATOM     73  C   ALA    15       7.740  11.368 -20.807  1.00  9.99
ATOM     74  O   ALA    15       8.330  12.315 -20.281  1.00  9.99
ATOM     75  CB  ALA    15       8.943   9.296 -21.491  1.00  9.99
ATOM     76  N   LYS    16       6.809  11.531 -21.740  1.00  9.99
ATOM     77  CA  LYS    16       6.449  12.870 -22.178  1.00  9.99
ATOM     78  C   LYS    16       5.264  13.444 -21.435  1.00  9.99
ATOM     79  O   LYS    16       4.675  14.436 -21.861  1.00  9.99
ATOM     80  CB  LYS    16       6.214  12.914 -23.694  1.00  9.99
ATOM     81  N   ALA    17       4.934  12.802 -20.319  1.00  9.99
ATOM     82  CA  ALA    17       3.856  13.249 -19.451  1.00  9.99
ATOM     83  C   ALA    17       2.421  13.244 -19.925  1.00  9.99
ATOM     84  O   ALA    17       1.619  14.028 -19.430  1.00  9.99
ATOM     85  CB  ALA    17       4.219  14.675 -19.004  1.00  9.99
ATOM     86  N   LYS    18       2.083  12.380 -20.874  1.00  9.99
ATOM     87  CA  LYS    18       0.721  12.326 -21.359  1.00  9.99
ATOM     88  C   LYS    18      -0.039  11.463 -20.380  1.00  9.99
ATOM     89  O   LYS    18      -1.270  11.505 -20.303  1.00  9.99
ATOM     90  CB  LYS    18       0.679  11.773 -22.782  1.00  9.99
ATOM     91  N   ALA    19       0.715  10.675 -19.621  1.00  9.99
ATOM     92  CA  ALA    19       0.139   9.840 -18.583  1.00  9.99
ATOM     93  C   ALA    19       0.939  10.197 -17.356  1.00  9.99
ATOM     94  O   ALA    19       2.165  10.078 -17.334  1.00  9.99
ATOM     95  CB  ALA    19       0.276   8.347 -18.871  1.00  9.99
ATOM     96  N   GLY    20       0.216  10.655 -16.344  1.00  9.99
ATOM     97  CA  GLY    20       0.792  11.087 -15.086  1.00  9.99
ATOM     98  C   GLY    20       0.150  10.368 -13.903  1.00  9.99
ATOM     99  O   GLY    20      -1.040  10.030 -13.922  1.00  9.99
ATOM    100  N   VAL    21      -8.505   6.137  10.624  1.00  9.99
ATOM    101  CA  VAL    21      -8.222   4.884  11.290  1.00  9.99
ATOM    102  C   VAL    21      -6.901   4.208  10.947  1.00  9.99
ATOM    103  O   VAL    21      -6.567   3.174  11.520  1.00  9.99
ATOM    104  CB  VAL    21      -9.357   3.913  11.025  1.00  9.99
ATOM    105  N   ILE    22      -6.139   4.782  10.032  1.00  9.99
ATOM    106  CA  ILE    22      -4.864   4.196   9.654  1.00  9.99
ATOM    107  C   ILE    22      -3.721   4.554  10.592  1.00  9.99
ATOM    108  O   ILE    22      -3.706   5.624  11.191  1.00  9.99
ATOM    109  CB  ILE    22      -4.472   4.628   8.271  1.00  9.99
ATOM    110  N   THR    23      -2.765   3.636  10.704  1.00  9.99
ATOM    111  CA  THR    23      -1.586   3.780  11.547  1.00  9.99
ATOM    112  C   THR    23      -0.530   4.426  10.673  1.00  9.99
ATOM    113  O   THR    23      -0.337   3.978   9.553  1.00  9.99
ATOM    114  CB  THR    23      -1.126   2.386  11.986  1.00  9.99
ATOM    115  N   GLU    24       0.162   5.454  11.156  1.00  9.99
ATOM    116  CA  GLU    24       1.164   6.116  10.315  1.00  9.99
ATOM    117  C   GLU    24       2.156   5.141   9.654  1.00  9.99
ATOM    118  O   GLU    24       2.540   5.318   8.499  1.00  9.99
ATOM    119  CB  GLU    24       1.921   7.172  11.126  1.00  9.99
ATOM    120  N   GLU    25       2.548   4.101  10.387  1.00  9.99
ATOM    121  CA  GLU    25       3.494   3.137   9.863  1.00  9.99
ATOM    122  C   GLU    25       2.922   2.318   8.736  1.00  9.99
ATOM    123  O   GLU    25       3.619   1.986   7.792  1.00  9.99
ATOM    124  CB  GLU    25       3.968   2.227  11.010  1.00  9.99
ATOM    125  N   GLU    26       1.642   1.993   8.840  1.00  9.99
ATOM    126  CA  GLU    26       0.979   1.200   7.829  1.00  9.99
ATOM    127  C   GLU    26       0.751   2.027   6.572  1.00  9.99
ATOM    128  O   GLU    26       0.811   1.511   5.457  1.00  9.99
ATOM    129  CB  GLU    26      -0.321   0.690   8.379  1.00  9.99
ATOM    130  N   LYS    27       0.488   3.313   6.758  1.00  9.99
ATOM    131  CA  LYS    27       0.281   4.213   5.637  1.00  9.99
ATOM    132  C   LYS    27       1.562   4.273   4.810  1.00  9.99
ATOM    133  O   LYS    27       1.531   4.383   3.594  1.00  9.99
ATOM    134  CB  LYS    27      -0.055   5.630   6.142  1.00  9.99
ATOM    135  N   ALA    28       2.698   4.202   5.483  1.00  9.99
ATOM    136  CA  ALA    28       3.971   4.252   4.790  1.00  9.99
ATOM    137  C   ALA    28       4.232   2.978   3.982  1.00  9.99
ATOM    138  O   ALA    28       4.612   3.046   2.810  1.00  9.99
ATOM    139  CB  ALA    28       5.112   4.488   5.789  1.00  9.99
ATOM    140  N   GLU    29       4.040   1.814   4.597  1.00  9.99
ATOM    141  CA  GLU    29       4.252   0.574   3.858  1.00  9.99
ATOM    142  C   GLU    29       3.403   0.600   2.587  1.00  9.99
ATOM    143  O   GLU    29       3.874   0.245   1.502  1.00  9.99
ATOM    144  CB  GLU    29       3.883  -0.651   4.708  1.00  9.99
ATOM    145  N   GLN    30       2.157   1.038   2.740  1.00  9.99
ATOM    146  CA  GLN    30       1.206   1.135   1.648  1.00  9.99
ATOM    147  C   GLN    30       1.740   2.068   0.557  1.00  9.99
ATOM    148  O   GLN    30       1.772   1.703  -0.618  1.00  9.99
ATOM    149  CB  GLN    30      -0.136   1.640   2.200  1.00  9.99
ATOM    150  N   GLN    31       2.184   3.257   0.941  1.00  9.99
ATOM    151  CA  GLN    31       2.693   4.199  -0.039  1.00  9.99
ATOM    152  C   GLN    31       3.959   3.690  -0.723  1.00  9.99
ATOM    153  O   GLN    31       4.038   3.661  -1.949  1.00  9.99
ATOM    154  CB  GLN    31       2.966   5.543   0.625  1.00  9.99
ATOM    155  N   LYS    32       4.945   3.292   0.074  1.00  9.99
ATOM    156  CA  LYS    32       6.203   2.763  -0.440  1.00  9.99
ATOM    157  C   LYS    32       5.930   1.693  -1.480  1.00  9.99
ATOM    158  O   LYS    32       6.640   1.575  -2.463  1.00  9.99
ATOM    159  CB  LYS    32       7.032   2.095   0.678  1.00  9.99
ATOM    160  N   LEU    33       4.892   0.904  -1.247  1.00  9.99
ATOM    161  CA  LEU    33       4.550  -0.182  -2.148  1.00  9.99
ATOM    162  C   LEU    33       4.111   0.317  -3.525  1.00  9.99
ATOM    163  O   LEU    33       4.492  -0.255  -4.555  1.00  9.99
ATOM    164  CB  LEU    33       3.464  -1.055  -1.511  1.00  9.99
ATOM    165  N   ARG    34       3.317   1.382  -3.552  1.00  9.99
ATOM    166  CA  ARG    34       2.864   1.898  -4.826  1.00  9.99
ATOM    167  C   ARG    34       4.010   2.596  -5.528  1.00  9.99
ATOM    168  O   ARG    34       4.333   2.301  -6.686  1.00  9.99
ATOM    169  CB  ARG    34       1.673   2.846  -4.606  1.00  9.99
ATOM    170  N   GLN    35       4.622   3.529  -4.802  1.00  9.99
ATOM    171  CA  GLN    35       5.747   4.305  -5.298  1.00  9.99
ATOM    172  C   GLN    35       6.889   3.389  -5.724  1.00  9.99
ATOM    173  O   GLN    35       7.681   3.723  -6.604  1.00  9.99
ATOM    174  CB  GLN    35       6.199   5.285  -4.214  1.00  9.99
ATOM    175  N   GLU    36       6.961   2.218  -5.110  1.00  9.99
ATOM    176  CA  GLU    36       8.001   1.267  -5.453  1.00  9.99
ATOM    177  C   GLU    36       7.750   0.759  -6.878  1.00  9.99
ATOM    178  O   GLU    36       8.666   0.742  -7.713  1.00  9.99
ATOM    179  CB  GLU    36       7.998   0.106  -4.452  1.00  9.99
ATOM    180  N   TYR    37       6.509   0.360  -7.159  1.00  9.99
ATOM    181  CA  TYR    37       6.155  -0.140  -8.487  1.00  9.99
ATOM    182  C   TYR    37       6.440   0.874  -9.571  1.00  9.99
ATOM    183  O   TYR    37       7.076   0.561 -10.574  1.00  9.99
ATOM    184  CB  TYR    37       4.672  -0.508  -8.585  1.00  9.99
ATOM    185  N   LEU    38       5.923   2.082  -9.377  1.00  9.99
ATOM    186  CA  LEU    38       6.106   3.158 -10.334  1.00  9.99
ATOM    187  C   LEU    38       7.591   3.383 -10.528  1.00  9.99
ATOM    188  O   LEU    38       8.099   3.425 -11.659  1.00  9.99
ATOM    189  CB  LEU    38       5.464   4.453  -9.829  1.00  9.99
ATOM    190  N   LYS    39       8.297   3.502  -9.415  1.00  9.99
ATOM    191  CA  LYS    39       9.719   3.755  -9.473  1.00  9.99
ATOM    192  C   LYS    39      10.453   2.845 -10.441  1.00  9.99
ATOM    193  O   LYS    39      11.067   3.310 -11.398  1.00  9.99
ATOM    194  CB  LYS    39      10.321   3.619  -8.092  1.00  9.99
ATOM    195  N   GLY    40      10.382   1.542 -10.199  1.00  9.99
ATOM    196  CA  GLY    40      11.082   0.595 -11.056  1.00  9.99
ATOM    197  C   GLY    40      10.416   0.236 -12.366  1.00  9.99
ATOM    198  O   GLY    40      10.883  -0.651 -13.075  1.00  9.99
TER
END
