
#######################################################
#                                                     #
#                        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   24 (  118),  selected   24 , name T0381TS239_5_2-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS239_5_2-D1.T0381_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    R      54      V      17           -
LGA    R      55      Q      18           -
LGA    -       -      S      19           -
LGA    -       -      L      20           -
LGA    -       -      A      21           -
LGA    -       -      R      22           -
LGA    -       -      G      23           -
LGA    -       -      L      24           -
LGA    -       -      A      25           -
LGA    -       -      V      26           -
LGA    -       -      I      27           -
LGA    -       -      R      28           -
LGA    -       -      C      29           -
LGA    -       -      F      30           -
LGA    -       -      D      31           -
LGA    -       -      H      32           -
LGA    -       -      R      33           -
LGA    -       -      N      34           -
LGA    -       -      Q      35           -
LGA    -       -      R      36           -
LGA    -       -      R      37           -
LGA    -       -      T      38           -
LGA    -       -      L      39           -
LGA    -       -      S      40           -
LGA    -       -      D      41           -
LGA    -       -      V      42           -
LGA    -       -      A      43           -
LGA    F      56      R      44          4.376
LGA    -       -      A      45           -
LGA    -       -      T      46           -
LGA    L      57      D      47          0.998
LGA    L      58      L      48          1.270
LGA    T      59      T      49          1.280
LGA    L      60      R      50          2.535
LGA    V      61      A      51          1.397
LGA    E      62      T      52          3.290
LGA    -       -      A      53           -
LGA    L      63      R      54          2.442
LGA    G      64      R      55          3.393
LGA    Y      65      F      56          1.925
LGA    V      66      L      57          1.342
LGA    -       -      L      58           -
LGA    -       -      T      59           -
LGA    A      67      L      60          1.207
LGA    T      68      V      61          2.468
LGA    -       -      E      62           -
LGA    -       -      L      63           -
LGA    D      69      G      64          1.779
LGA    -       -      Y      65           -
LGA    G      70      V      66           #
LGA    S      71      A      67          5.283
LGA    A      72      -       -           -
LGA    F      73      -       -           -
LGA    W      74      T      68          1.864
LGA    L      75      D      69          2.842
LGA    T      76      G      70          3.090
LGA    P      77      S      71          2.838
LGA    -       -      A      72           -
LGA    -       -      F      73           -
LGA    -       -      W      74           -
LGA    -       -      L      75           -
LGA    -       -      T      76           -
LGA    -       -      P      77           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   24   61    5.0     19    2.65    10.53     22.985     0.691

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.160172 * X  +  -0.939342 * Y  +   0.303283 * Z  +   8.463593
  Y_new =   0.420025 * X  +   0.342905 * Y  +   0.840235 * Z  +  56.606449
  Z_new =  -0.893266 * X  +  -0.007196 * Y  +   0.449471 * Z  +  60.107430 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.016008    3.125585  [ DEG:    -0.9172    179.0828 ]
  Theta =   1.104559    2.037034  [ DEG:    63.2866    116.7134 ]
  Phi   =   1.206480   -1.935113  [ DEG:    69.1262   -110.8738 ]
 
# 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: T0381TS239_5_2-D1                             
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS239_5_2-D1.T0381_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   24   61   5.0   19   2.65   10.53  22.985
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS239_5_2-D1
REMARK PARENT number 2
PFRMAT TS
TARGET T0381
PARENT 1f5m_B
ATOM      1  N   ARG    54     -11.451  56.700  23.255  1.00  9.99
ATOM      2  CA  ARG    54     -10.456  56.181  22.263  1.00  9.99
ATOM      3  C   ARG    54      -9.185  57.052  22.126  1.00  9.99
ATOM      4  O   ARG    54      -8.973  57.665  21.079  1.00  9.99
ATOM      5  CB  ARG    54     -11.131  56.043  20.894  1.00  9.99
ATOM      6  N   ARG    55      -8.322  57.065  23.142  1.00  9.99
ATOM      7  CA  ARG    55      -7.111  57.890  23.120  1.00  9.99
ATOM      8  C   ARG    55      -5.954  57.314  22.298  1.00  9.99
ATOM      9  O   ARG    55      -5.610  56.147  22.435  1.00  9.99
ATOM     10  CB  ARG    55      -6.639  58.155  24.559  1.00  9.99
ATOM     11  N   PHE    56      -5.311  58.135  21.468  1.00  9.99
ATOM     12  CA  PHE    56      -4.231  57.582  20.662  1.00  9.99
ATOM     13  C   PHE    56      -3.069  57.206  21.523  1.00  9.99
ATOM     14  O   PHE    56      -2.229  56.444  21.084  1.00  9.99
ATOM     15  CB  PHE    56      -3.679  58.532  19.637  1.00  9.99
ATOM     16  N   LEU    57      -3.022  57.714  22.747  1.00  9.99
ATOM     17  CA  LEU    57      -1.873  57.428  23.598  1.00  9.99
ATOM     18  C   LEU    57      -0.706  58.369  23.227  1.00  9.99
ATOM     19  O   LEU    57       0.402  58.259  23.768  1.00  9.99
ATOM     20  CB  LEU    57      -1.484  55.947  23.451  1.00  9.99
ATOM     21  N   LEU    58      -0.922  59.287  22.288  1.00  9.99
ATOM     22  CA  LEU    58       0.153  60.213  21.949  1.00  9.99
ATOM     23  C   LEU    58      -0.251  61.599  22.452  1.00  9.99
ATOM     24  O   LEU    58      -1.412  61.819  22.810  1.00  9.99
ATOM     25  CB  LEU    58       0.393  60.284  20.451  1.00  9.99
ATOM     26  N   THR    59       0.706  62.520  22.523  1.00  9.99
ATOM     27  CA  THR    59       0.439  63.910  22.929  1.00  9.99
ATOM     28  C   THR    59       1.255  64.737  21.969  1.00  9.99
ATOM     29  O   THR    59       2.192  64.194  21.320  1.00  9.99
ATOM     30  CB  THR    59       0.912  64.200  24.359  1.00  9.99
ATOM     31  N   LEU    60       0.909  66.021  21.863  1.00  9.99
ATOM     32  CA  LEU    60       1.622  66.928  20.963  1.00  9.99
ATOM     33  C   LEU    60       3.122  66.899  21.196  1.00  9.99
ATOM     34  O   LEU    60       3.916  66.892  20.248  1.00  9.99
ATOM     35  CB  LEU    60       1.111  68.379  21.117  1.00  9.99
ATOM     36  N   VAL    61       3.511  66.853  22.462  1.00  9.99
ATOM     37  CA  VAL    61       4.923  66.853  22.822  1.00  9.99
ATOM     38  C   VAL    61       5.748  65.700  22.210  1.00  9.99
ATOM     39  O   VAL    61       6.971  65.814  22.047  1.00  9.99
ATOM     40  CB  VAL    61       5.044  66.848  24.341  1.00  9.99
ATOM     41  N   GLU    62       5.071  64.616  21.825  1.00  9.99
ATOM     42  CA  GLU    62       5.738  63.448  21.273  1.00  9.99
ATOM     43  C   GLU    62       6.427  63.648  19.941  1.00  9.99
ATOM     44  O   GLU    62       7.228  62.833  19.521  1.00  9.99
ATOM     45  CB  GLU    62       4.770  62.262  21.203  1.00  9.99
ATOM     46  N   LEU    63       6.127  64.735  19.258  1.00  9.99
ATOM     47  CA  LEU    63       6.813  64.993  18.011  1.00  9.99
ATOM     48  C   LEU    63       8.278  65.257  18.269  1.00  9.99
ATOM     49  O   LEU    63       9.121  65.219  17.361  1.00  9.99
ATOM     50  CB  LEU    63       6.218  66.221  17.345  1.00  9.99
ATOM     51  N   GLY    64       8.588  65.529  19.525  1.00  9.99
ATOM     52  CA  GLY    64       9.939  65.872  19.906  1.00  9.99
ATOM     53  C   GLY    64      10.521  64.792  20.830  1.00  9.99
ATOM     54  O   GLY    64      11.595  64.951  21.412  1.00  9.99
ATOM     55  N   TYR    65       9.804  63.673  20.946  1.00  9.99
ATOM     56  CA  TYR    65      10.258  62.572  21.788  1.00  9.99
ATOM     57  C   TYR    65      10.627  61.408  20.889  1.00  9.99
ATOM     58  O   TYR    65       9.751  60.676  20.417  1.00  9.99
ATOM     59  CB  TYR    65       9.154  62.115  22.765  1.00  9.99
ATOM     60  N   VAL    66      11.913  61.263  20.611  1.00  9.99
ATOM     61  CA  VAL    66      12.394  60.154  19.798  1.00  9.99
ATOM     62  C   VAL    66      13.830  59.889  20.192  1.00  9.99
ATOM     63  O   VAL    66      14.471  60.732  20.816  1.00  9.99
ATOM     64  CB  VAL    66      12.293  60.482  18.323  1.00  9.99
ATOM     65  N   ALA    67      14.334  58.720  19.831  1.00  9.99
ATOM     66  CA  ALA    67      15.683  58.355  20.220  1.00  9.99
ATOM     67  C   ALA    67      16.721  59.144  19.473  1.00  9.99
ATOM     68  O   ALA    67      16.513  59.535  18.329  1.00  9.99
ATOM     69  CB  ALA    67      15.939  56.861  19.994  1.00  9.99
ATOM     70  N   THR    68      17.837  59.381  20.146  1.00  9.99
ATOM     71  CA  THR    68      18.957  60.104  19.553  1.00  9.99
ATOM     72  C   THR    68      19.795  59.134  18.731  1.00  9.99
ATOM     73  O   THR    68      20.836  59.528  18.182  1.00  9.99
ATOM     74  CB  THR    68      19.812  60.742  20.651  1.00  9.99
ATOM     75  N   ASP    69      19.346  57.872  18.637  1.00  9.99
ATOM     76  CA  ASP    69      20.056  56.847  17.855  1.00  9.99
ATOM     77  C   ASP    69      19.582  56.829  16.425  1.00  9.99
ATOM     78  O   ASP    69      20.053  56.033  15.628  1.00  9.99
ATOM     79  CB  ASP    69      19.886  55.428  18.418  1.00  9.99
ATOM     80  N   GLY    70      19.517  58.330  12.757  1.00  9.99
ATOM     81  CA  GLY    70      20.551  59.079  12.044  1.00  9.99
ATOM     82  C   GLY    70      19.968  60.409  11.567  1.00  9.99
ATOM     83  O   GLY    70      18.756  60.548  11.445  1.00  9.99
ATOM     84  N   SER    71      20.831  61.375  11.281  1.00  9.99
ATOM     85  CA  SER    71      20.395  62.696  10.871  1.00  9.99
ATOM     86  C   SER    71      19.323  62.766   9.756  1.00  9.99
ATOM     87  O   SER    71      18.368  63.543   9.864  1.00  9.99
ATOM     88  CB  SER    71      21.626  63.545  10.503  1.00  9.99
ATOM     89  N   ALA    72      19.452  61.967   8.694  1.00  9.99
ATOM     90  CA  ALA    72      18.436  62.019   7.647  1.00  9.99
ATOM     91  C   ALA    72      17.067  61.644   8.198  1.00  9.99
ATOM     92  O   ALA    72      16.070  62.270   7.855  1.00  9.99
ATOM     93  CB  ALA    72      18.806  61.103   6.466  1.00  9.99
ATOM     94  N   PHE    73      17.015  60.626   9.050  1.00  9.99
ATOM     95  CA  PHE    73      15.733  60.188   9.641  1.00  9.99
ATOM     96  C   PHE    73      15.105  61.294  10.486  1.00  9.99
ATOM     97  O   PHE    73      13.901  61.561  10.400  1.00  9.99
ATOM     98  CB  PHE    73      15.920  58.985  10.576  1.00  9.99
ATOM     99  N   TRP    74      15.931  61.896  11.343  1.00  9.99
ATOM    100  CA  TRP    74      15.491  62.951  12.237  1.00  9.99
ATOM    101  C   TRP    74      14.936  64.158  11.473  1.00  9.99
ATOM    102  O   TRP    74      13.887  64.696  11.801  1.00  9.99
ATOM    103  CB  TRP    74      16.664  63.383  13.152  1.00  9.99
ATOM    104  N   LEU    75      15.620  64.576  10.432  1.00  9.99
ATOM    105  CA  LEU    75      15.157  65.736   9.693  1.00  9.99
ATOM    106  C   LEU    75      13.947  65.408   8.837  1.00  9.99
ATOM    107  O   LEU    75      13.058  66.265   8.609  1.00  9.99
ATOM    108  CB  LEU    75      16.306  66.285   8.828  1.00  9.99
ATOM    109  N   THR    76      13.892  64.179   8.342  1.00  9.99
ATOM    110  CA  THR    76      12.753  63.831   7.526  1.00  9.99
ATOM    111  C   THR    76      11.529  63.758   8.434  1.00  9.99
ATOM    112  O   THR    76      10.438  64.156   8.046  1.00  9.99
ATOM    113  CB  THR    76      12.984  62.493   6.798  1.00  9.99
ATOM    114  N   PRO    77      11.723  63.265   9.648  1.00  9.99
ATOM    115  CA  PRO    77      10.624  63.177  10.615  1.00  9.99
ATOM    116  C   PRO    77      10.156  64.554  11.026  1.00  9.99
ATOM    117  O   PRO    77       8.997  64.736  11.400  1.00  9.99
ATOM    118  CB  PRO    77      11.063  62.448  11.883  1.00  9.99
TER
END
