
#######################################################
#                                                     #
#                        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   42 (  208),  selected   42 , name T0381TS102_5-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS102_5-D1.T0381_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V      17      -       -           -
LGA    Q      18      -       -           -
LGA    S      19      -       -           -
LGA    L      20      -       -           -
LGA    A      21      -       -           -
LGA    R      22      V      17           #
LGA    G      23      Q      18          2.944
LGA    L      24      S      19          3.755
LGA    A      25      L      20          3.021
LGA    V      26      A      21          5.426
LGA    I      27      R      22          2.330
LGA    L      39      G      23          3.291
LGA    -       -      L      24           -
LGA    -       -      A      25           -
LGA    V      42      V      26          2.005
LGA    A      43      I      27          3.046
LGA    -       -      R      28           -
LGA    -       -      C      29           -
LGA    R      44      F      30          2.284
LGA    A      45      D      31          1.660
LGA    T      46      H      32          3.621
LGA    D      47      R      33          3.007
LGA    L      48      N      34          1.062
LGA    T      49      Q      35          4.021
LGA    R      50      R      36          3.093
LGA    A      51      R      37          4.449
LGA    T      52      -       -           -
LGA    A      53      T      38          4.712
LGA    R      54      L      39          3.456
LGA    R      55      S      40          2.861
LGA    F      56      D      41          3.181
LGA    L      57      V      42          2.958
LGA    L      58      A      43          3.906
LGA    T      59      R      44          4.310
LGA    -       -      A      45           -
LGA    -       -      T      46           -
LGA    -       -      D      47           -
LGA    L      60      L      48          2.492
LGA    V      61      T      49          4.134
LGA    -       -      R      50           -
LGA    E      62      A      51          2.591
LGA    L      63      T      52          3.667
LGA    G      64      A      53           -
LGA    Y      65      R      54           -
LGA    A      72      R      55          3.654
LGA    F      73      F      56          1.129
LGA    W      74      L      57          3.265
LGA    L      75      L      58           #
LGA    -       -      T      59           -
LGA    -       -      L      60           -
LGA    -       -      V      61           -
LGA    -       -      E      62           -
LGA    -       -      L      63           -
LGA    -       -      G      64           -
LGA    -       -      Y      65           -
LGA    -       -      V      66           -
LGA    -       -      A      67           -
LGA    -       -      T      68           -
LGA    -       -      D      69           -
LGA    -       -      G      70           -
LGA    -       -      S      71           -
LGA    -       -      A      72           -
LGA    T      76      F      73           #
LGA    P      77      W      74          3.214
LGA    -       -      L      75           -
LGA    -       -      T      76           -
LGA    -       -      P      77           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   42   61    5.0     31    3.32    12.90     28.280     0.906

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.099019 * X  +  -0.727518 * Y  +   0.678906 * Z  +  41.471436
  Y_new =   0.396883 * X  +  -0.654518 * Y  +  -0.643498 * Z  +  66.183609
  Z_new =   0.912512 * X  +   0.205728 * Y  +   0.353549 * Z  +  31.431667 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.527000   -2.614593  [ DEG:    30.1949   -149.8051 ]
  Theta =  -1.149385   -1.992208  [ DEG:   -65.8549   -114.1451 ]
  Phi   =   1.815295   -1.326297  [ DEG:   104.0088    -75.9912 ]
 
# 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: T0381TS102_5-D1                               
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS102_5-D1.T0381_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   42   61   5.0   31   3.32   12.90  28.280
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS102_5-D1
PFRMAT TS
TARGET T0381
MODEL 5
PARENT 2f6u_A
ATOM     71  N   VAL    17      -2.464  56.412  25.601  1.00  1.00
ATOM     72  CA  VAL    17      -1.483  57.486  25.588  1.00  1.00
ATOM     73  C   VAL    17      -1.529  58.325  26.861  1.00  1.00
ATOM     74  O   VAL    17      -0.490  58.672  27.419  1.00  1.00
ATOM     75  CB  VAL    17      -1.664  58.380  24.348  1.00  1.00
ATOM     76  N   GLN    18      -2.729  58.648  27.331  1.00  1.00
ATOM     77  CA  GLN    18      -2.866  59.429  28.550  1.00  1.00
ATOM     78  C   GLN    18      -2.292  58.646  29.739  1.00  1.00
ATOM     79  O   GLN    18      -1.559  59.200  30.560  1.00  1.00
ATOM     80  CB  GLN    18      -4.350  59.748  28.782  1.00  1.00
ATOM     81  N   SER    19      -2.614  57.356  29.814  1.00  1.00
ATOM     82  CA  SER    19      -2.120  56.524  30.909  1.00  1.00
ATOM     83  C   SER    19      -0.593  56.454  30.891  1.00  1.00
ATOM     84  O   SER    19       0.052  56.510  31.939  1.00  1.00
ATOM     85  CB  SER    19      -2.719  55.125  30.824  1.00  1.00
ATOM     86  N   LEU    20      -0.016  56.329  29.700  1.00  1.00
ATOM     87  CA  LEU    20       1.442  56.272  29.572  1.00  1.00
ATOM     88  C   LEU    20       2.042  57.606  30.008  1.00  1.00
ATOM     89  O   LEU    20       3.005  57.662  30.779  1.00  1.00
ATOM     90  CB  LEU    20       1.849  55.965  28.104  1.00  1.00
ATOM     91  N   ALA    21       1.454  58.696  29.535  1.00  1.00
ATOM     92  CA  ALA    21       1.968  60.011  29.869  1.00  1.00
ATOM     93  C   ALA    21       2.015  60.302  31.364  1.00  1.00
ATOM     94  O   ALA    21       2.951  60.942  31.844  1.00  1.00
ATOM     95  CB  ALA    21       1.134  61.081  29.151  1.00  1.00
ATOM     96  N   ARG    22       2.077  57.915  33.744  1.00  1.00
ATOM     97  CA  ARG    22       2.564  56.737  34.466  1.00  1.00
ATOM     98  C   ARG    22       3.814  56.884  35.311  1.00  1.00
ATOM     99  O   ARG    22       3.998  56.135  36.273  1.00  1.00
ATOM    100  CB  ARG    22       2.824  55.596  33.481  1.00  1.00
ATOM    101  N   GLY    23       4.663  57.824  34.936  1.00  1.00
ATOM    102  CA  GLY    23       5.927  57.995  35.624  1.00  1.00
ATOM    103  C   GLY    23       7.033  57.423  34.744  1.00  1.00
ATOM    104  O   GLY    23       8.202  57.471  35.128  1.00  1.00
ATOM    105  N   LEU    24       6.677  56.873  33.581  1.00  1.00
ATOM    106  CA  LEU    24       7.689  56.335  32.660  1.00  1.00
ATOM    107  C   LEU    24       8.585  57.517  32.258  1.00  1.00
ATOM    108  O   LEU    24       8.160  58.679  32.272  1.00  1.00
ATOM    109  CB  LEU    24       7.022  55.689  31.404  1.00  1.00
ATOM    110  N   ALA    25       9.838  57.232  31.928  1.00  1.00
ATOM    111  CA  ALA    25      10.758  58.308  31.587  1.00  1.00
ATOM    112  C   ALA    25      10.742  58.806  30.163  1.00  1.00
ATOM    113  O   ALA    25      11.201  59.924  29.895  1.00  1.00
ATOM    114  CB  ALA    25      12.185  57.885  31.937  1.00  1.00
ATOM    115  N   VAL    26      10.252  57.984  29.244  1.00  1.00
ATOM    116  CA  VAL    26      10.223  58.370  27.849  1.00  1.00
ATOM    117  C   VAL    26       9.360  57.403  27.071  1.00  1.00
ATOM    118  O   VAL    26       9.026  56.314  27.555  1.00  1.00
ATOM    119  CB  VAL    26      11.650  58.357  27.274  1.00  1.00
ATOM    120  N   ILE    27       8.999  57.810  25.863  1.00  1.00
ATOM    121  CA  ILE    27       8.226  56.961  24.979  1.00  1.00
ATOM    122  C   ILE    27       9.090  56.695  23.773  1.00  1.00
ATOM    123  O   ILE    27       9.675  57.620  23.205  1.00  1.00
ATOM    124  CB  ILE    27       6.911  57.637  24.538  1.00  1.00
ATOM    125  N   LEU    39       9.194  55.427  23.399  1.00  1.00
ATOM    126  CA  LEU    39       9.995  55.055  22.251  1.00  1.00
ATOM    127  C   LEU    39       9.068  54.498  21.190  1.00  1.00
ATOM    128  O   LEU    39       8.298  53.573  21.441  1.00  1.00
ATOM    129  CB  LEU    39      11.062  54.029  22.651  1.00  1.00
ATOM    130  N   VAL    42       9.118  55.112  20.014  1.00  1.00
ATOM    131  CA  VAL    42       8.281  54.704  18.894  1.00  1.00
ATOM    132  C   VAL    42       9.136  53.710  18.134  1.00  1.00
ATOM    133  O   VAL    42      10.173  54.063  17.555  1.00  1.00
ATOM    134  CB  VAL    42       7.933  55.920  18.017  1.00  1.00
ATOM    135  N   ALA    43       8.695  52.465  18.150  1.00  1.00
ATOM    136  CA  ALA    43       9.450  51.405  17.524  1.00  1.00
ATOM    137  C   ALA    43       8.542  50.251  17.137  1.00  1.00
ATOM    138  O   ALA    43       7.588  49.937  17.846  1.00  1.00
ATOM    139  CB  ALA    43      10.518  50.935  18.517  1.00  1.00
ATOM    140  N   ARG    44       8.848  49.629  16.004  1.00  1.00
ATOM    141  CA  ARG    44       8.055  48.508  15.539  1.00  1.00
ATOM    142  C   ARG    44       8.895  47.558  14.709  1.00  1.00
ATOM    143  O   ARG    44      10.062  47.307  15.024  1.00  1.00
ATOM    144  CB  ARG    44       6.921  49.052  14.653  1.00  1.00
ATOM    145  N   ALA    45       8.298  47.024  13.650  1.00  1.00
ATOM    146  CA  ALA    45       8.989  46.100  12.759  1.00  1.00
ATOM    147  C   ALA    45       9.464  46.864  11.526  1.00  1.00
ATOM    148  O   ALA    45       9.239  48.068  11.413  1.00  1.00
ATOM    149  CB  ALA    45       8.049  44.967  12.299  1.00  1.00
ATOM    150  N   THR    46      10.121  46.167  10.604  1.00  1.00
ATOM    151  CA  THR    46      10.591  46.812   9.382  1.00  1.00
ATOM    152  C   THR    46       9.367  47.150   8.531  1.00  1.00
ATOM    153  O   THR    46       9.461  47.874   7.540  1.00  1.00
ATOM    154  CB  THR    46      11.513  45.874   8.599  1.00  1.00
ATOM    155  N   ASP    47       8.218  46.623   8.938  1.00  1.00
ATOM    156  CA  ASP    47       6.964  46.846   8.226  1.00  1.00
ATOM    157  C   ASP    47       6.355  48.215   8.541  1.00  1.00
ATOM    158  O   ASP    47       5.410  48.646   7.879  1.00  1.00
ATOM    159  CB  ASP    47       5.964  45.738   8.588  1.00  1.00
ATOM    160  N   LEU    48       6.895  48.903   9.545  1.00  1.00
ATOM    161  CA  LEU    48       6.373  50.216   9.917  1.00  1.00
ATOM    162  C   LEU    48       6.656  51.276   8.858  1.00  1.00
ATOM    163  O   LEU    48       7.769  51.370   8.334  1.00  1.00
ATOM    164  CB  LEU    48       6.951  50.701  11.273  1.00  1.00
ATOM    165  N   THR    49       5.637  52.073   8.549  1.00  1.00
ATOM    166  CA  THR    49       5.752  53.137   7.557  1.00  1.00
ATOM    167  C   THR    49       5.963  54.493   8.226  1.00  1.00
ATOM    168  O   THR    49       5.624  54.676   9.395  1.00  1.00
ATOM    169  CB  THR    49       4.481  53.232   6.699  1.00  1.00
ATOM    170  N   ARG    50       6.514  55.441   7.475  1.00  1.00
ATOM    171  CA  ARG    50       6.761  56.783   7.989  1.00  1.00
ATOM    172  C   ARG    50       5.483  57.453   8.486  1.00  1.00
ATOM    173  O   ARG    50       5.480  58.088   9.541  1.00  1.00
ATOM    174  CB  ARG    50       7.395  57.670   6.909  1.00  1.00
ATOM    175  N   ALA    51       4.399  57.320   7.727  1.00  1.00
ATOM    176  CA  ALA    51       3.147  57.951   8.123  1.00  1.00
ATOM    177  C   ALA    51       2.597  57.389   9.429  1.00  1.00
ATOM    178  O   ALA    51       2.125  58.142  10.278  1.00  1.00
ATOM    179  CB  ALA    51       2.092  57.816   7.026  1.00  1.00
ATOM    180  N   THR    52       2.648  56.072   9.592  1.00  1.00
ATOM    181  CA  THR    52       2.154  55.471  10.824  1.00  1.00
ATOM    182  C   THR    52       2.992  55.961  12.000  1.00  1.00
ATOM    183  O   THR    52       2.464  56.279  13.065  1.00  1.00
ATOM    184  CB  THR    52       2.205  53.943  10.750  1.00  1.00
ATOM    185  N   ALA    53       4.302  56.035  11.795  1.00  1.00
ATOM    186  CA  ALA    53       5.199  56.503  12.846  1.00  1.00
ATOM    187  C   ALA    53       4.925  57.975  13.130  1.00  1.00
ATOM    188  O   ALA    53       4.841  58.393  14.281  1.00  1.00
ATOM    189  CB  ALA    53       6.655  56.312  12.419  1.00  1.00
ATOM    190  N   ARG    54       4.776  58.751  12.062  1.00  1.00
ATOM    191  CA  ARG    54       4.510  60.182  12.168  1.00  1.00
ATOM    192  C   ARG    54       3.240  60.466  12.963  1.00  1.00
ATOM    193  O   ARG    54       3.199  61.377  13.787  1.00  1.00
ATOM    194  CB  ARG    54       4.375  60.783  10.766  1.00  1.00
ATOM    195  N   ARG    55       2.198  59.681  12.708  1.00  1.00
ATOM    196  CA  ARG    55       0.925  59.867  13.395  1.00  1.00
ATOM    197  C   ARG    55       1.000  59.569  14.889  1.00  1.00
ATOM    198  O   ARG    55       0.408  60.285  15.705  1.00  1.00
ATOM    199  CB  ARG    55      -0.164  58.988  12.755  1.00  1.00
ATOM    200  N   PHE    56       1.721  58.513  15.250  1.00  1.00
ATOM    201  CA  PHE    56       1.855  58.157  16.659  1.00  1.00
ATOM    202  C   PHE    56       2.650  59.245  17.380  1.00  1.00
ATOM    203  O   PHE    56       2.313  59.641  18.491  1.00  1.00
ATOM    204  CB  PHE    56       2.546  56.798  16.799  1.00  1.00
ATOM    205  N   LEU    57       3.697  59.745  16.732  1.00  1.00
ATOM    206  CA  LEU    57       4.518  60.792  17.333  1.00  1.00
ATOM    207  C   LEU    57       3.676  62.017  17.640  1.00  1.00
ATOM    208  O   LEU    57       3.822  62.636  18.690  1.00  1.00
ATOM    209  CB  LEU    57       5.685  61.175  16.400  1.00  1.00
ATOM    210  N   LEU    58       2.783  62.369  16.718  1.00  1.00
ATOM    211  CA  LEU    58       1.919  63.520  16.932  1.00  1.00
ATOM    212  C   LEU    58       1.043  63.298  18.162  1.00  1.00
ATOM    213  O   LEU    58       0.832  64.212  18.960  1.00  1.00
ATOM    214  CB  LEU    58       1.013  63.750  15.724  1.00  1.00
ATOM    215  N   THR    59       0.542  62.078  18.319  1.00  1.00
ATOM    216  CA  THR    59      -0.323  61.776  19.454  1.00  1.00
ATOM    217  C   THR    59       0.344  61.937  20.819  1.00  1.00
ATOM    218  O   THR    59      -0.330  62.256  21.793  1.00  1.00
ATOM    219  CB  THR    59      -0.898  60.359  19.338  1.00  1.00
ATOM    220  N   LEU    60       1.659  61.725  20.891  1.00  1.00
ATOM    221  CA  LEU    60       2.387  61.823  22.161  1.00  1.00
ATOM    222  C   LEU    60       3.207  63.089  22.330  1.00  1.00
ATOM    223  O   LEU    60       3.610  63.432  23.441  1.00  1.00
ATOM    224  CB  LEU    60       3.372  60.626  22.348  1.00  1.00
ATOM    225  N   VAL    61       3.438  63.779  21.218  1.00  1.00
ATOM    226  CA  VAL    61       4.247  64.994  21.182  1.00  1.00
ATOM    227  C   VAL    61       3.924  66.125  22.156  1.00  1.00
ATOM    228  O   VAL    61       4.804  66.911  22.497  1.00  1.00
ATOM    229  CB  VAL    61       4.234  65.566  19.760  1.00  1.00
ATOM    230  N   GLU    62       2.677  66.214  22.606  1.00  1.00
ATOM    231  CA  GLU    62       2.282  67.304  23.491  1.00  1.00
ATOM    232  C   GLU    62       2.198  66.967  24.971  1.00  1.00
ATOM    233  O   GLU    62       1.976  67.851  25.806  1.00  1.00
ATOM    234  CB  GLU    62       0.938  67.869  23.003  1.00  1.00
ATOM    235  N   LEU    63       2.388  65.695  25.302  1.00  1.00
ATOM    236  CA  LEU    63       2.311  65.271  26.691  1.00  1.00
ATOM    237  C   LEU    63       3.546  65.556  27.549  1.00  1.00
ATOM    238  O   LEU    63       3.547  65.278  28.747  1.00  1.00
ATOM    239  CB  LEU    63       1.947  63.787  26.763  1.00  1.00
ATOM    240  N   GLY    64       4.596  66.098  26.942  1.00  1.00
ATOM    241  CA  GLY    64       5.786  66.431  27.709  1.00  1.00
ATOM    242  C   GLY    64       6.853  65.368  27.917  1.00  1.00
ATOM    243  O   GLY    64       7.931  65.681  28.422  1.00  1.00
ATOM    244  N   TYR    65       6.571  64.122  27.561  1.00  1.00
ATOM    245  CA  TYR    65       7.562  63.066  27.732  1.00  1.00
ATOM    246  C   TYR    65       8.558  63.059  26.585  1.00  1.00
ATOM    247  O   TYR    65       8.203  63.343  25.441  1.00  1.00
ATOM    248  CB  TYR    65       6.900  61.684  27.772  1.00  1.00
ATOM    249  N   ALA    72       9.834  62.759  26.883  1.00  1.00
ATOM    250  CA  ALA    72      10.844  62.708  25.827  1.00  1.00
ATOM    251  C   ALA    72      10.397  61.647  24.824  1.00  1.00
ATOM    252  O   ALA    72       9.885  60.597  25.216  1.00  1.00
ATOM    253  CB  ALA    72      12.092  62.255  26.575  1.00  1.00
ATOM    254  N   PHE    73      10.582  61.924  23.539  1.00  1.00
ATOM    255  CA  PHE    73      10.189  60.983  22.500  1.00  1.00
ATOM    256  C   PHE    73      11.411  60.484  21.745  1.00  1.00
ATOM    257  O   PHE    73      12.209  61.272  21.223  1.00  1.00
ATOM    258  CB  PHE    73       9.236  61.627  21.480  1.00  1.00
ATOM    259  N   TRP    74      11.536  59.165  21.684  1.00  1.00
ATOM    260  CA  TRP    74      12.639  58.515  20.998  1.00  1.00
ATOM    261  C   TRP    74      12.095  57.714  19.831  1.00  1.00
ATOM    262  O   TRP    74      11.063  57.052  19.948  1.00  1.00
ATOM    263  CB  TRP    74      13.337  57.505  21.930  1.00  1.00
ATOM    264  N   LEU    75      12.766  57.786  18.688  1.00  1.00
ATOM    265  CA  LEU    75      12.364  56.961  17.568  1.00  1.00
ATOM    266  C   LEU    75      13.492  55.959  17.404  1.00  1.00
ATOM    267  O   LEU    75      14.668  56.321  17.456  1.00  1.00
ATOM    268  CB  LEU    75      12.210  57.744  16.255  1.00  1.00
ATOM    269  N   THR    76      13.127  54.700  17.230  1.00  1.00
ATOM    270  CA  THR    76      14.107  53.644  17.046  1.00  1.00
ATOM    271  C   THR    76      13.799  52.999  15.703  1.00  1.00
ATOM    272  O   THR    76      12.969  52.089  15.614  1.00  1.00
ATOM    273  CB  THR    76      13.983  52.615  18.170  1.00  1.00
ATOM    274  N   PRO    77      14.474  53.464  14.638  1.00  1.00
ATOM    275  CA  PRO    77      14.289  52.960  13.276  1.00  1.00
ATOM    276  C   PRO    77      14.607  51.483  13.116  1.00  1.00
ATOM    277  O   PRO    77      15.516  50.956  13.753  1.00  1.00
ATOM    278  CB  PRO    77      15.214  53.855  12.453  1.00  1.00
TER
END
