
#######################################################
#                                                     #
#                        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   37 (  183),  selected   37 , name T0363TS239_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS239_1-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    Q      12      N      11           -
LGA    I      13      Q      12           -
LGA    N      14      I      13           -
LGA    I      15      N      14           -
LGA    E      16      -       -           -
LGA    I      17      -       -           -
LGA    A      18      -       -           -
LGA    Y      19      -       -           -
LGA    A      20      -       -           -
LGA    L      27      I      15          4.470
LGA    K      28      E      16          2.906
LGA    S      29      I      17           -
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      S      29           -
LGA    F      30      F      30          4.612
LGA    Q      31      Q      31          5.126
LGA    V      32      V      32           #
LGA    D      33      D      33          4.943
LGA    E      34      E      34          3.587
LGA    G      35      G      35          2.265
LGA    I      36      I      36          1.396
LGA    T      37      T      37          0.962
LGA    V      38      V      38          1.194
LGA    Q      39      Q      39          0.885
LGA    T      40      T      40          0.888
LGA    A      41      A      41          0.921
LGA    I      42      I      42          1.416
LGA    T      43      T      43          1.557
LGA    Q      44      Q      44          0.876
LGA    S      45      S      45          0.793
LGA    G      46      G      46          1.846
LGA    I      47      I      47          1.974
LGA    S      49      L      48          3.932
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    Q      50      L      56          4.694
LGA    P      52      -       -           -
LGA    E      53      -       -           -
LGA    I      54      -       -           -
LGA    D      55      -       -           -
LGA    L      56      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   37   46    5.0     21    2.89    80.95     34.288     0.702

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.092292 * X  +   0.785738 * Y  +   0.611635 * Z  +   0.306622
  Y_new =   0.343801 * X  +   0.601627 * Y  +  -0.721004 * Z  +  12.548522
  Z_new =  -0.934496 * X  +   0.143738 * Y  +  -0.325663 * Z  +  22.826828 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.725939   -0.415653  [ DEG:   156.1848    -23.8152 ]
  Theta =   1.206841    1.934751  [ DEG:    69.1469    110.8531 ]
  Phi   =   1.833060   -1.308533  [ DEG:   105.0266    -74.9734 ]
 
# 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: T0363TS239_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS239_1-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   37   46   5.0   21   2.89   80.95  34.288
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS239_1-D1
PFRMAT TS
TARGET T0363
MODEL 1
PARENT 2a6c_A
ATOM     41  N   GLN    12      13.204  20.399  -7.112  1.00  9.99
ATOM     42  CA  GLN    12      12.469  19.187  -6.771  1.00  9.99
ATOM     43  C   GLN    12      13.414  18.001  -6.743  1.00  9.99
ATOM     44  O   GLN    12      13.434  17.259  -5.806  1.00  9.99
ATOM     45  CB  GLN    12      11.294  18.930  -7.741  1.00  9.99
ATOM     46  N   ILE    13      14.239  17.854  -7.751  1.00  9.99
ATOM     47  CA  ILE    13      15.217  16.778  -7.784  1.00  9.99
ATOM     48  C   ILE    13      16.244  16.866  -6.649  1.00  9.99
ATOM     49  O   ILE    13      16.582  15.874  -6.025  1.00  9.99
ATOM     50  CB  ILE    13      15.948  16.871  -9.108  1.00  9.99
ATOM     51  N   ASN    14      16.785  18.052  -6.438  1.00  9.99
ATOM     52  CA  ASN    14      17.778  18.283  -5.417  1.00  9.99
ATOM     53  C   ASN    14      17.220  17.960  -4.010  1.00  9.99
ATOM     54  O   ASN    14      17.902  17.337  -3.196  1.00  9.99
ATOM     55  CB  ASN    14      18.348  19.717  -5.542  1.00  9.99
ATOM     56  N   ILE    15      15.980  18.367  -3.752  1.00  9.99
ATOM     57  CA  ILE    15      15.352  18.154  -2.456  1.00  9.99
ATOM     58  C   ILE    15      15.019  16.682  -2.246  1.00  9.99
ATOM     59  O   ILE    15      15.157  16.172  -1.144  1.00  9.99
ATOM     60  CB  ILE    15      14.087  19.015  -2.311  1.00  9.99
ATOM     61  N   GLU    16      14.560  16.009  -3.296  1.00  9.99
ATOM     62  CA  GLU    16      14.296  14.568  -3.241  1.00  9.99
ATOM     63  C   GLU    16      15.554  13.812  -2.825  1.00  9.99
ATOM     64  O   GLU    16      15.510  12.942  -1.967  1.00  9.99
ATOM     65  CB  GLU    16      13.943  14.028  -4.619  1.00  9.99
ATOM     66  N   ILE    17      16.667  14.111  -3.485  1.00  9.99
ATOM     67  CA  ILE    17      17.922  13.421  -3.202  1.00  9.99
ATOM     68  C   ILE    17      18.401  13.730  -1.787  1.00  9.99
ATOM     69  O   ILE    17      18.907  12.857  -1.101  1.00  9.99
ATOM     70  CB  ILE    17      18.993  13.844  -4.196  1.00  9.99
ATOM     71  N   ALA    18      18.208  14.974  -1.343  1.00  9.99
ATOM     72  CA  ALA    18      18.709  15.404  -0.041  1.00  9.99
ATOM     73  C   ALA    18      17.921  14.756   1.068  1.00  9.99
ATOM     74  O   ALA    18      18.503  14.358   2.044  1.00  9.99
ATOM     75  CB  ALA    18      18.655  16.928   0.106  1.00  9.99
ATOM     76  N   TYR    19      16.600  14.674   0.921  1.00  9.99
ATOM     77  CA  TYR    19      15.739  14.119   1.948  1.00  9.99
ATOM     78  C   TYR    19      15.985  12.607   2.105  1.00  9.99
ATOM     79  O   TYR    19      15.990  12.070   3.210  1.00  9.99
ATOM     80  CB  TYR    19      14.253  14.373   1.588  1.00  9.99
ATOM     81  N   ALA    20      16.158  11.919   0.991  1.00  9.99
ATOM     82  CA  ALA    20      16.479  10.490   1.038  1.00  9.99
ATOM     83  C   ALA    20      17.830  10.268   1.700  1.00  9.99
ATOM     84  O   ALA    20      17.977   9.364   2.502  1.00  9.99
ATOM     85  CB  ALA    20      16.428   9.863  -0.352  1.00  9.99
ATOM     86  N   LEU    27      18.805  11.122   1.407  1.00  9.99
ATOM     87  CA  LEU    27      20.122  10.992   2.022  1.00  9.99
ATOM     88  C   LEU    27      20.110  11.292   3.527  1.00  9.99
ATOM     89  O   LEU    27      20.676  10.538   4.310  1.00  9.99
ATOM     90  CB  LEU    27      21.121  11.886   1.287  1.00  9.99
ATOM     91  N   LYS    28      19.430  12.360   3.942  1.00  9.99
ATOM     92  CA  LYS    28      19.257  12.661   5.352  1.00  9.99
ATOM     93  C   LYS    28      18.577  11.534   6.135  1.00  9.99
ATOM     94  O   LYS    28      19.021  11.189   7.226  1.00  9.99
ATOM     95  CB  LYS    28      18.378  13.903   5.532  1.00  9.99
ATOM     96  N   SER    29      17.448  11.052   5.628  1.00  9.99
ATOM     97  CA  SER    29      16.644  10.018   6.321  1.00  9.99
ATOM     98  C   SER    29      17.426   8.742   6.496  1.00  9.99
ATOM     99  O   SER    29      17.394   8.114   7.563  1.00  9.99
ATOM    100  CB  SER    29      15.431   9.619   5.505  1.00  9.99
ATOM    101  N   PHE    30      18.066   8.311   5.426  1.00  9.99
ATOM    102  CA  PHE    30      18.913   7.129   5.498  1.00  9.99
ATOM    103  C   PHE    30      20.071   7.272   6.462  1.00  9.99
ATOM    104  O   PHE    30      20.396   6.298   7.153  1.00  9.99
ATOM    105  CB  PHE    30      19.439   6.718   4.126  1.00  9.99
ATOM    106  N   GLN    31      20.721   8.438   6.498  1.00  9.99
ATOM    107  CA  GLN    31      21.813   8.647   7.464  1.00  9.99
ATOM    108  C   GLN    31      21.313   8.763   8.905  1.00  9.99
ATOM    109  O   GLN    31      21.993   8.310   9.835  1.00  9.99
ATOM    110  CB  GLN    31      22.664   9.865   7.128  1.00  9.99
ATOM    111  N   VAL    32      20.127   9.337   9.082  1.00  9.99
ATOM    112  CA  VAL    32      19.564   9.547  10.395  1.00  9.99
ATOM    113  C   VAL    32      19.275   8.255  11.179  1.00  9.99
ATOM    114  O   VAL    32      19.471   8.238  12.401  1.00  9.99
ATOM    115  CB  VAL    32      18.331  10.434  10.310  1.00  9.99
ATOM    116  N   ASP    33      18.860   7.173  10.514  1.00  9.99
ATOM    117  CA  ASP    33      18.703   5.882  11.222  1.00  9.99
ATOM    118  C   ASP    33      19.730   4.806  10.831  1.00  9.99
ATOM    119  O   ASP    33      19.512   3.611  11.011  1.00  9.99
ATOM    120  CB  ASP    33      17.263   5.362  11.143  1.00  9.99
ATOM    121  N   GLU    34      20.858   5.257  10.323  1.00  9.99
ATOM    122  CA  GLU    34      21.998   4.387  10.001  1.00  9.99
ATOM    123  C   GLU    34      22.762   3.852  11.203  1.00  9.99
ATOM    124  O   GLU    34      23.541   2.931  11.054  1.00  9.99
ATOM    125  CB  GLU    34      22.983   5.170   9.163  1.00  9.99
ATOM    126  N   GLY    35      22.565   4.429  12.379  1.00  9.99
ATOM    127  CA  GLY    35      23.357   4.076  13.526  1.00  9.99
ATOM    128  C   GLY    35      24.734   4.722  13.533  1.00  9.99
ATOM    129  O   GLY    35      25.566   4.403  14.384  1.00  9.99
ATOM    130  N   ILE    36      24.980   5.632  12.596  1.00  9.99
ATOM    131  CA  ILE    36      26.287   6.257  12.450  1.00  9.99
ATOM    132  C   ILE    36      26.295   7.634  13.095  1.00  9.99
ATOM    133  O   ILE    36      25.324   8.372  12.996  1.00  9.99
ATOM    134  CB  ILE    36      26.627   6.412  10.970  1.00  9.99
ATOM    135  N   THR    37      27.404   8.019  13.724  1.00  9.99
ATOM    136  CA  THR    37      27.572   9.415  14.144  1.00  9.99
ATOM    137  C   THR    37      27.951  10.255  12.938  1.00  9.99
ATOM    138  O   THR    37      28.301   9.721  11.911  1.00  9.99
ATOM    139  CB  THR    37      28.690   9.568  15.166  1.00  9.99
ATOM    140  N   VAL    38      27.912  11.573  13.067  1.00  9.99
ATOM    141  CA  VAL    38      28.320  12.433  11.967  1.00  9.99
ATOM    142  C   VAL    38      29.773  12.142  11.563  1.00  9.99
ATOM    143  O   VAL    38      30.054  12.067  10.377  1.00  9.99
ATOM    144  CB  VAL    38      28.070  13.914  12.262  1.00  9.99
ATOM    145  N   GLN    39      30.664  11.918  12.527  1.00  9.99
ATOM    146  CA  GLN    39      32.025  11.479  12.211  1.00  9.99
ATOM    147  C   GLN    39      32.103  10.187  11.354  1.00  9.99
ATOM    148  O   GLN    39      32.819  10.118  10.341  1.00  9.99
ATOM    149  CB  GLN    39      32.822  11.285  13.497  1.00  9.99
ATOM    150  N   THR    40      31.371   9.159  11.772  1.00  9.99
ATOM    151  CA  THR    40      31.388   7.865  11.071  1.00  9.99
ATOM    152  C   THR    40      30.679   7.989   9.735  1.00  9.99
ATOM    153  O   THR    40      31.068   7.346   8.754  1.00  9.99
ATOM    154  CB  THR    40      30.731   6.778  11.924  1.00  9.99
ATOM    155  N   ALA    41      29.647   8.831   9.684  1.00  9.99
ATOM    156  CA  ALA    41      28.991   9.138   8.438  1.00  9.99
ATOM    157  C   ALA    41      29.957   9.763   7.423  1.00  9.99
ATOM    158  O   ALA    41      29.937   9.403   6.257  1.00  9.99
ATOM    159  CB  ALA    41      27.817  10.071   8.681  1.00  9.99
ATOM    160  N   ILE    42      30.781  10.698   7.875  1.00  9.99
ATOM    161  CA  ILE    42      31.741  11.364   7.009  1.00  9.99
ATOM    162  C   ILE    42      32.771  10.357   6.511  1.00  9.99
ATOM    163  O   ILE    42      33.200  10.414   5.351  1.00  9.99
ATOM    164  CB  ILE    42      32.430  12.468   7.768  1.00  9.99
ATOM    165  N   THR    43      33.164   9.439   7.393  1.00  9.99
ATOM    166  CA  THR    43      34.122   8.384   7.047  1.00  9.99
ATOM    167  C   THR    43      33.584   7.477   5.956  1.00  9.99
ATOM    168  O   THR    43      34.311   7.124   5.049  1.00  9.99
ATOM    169  CB  THR    43      34.462   7.517   8.246  1.00  9.99
ATOM    170  N   GLN    44      32.318   7.087   6.084  1.00  9.99
ATOM    171  CA  GLN    44      31.646   6.241   5.089  1.00  9.99
ATOM    172  C   GLN    44      31.487   6.937   3.747  1.00  9.99
ATOM    173  O   GLN    44      31.765   6.345   2.728  1.00  9.99
ATOM    174  CB  GLN    44      30.274   5.754   5.591  1.00  9.99
ATOM    175  N   SER    45      31.055   8.192   3.749  1.00  9.99
ATOM    176  CA  SER    45      30.883   8.953   2.528  1.00  9.99
ATOM    177  C   SER    45      32.188   9.500   1.946  1.00  9.99
ATOM    178  O   SER    45      32.201   9.977   0.828  1.00  9.99
ATOM    179  CB  SER    45      29.962  10.151   2.788  1.00  9.99
ATOM    180  N   GLY    46      33.267   9.486   2.714  1.00  9.99
ATOM    181  CA  GLY    46      34.530  10.058   2.253  1.00  9.99
ATOM    182  C   GLY    46      34.469  11.560   2.078  1.00  9.99
ATOM    183  O   GLY    46      35.069  12.118   1.148  1.00  9.99
ATOM    184  N   ILE    47      33.734  12.229   2.962  1.00  9.99
ATOM    185  CA  ILE    47      33.695  13.700   2.990  1.00  9.99
ATOM    186  C   ILE    47      34.085  14.200   4.374  1.00  9.99
ATOM    187  O   ILE    47      34.328  13.416   5.267  1.00  9.99
ATOM    188  CB  ILE    47      32.285  14.229   2.614  1.00  9.99
ATOM    189  N   SER    49      34.137  15.512   4.559  1.00  9.99
ATOM    190  CA  SER    49      34.506  16.072   5.843  1.00  9.99
ATOM    191  C   SER    49      33.307  16.159   6.761  1.00  9.99
ATOM    192  O   SER    49      32.154  16.147   6.317  1.00  9.99
ATOM    193  CB  SER    49      35.081  17.481   5.693  1.00  9.99
ATOM    194  N   GLN    50      33.567  16.243   8.056  1.00  9.99
ATOM    195  CA  GLN    50      32.482  16.391   9.021  1.00  9.99
ATOM    196  C   GLN    50      31.666  17.685   8.804  1.00  9.99
ATOM    197  O   GLN    50      30.463  17.665   8.941  1.00  9.99
ATOM    198  CB  GLN    50      33.039  16.367  10.433  1.00  9.99
ATOM    199  N   PRO    52      32.328  18.831   8.515  1.00  9.99
ATOM    200  CA  PRO    52      31.531  20.016   8.156  1.00  9.99
ATOM    201  C   PRO    52      30.603  19.807   6.946  1.00  9.99
ATOM    202  O   PRO    52      29.531  20.395   6.890  1.00  9.99
ATOM    203  CB  PRO    52      32.593  21.087   7.853  1.00  9.99
ATOM    204  N   GLU    53      30.985  18.953   6.009  1.00  9.99
ATOM    205  CA  GLU    53      30.103  18.624   4.892  1.00  9.99
ATOM    206  C   GLU    53      28.874  17.822   5.349  1.00  9.99
ATOM    207  O   GLU    53      27.744  18.124   4.968  1.00  9.99
ATOM    208  CB  GLU    53      30.885  17.844   3.838  1.00  9.99
ATOM    209  N   ILE    54      29.092  16.795   6.168  1.00  9.99
ATOM    210  CA  ILE    54      27.961  16.112   6.820  1.00  9.99
ATOM    211  C   ILE    54      27.049  17.055   7.638  1.00  9.99
ATOM    212  O   ILE    54      25.818  16.963   7.553  1.00  9.99
ATOM    213  CB  ILE    54      28.436  14.932   7.672  1.00  9.99
ATOM    214  N   ASP    55      26.476  20.260   7.213  1.00  9.99
ATOM    215  CA  ASP    55      25.714  21.068   6.254  1.00  9.99
ATOM    216  C   ASP    55      24.564  20.258   5.646  1.00  9.99
ATOM    217  O   ASP    55      23.493  20.802   5.434  1.00  9.99
ATOM    218  CB  ASP    55      26.632  21.579   5.123  1.00  9.99
ATOM    219  N   LEU    56      24.807  18.978   5.343  1.00  9.99
ATOM    220  CA  LEU    56      23.789  18.114   4.787  1.00  9.99
ATOM    221  C   LEU    56      22.656  17.930   5.789  1.00  9.99
ATOM    222  O   LEU    56      21.464  18.085   5.449  1.00  9.99
ATOM    223  CB  LEU    56      24.392  16.736   4.418  1.00  9.99
TER
END
