
#######################################################
#                                                     #
#                        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 (  179),  selected   36 , name T0363TS239_2-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS239_2-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11           -
LGA    Q      12      Q      12           -
LGA    I      13      I      13           #
LGA    N      14      N      14           #
LGA    I      15      I      15          3.986
LGA    E      16      E      16          3.946
LGA    I      17      I      17          3.903
LGA    A      18      A      18           #
LGA    Y      19      -       -           -
LGA    A      20      -       -           -
LGA    F      21      -       -           -
LGA    R      24      Y      19          1.185
LGA    Y      25      A      20          2.295
LGA    Y      26      F      21           -
LGA    L      27      P      22           -
LGA    K      28      E      23           -
LGA    S      29      R      24           -
LGA    F      30      Y      25           -
LGA    Q      31      Y      26           -
LGA    V      32      L      27           -
LGA    D      33      K      28           -
LGA    E      34      S      29           -
LGA    G      35      F      30           -
LGA    I      36      Q      31           -
LGA    -       -      V      32           -
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    T      37      T      37          2.932
LGA    V      38      V      38          1.129
LGA    -       -      Q      39           -
LGA    -       -      T      40           -
LGA    I      47      A      41          1.111
LGA    L      48      I      42          2.552
LGA    -       -      T      43           -
LGA    -       -      Q      44           -
LGA    S      49      S      45          2.289
LGA    Q      50      G      46          4.815
LGA    F      51      I      47           #
LGA    -       -      L      48           -
LGA    -       -      S      49           -
LGA    P      52      Q      50          3.134
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    E      53      E      53          4.460
LGA    I      54      I      54          4.229
LGA    D      55      D      55          2.847
LGA    L      56      L      56          1.304

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   46    5.0     16    3.13    62.50     23.169     0.495

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.072930 * X  +  -0.996780 * Y  +  -0.033340 * Z  +  54.909302
  Y_new =  -0.687800 * X  +   0.026060 * Y  +   0.725432 * Z  +  -5.126095
  Z_new =  -0.722227 * X  +   0.075837 * Y  +  -0.687486 * Z  +  54.207664 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.031727   -0.109866  [ DEG:   173.7052     -6.2949 ]
  Theta =   0.807017    2.334575  [ DEG:    46.2387    133.7613 ]
  Phi   =  -1.676435    1.465158  [ DEG:   -96.0527     83.9473 ]
 
# 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_2-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS239_2-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   46   5.0   16   3.13   62.50  23.169
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS239_2-D1
PFRMAT TS
TARGET T0363
MODEL 2
PARENT 2f5t_X
ATOM     51  N   ASN    11      22.971  11.008  19.624  1.00  9.99
ATOM     52  CA  ASN    11      23.908   9.889  19.390  1.00  9.99
ATOM     53  C   ASN    11      24.586   9.980  18.038  1.00  9.99
ATOM     54  O   ASN    11      25.812  10.099  17.985  1.00  9.99
ATOM     55  CB  ASN    11      23.220   8.513  19.554  1.00  9.99
ATOM     56  N   GLN    12      23.793   9.983  16.954  1.00  9.99
ATOM     57  CA  GLN    12      24.423   9.980  15.641  1.00  9.99
ATOM     58  C   GLN    12      23.460  10.573  14.627  1.00  9.99
ATOM     59  O   GLN    12      22.251  10.397  14.736  1.00  9.99
ATOM     60  CB  GLN    12      24.721   8.509  15.223  1.00  9.99
ATOM     61  N   ILE    13      24.031  11.241  13.648  1.00  9.99
ATOM     62  CA  ILE    13      23.275  11.659  12.476  1.00  9.99
ATOM     63  C   ILE    13      23.940  11.029  11.264  1.00  9.99
ATOM     64  O   ILE    13      25.168  11.070  11.146  1.00  9.99
ATOM     65  CB  ILE    13      23.185  13.200  12.323  1.00  9.99
ATOM     66  N   ASN    14      23.116  10.467  10.383  1.00  9.99
ATOM     67  CA  ASN    14      23.611   9.974   9.094  1.00  9.99
ATOM     68  C   ASN    14      23.178  11.021   8.097  1.00  9.99
ATOM     69  O   ASN    14      21.987  11.404   8.058  1.00  9.99
ATOM     70  CB  ASN    14      22.994   8.615   8.685  1.00  9.99
ATOM     71  N   ILE    15      24.133  11.501   7.298  1.00  9.99
ATOM     72  CA  ILE    15      23.820  12.536   6.295  1.00  9.99
ATOM     73  C   ILE    15      24.286  11.975   4.955  1.00  9.99
ATOM     74  O   ILE    15      25.451  11.579   4.840  1.00  9.99
ATOM     75  CB  ILE    15      24.546  13.874   6.630  1.00  9.99
ATOM     76  N   GLU    16      23.393  11.977   3.972  1.00  9.99
ATOM     77  CA  GLU    16      23.780  11.632   2.594  1.00  9.99
ATOM     78  C   GLU    16      23.570  12.919   1.807  1.00  9.99
ATOM     79  O   GLU    16      22.445  13.458   1.782  1.00  9.99
ATOM     80  CB  GLU    16      22.907  10.483   2.011  1.00  9.99
ATOM     81  N   ILE    17      24.633  13.440   1.196  1.00  9.99
ATOM     82  CA  ILE    17      24.489  14.717   0.501  1.00  9.99
ATOM     83  C   ILE    17      25.216  14.726  -0.839  1.00  9.99
ATOM     84  O   ILE    17      26.311  14.155  -0.968  1.00  9.99
ATOM     85  CB  ILE    17      25.017  15.925   1.354  1.00  9.99
ATOM     86  N   ALA    18      24.620  15.368  -1.848  1.00  9.99
ATOM     87  CA  ALA    18      25.458  15.708  -3.015  1.00  9.99
ATOM     88  C   ALA    18      26.538  16.651  -2.561  1.00  9.99
ATOM     89  O   ALA    18      26.296  17.517  -1.719  1.00  9.99
ATOM     90  CB  ALA    18      24.494  16.474  -3.946  1.00  9.99
ATOM     91  N   TYR    19      27.693  16.565  -3.189  1.00  9.99
ATOM     92  CA  TYR    19      28.791  17.444  -2.800  1.00  9.99
ATOM     93  C   TYR    19      28.491  18.927  -3.035  1.00  9.99
ATOM     94  O   TYR    19      29.078  19.793  -2.349  1.00  9.99
ATOM     95  CB  TYR    19      30.090  17.008  -3.492  1.00  9.99
ATOM     96  N   ALA    20      27.551  19.218  -3.940  1.00  9.99
ATOM     97  CA  ALA    20      27.073  20.581  -4.200  1.00  9.99
ATOM     98  C   ALA    20      26.618  21.278  -2.939  1.00  9.99
ATOM     99  O   ALA    20      26.592  22.503  -2.887  1.00  9.99
ATOM    100  CB  ALA    20      25.874  20.526  -5.175  1.00  9.99
ATOM    101  N   PHE    21      26.177  20.486  -1.979  1.00  9.99
ATOM    102  CA  PHE    21      25.561  21.069  -0.783  1.00  9.99
ATOM    103  C   PHE    21      26.377  20.961   0.471  1.00  9.99
ATOM    104  O   PHE    21      25.908  21.403   1.552  1.00  9.99
ATOM    105  CB  PHE    21      24.155  20.507  -0.529  1.00  9.99
ATOM    106  N   ARG    24      27.600  20.440   0.347  1.00  9.99
ATOM    107  CA  ARG    24      28.431  20.338   1.523  1.00  9.99
ATOM    108  C   ARG    24      28.653  21.709   2.194  1.00  9.99
ATOM    109  O   ARG    24      28.536  21.831   3.437  1.00  9.99
ATOM    110  CB  ARG    24      29.745  19.654   1.217  1.00  9.99
ATOM    111  N   TYR    25      29.030  22.739   1.421  1.00  9.99
ATOM    112  CA  TYR    25      29.273  24.040   2.059  1.00  9.99
ATOM    113  C   TYR    25      28.041  24.604   2.784  1.00  9.99
ATOM    114  O   TYR    25      28.168  25.308   3.813  1.00  9.99
ATOM    115  CB  TYR    25      29.833  25.057   1.060  1.00  9.99
ATOM    116  N   TYR    26      26.848  24.310   2.279  1.00  9.99
ATOM    117  CA  TYR    26      25.602  24.701   2.936  1.00  9.99
ATOM    118  C   TYR    26      25.476  24.116   4.340  1.00  9.99
ATOM    119  O   TYR    26      24.994  24.792   5.262  1.00  9.99
ATOM    120  CB  TYR    26      24.380  24.331   2.059  1.00  9.99
ATOM    121  N   LEU    27      25.942  22.885   4.512  1.00  9.99
ATOM    122  CA  LEU    27      25.758  22.203   5.795  1.00  9.99
ATOM    123  C   LEU    27      27.015  22.022   6.631  1.00  9.99
ATOM    124  O   LEU    27      26.920  21.503   7.757  1.00  9.99
ATOM    125  CB  LEU    27      25.046  20.835   5.573  1.00  9.99
ATOM    126  N   LYS    28      28.155  22.500   6.125  1.00  9.99
ATOM    127  CA  LYS    28      29.428  22.272   6.764  1.00  9.99
ATOM    128  C   LYS    28      29.421  22.687   8.249  1.00  9.99
ATOM    129  O   LYS    28      29.777  21.900   9.128  1.00  9.99
ATOM    130  CB  LYS    28      30.517  23.062   6.021  1.00  9.99
ATOM    131  N   SER    29      28.975  23.904   8.533  1.00  9.99
ATOM    132  CA  SER    29      29.006  24.362   9.917  1.00  9.99
ATOM    133  C   SER    29      28.012  23.629  10.804  1.00  9.99
ATOM    134  O   SER    29      28.256  23.493  12.013  1.00  9.99
ATOM    135  CB  SER    29      28.796  25.877   9.969  1.00  9.99
ATOM    136  N   PHE    30      26.901  23.157  10.226  1.00  9.99
ATOM    137  CA  PHE    30      25.964  22.346  11.002  1.00  9.99
ATOM    138  C   PHE    30      26.466  20.957  11.347  1.00  9.99
ATOM    139  O   PHE    30      26.285  20.504  12.480  1.00  9.99
ATOM    140  CB  PHE    30      24.659  22.116  10.194  1.00  9.99
ATOM    141  N   GLN    31      27.318  19.856  15.286  1.00  9.99
ATOM    142  CA  GLN    31      26.860  18.552  15.735  1.00  9.99
ATOM    143  C   GLN    31      28.005  17.746  16.377  1.00  9.99
ATOM    144  O   GLN    31      27.872  17.201  17.487  1.00  9.99
ATOM    145  CB  GLN    31      26.251  17.765  14.549  1.00  9.99
ATOM    146  N   VAL    32      29.135  17.680  15.682  1.00  9.99
ATOM    147  CA  VAL    32      30.327  16.989  16.212  1.00  9.99
ATOM    148  C   VAL    32      30.759  17.566  17.554  1.00  9.99
ATOM    149  O   VAL    32      31.202  16.817  18.443  1.00  9.99
ATOM    150  CB  VAL    32      31.492  17.137  15.221  1.00  9.99
ATOM    151  N   ASP    33      30.662  18.890  17.668  1.00  9.99
ATOM    152  CA  ASP    33      31.135  19.552  18.909  1.00  9.99
ATOM    153  C   ASP    33      30.283  19.199  20.153  1.00  9.99
ATOM    154  O   ASP    33      30.740  19.367  21.301  1.00  9.99
ATOM    155  CB  ASP    33      31.230  21.064  18.694  1.00  9.99
ATOM    156  N   GLU    34      29.059  18.699  19.950  1.00  9.99
ATOM    157  CA  GLU    34      28.244  18.202  21.068  1.00  9.99
ATOM    158  C   GLU    34      28.599  16.748  21.435  1.00  9.99
ATOM    159  O   GLU    34      28.005  16.196  22.363  1.00  9.99
ATOM    160  CB  GLU    34      26.753  18.263  20.755  1.00  9.99
ATOM    161  N   GLY    35      29.525  16.123  20.696  1.00  9.99
ATOM    162  CA  GLY    35      29.877  14.715  20.977  1.00  9.99
ATOM    163  C   GLY    35      29.045  13.699  20.179  1.00  9.99
ATOM    164  O   GLY    35      29.191  12.477  20.366  1.00  9.99
ATOM    165  N   ILE    36      28.194  14.205  19.283  1.00  9.99
ATOM    166  CA  ILE    36      27.357  13.358  18.424  1.00  9.99
ATOM    167  C   ILE    36      28.172  12.900  17.223  1.00  9.99
ATOM    168  O   ILE    36      28.968  13.677  16.636  1.00  9.99
ATOM    169  CB  ILE    36      26.164  14.194  17.965  1.00  9.99
ATOM    170  N   THR    37      28.023  11.623  16.878  1.00  9.99
ATOM    171  CA  THR    37      28.717  11.126  15.674  1.00  9.99
ATOM    172  C   THR    37      28.075  11.661  14.404  1.00  9.99
ATOM    173  O   THR    37      26.830  11.673  14.313  1.00  9.99
ATOM    174  CB  THR    37      28.698   9.577  15.645  1.00  9.99
ATOM    175  N   VAL    38      28.901  12.081  13.444  1.00  9.99
ATOM    176  CA  VAL    38      28.368  12.388  12.126  1.00  9.99
ATOM    177  C   VAL    38      28.897  11.323  11.176  1.00  9.99
ATOM    178  O   VAL    38      30.129  11.189  11.032  1.00  9.99
ATOM    179  CB  VAL    38      28.745  13.806  11.612  1.00  9.99
ATOM    180  N   ILE    47      27.968  10.628  10.490  1.00  9.99
ATOM    181  CA  ILE    47      28.309   9.629   9.485  1.00  9.99
ATOM    182  C   ILE    47      27.840  10.180   8.151  1.00  9.99
ATOM    183  O   ILE    47      26.638  10.147   7.852  1.00  9.99
ATOM    184  CB  ILE    47      27.645   8.278   9.816  1.00  9.99
ATOM    185  N   LEU    48      28.809  10.684   7.368  1.00  9.99
ATOM    186  CA  LEU    48      28.516  11.389   6.124  1.00  9.99
ATOM    187  C   LEU    48      28.765  10.475   4.917  1.00  9.99
ATOM    188  O   LEU    48      29.801   9.792   4.857  1.00  9.99
ATOM    189  CB  LEU    48      29.488  12.589   6.055  1.00  9.99
ATOM    190  N   SER    49      27.848  10.571   3.959  1.00  9.99
ATOM    191  CA  SER    49      28.019   9.961   2.630  1.00  9.99
ATOM    192  C   SER    49      28.015  11.082   1.608  1.00  9.99
ATOM    193  O   SER    49      27.142  11.955   1.655  1.00  9.99
ATOM    194  CB  SER    49      26.854   9.003   2.302  1.00  9.99
ATOM    195  N   GLN    50      29.001  11.074   0.705  1.00  9.99
ATOM    196  CA  GLN    50      29.153  12.189  -0.228  1.00  9.99
ATOM    197  C   GLN    50      29.866  11.682  -1.505  1.00  9.99
ATOM    198  O   GLN    50      30.631  10.731  -1.424  1.00  9.99
ATOM    199  CB  GLN    50      29.920  13.355   0.458  1.00  9.99
ATOM    200  N   PHE    51      29.576  12.320  -2.664  1.00  9.99
ATOM    201  CA  PHE    51      30.138  11.803  -3.909  1.00  9.99
ATOM    202  C   PHE    51      31.614  12.186  -4.143  1.00  9.99
ATOM    203  O   PHE    51      32.266  11.560  -4.985  1.00  9.99
ATOM    204  CB  PHE    51      29.298  12.262  -5.112  1.00  9.99
ATOM    205  N   PRO    52      32.103  13.207  -3.428  1.00  9.99
ATOM    206  CA  PRO    52      33.482  13.655  -3.544  1.00  9.99
ATOM    207  C   PRO    52      33.880  14.141  -2.164  1.00  9.99
ATOM    208  O   PRO    52      33.115  14.892  -1.530  1.00  9.99
ATOM    209  CB  PRO    52      33.552  14.816  -4.534  1.00  9.99
ATOM    210  N   GLU    53      38.493  18.666   4.445  1.00  9.99
ATOM    211  CA  GLU    53      38.036  18.412   5.813  1.00  9.99
ATOM    212  C   GLU    53      39.018  18.872   6.913  1.00  9.99
ATOM    213  O   GLU    53      38.939  18.381   8.050  1.00  9.99
ATOM    214  CB  GLU    53      37.689  16.928   5.986  1.00  9.99
ATOM    215  N   ILE    54      39.925  19.796   6.563  1.00  9.99
ATOM    216  CA  ILE    54      40.886  20.416   7.495  1.00  9.99
ATOM    217  C   ILE    54      40.216  20.859   8.768  1.00  9.99
ATOM    218  O   ILE    54      40.702  20.567   9.868  1.00  9.99
ATOM    219  CB  ILE    54      41.511  21.652   6.820  1.00  9.99
ATOM    220  N   ASP    55      39.099  21.569   8.611  1.00  9.99
ATOM    221  CA  ASP    55      38.372  22.199   9.708  1.00  9.99
ATOM    222  C   ASP    55      37.876  21.177  10.726  1.00  9.99
ATOM    223  O   ASP    55      37.674  21.518  11.918  1.00  9.99
ATOM    224  CB  ASP    55      37.197  23.001   9.159  1.00  9.99
ATOM    225  N   LEU    56      37.707  19.929  10.279  1.00  9.99
ATOM    226  CA  LEU    56      37.162  18.858  11.143  1.00  9.99
ATOM    227  C   LEU    56      38.141  18.205  12.135  1.00  9.99
ATOM    228  O   LEU    56      37.722  17.472  13.033  1.00  9.99
ATOM    229  CB  LEU    56      36.444  17.815  10.269  1.00  9.99
TER
END
