
#######################################################
#                                                     #
#                        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   39 (  194),  selected   39 , name T0383TS239_1_1
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS239_1_1.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E      89      A       3           -
LGA    L      90      M       4           -
LGA    -       -      N       5           -
LGA    -       -      L       6           -
LGA    -       -      K       7           -
LGA    -       -      R       8           -
LGA    -       -      E       9           -
LGA    -       -      Q      10           -
LGA    -       -      E      11           -
LGA    -       -      F      12           -
LGA    -       -      V      13           -
LGA    -       -      S      14           -
LGA    -       -      Q      15           -
LGA    -       -      Y      16           -
LGA    -       -      H      17           -
LGA    -       -      F      18           -
LGA    -       -      D      19           -
LGA    -       -      A      20           -
LGA    -       -      R      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    -       -      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    -       -      A      31           -
LGA    -       -      P      32           -
LGA    -       -      E      33           -
LGA    -       -      T      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      D      37           -
LGA    -       -      V      38           -
LGA    -       -      N      39           -
LGA    -       -      F      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    -       -      L      43           -
LGA    -       -      Q      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      I      55           -
LGA    -       -      V      56           -
LGA    -       -      I      57           -
LGA    -       -      L      58           -
LGA    -       -      S      59           -
LGA    -       -      F      60           -
LGA    -       -      M      61           -
LGA    -       -      I      62           -
LGA    -       -      V      63           -
LGA    -       -      F      64           -
LGA    -       -      D      65           -
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    -       -      V      68           -
LGA    -       -      I      69           -
LGA    -       -      S      70           -
LGA    -       -      G      71           -
LGA    -       -      T      72           -
LGA    -       -      I      73           -
LGA    -       -      S      74           -
LGA    -       -      Q      75           -
LGA    -       -      V      76           -
LGA    -       -      N      77           -
LGA    -       -      H      78           -
LGA    -       -      I      79           -
LGA    -       -      D      80           -
LGA    -       -      G      81           -
LGA    -       -      R      82           -
LGA    -       -      I      83           -
LGA    -       -      V      84           -
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    -       -      P      87           -
LGA    -       -      S      88           -
LGA    N      91      E      89           #
LGA    Q      92      -       -           -
LGA    E      93      L      90          5.780
LGA    E      94      N      91          4.031
LGA    V      95      Q      92          3.557
LGA    E      96      E      93          2.855
LGA    T      97      E      94          2.220
LGA    L      98      V      95          0.820
LGA    A      99      E      96          1.802
LGA    R     100      T      97          1.356
LGA    P     101      L      98          2.626
LGA    C     102      A      99          3.373
LGA    L     103      R     100          3.692
LGA    N     104      P     101          3.229
LGA    M     105      C     102          1.827
LGA    L     106      L     103          1.638
LGA    N     107      N     104          1.834
LGA    R     108      M     105          1.472
LGA    L     109      L     106          0.925
LGA    T     110      N     107          1.194
LGA    Y     111      R     108          0.364
LGA    E     112      L     109          0.801
LGA    V     113      T     110          1.163
LGA    T     114      Y     111          0.892
LGA    E     115      E     112          1.080
LGA    I     116      V     113          1.006
LGA    A     117      T     114          1.225
LGA    L     118      E     115          1.704
LGA    D     119      I     116          1.280
LGA    L     120      A     117          1.239
LGA    P     121      -       -           -
LGA    G     122      L     118          3.857
LGA    I     123      D     119          1.358
LGA    N     124      -       -           -
LGA    L     125      -       -           -
LGA    E     126      L     120           #
LGA    F     127      P     121          2.065
LGA    -       -      G     122           -
LGA    -       -      I     123           -
LGA    -       -      N     124           -
LGA    -       -      L     125           -
LGA    -       -      E     126           -
LGA    -       -      F     127           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   39  125    5.0     31    2.35    16.13     21.138     1.266

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.858168 * X  +   0.458109 * Y  +   0.231698 * Z  +  15.660731
  Y_new =  -0.464019 * X  +   0.499096 * Y  +   0.731840 * Z  +  37.059101
  Z_new =   0.219623 * X  +  -0.735554 * Y  +   0.640880 * Z  +   2.113176 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.854072    2.287521  [ DEG:   -48.9347    131.0653 ]
  Theta =  -0.221428   -2.920165  [ DEG:   -12.6869   -167.3131 ]
  Phi   =  -0.495682    2.645911  [ DEG:   -28.4005    151.5995 ]
 
# 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: T0383TS239_1_1                                
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS239_1_1.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   39  125   5.0   31   2.35   16.13  21.138
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS239_1_1
REMARK PARENT number 1
PFRMAT TS
TARGET T0383
PARENT 2g7o_A
ATOM      1  N   GLU    89       6.392  57.443  21.347  1.00  9.99
ATOM      2  CA  GLU    89       7.398  56.610  22.087  1.00  9.99
ATOM      3  C   GLU    89       7.828  55.360  21.322  1.00  9.99
ATOM      4  O   GLU    89       7.223  54.291  21.481  1.00  9.99
ATOM      5  CB  GLU    89       6.860  56.235  23.463  1.00  9.99
ATOM      6  N   LEU    90       8.868  55.500  20.493  1.00  9.99
ATOM      7  CA  LEU    90       9.338  54.407  19.642  1.00  9.99
ATOM      8  C   LEU    90      10.094  53.348  20.433  1.00  9.99
ATOM      9  O   LEU    90      11.133  53.632  21.041  1.00  9.99
ATOM     10  CB  LEU    90      10.213  54.927  18.498  1.00  9.99
ATOM     11  N   ASN    91       9.564  52.128  20.399  1.00  9.99
ATOM     12  CA  ASN    91      10.138  51.018  21.134  1.00  9.99
ATOM     13  C   ASN    91      11.249  50.356  20.334  1.00  9.99
ATOM     14  O   ASN    91      11.023  49.387  19.605  1.00  9.99
ATOM     15  CB  ASN    91       9.059  50.001  21.517  1.00  9.99
ATOM     16  N   GLN    92      12.455  50.890  20.498  1.00  9.99
ATOM     17  CA  GLN    92      13.632  50.394  19.778  1.00  9.99
ATOM     18  C   GLN    92      13.902  48.921  20.097  1.00  9.99
ATOM     19  O   GLN    92      14.266  48.159  19.208  1.00  9.99
ATOM     20  CB  GLN    92      14.866  51.272  20.069  1.00  9.99
ATOM     21  N   GLU    93      13.695  48.512  21.344  1.00  9.99
ATOM     22  CA  GLU    93      13.949  47.129  21.739  1.00  9.99
ATOM     23  C   GLU    93      13.025  46.159  20.993  1.00  9.99
ATOM     24  O   GLU    93      13.475  45.161  20.419  1.00  9.99
ATOM     25  CB  GLU    93      13.822  46.935  23.257  1.00  9.99
ATOM     26  N   GLU    94      11.733  46.468  20.976  1.00  9.99
ATOM     27  CA  GLU    94      10.779  45.628  20.257  1.00  9.99
ATOM     28  C   GLU    94      11.026  45.639  18.743  1.00  9.99
ATOM     29  O   GLU    94      10.867  44.623  18.076  1.00  9.99
ATOM     30  CB  GLU    94       9.337  46.012  20.610  1.00  9.99
ATOM     31  N   VAL    95      11.446  46.791  18.215  1.00  9.99
ATOM     32  CA  VAL    95      11.798  46.881  16.794  1.00  9.99
ATOM     33  C   VAL    95      12.983  45.959  16.514  1.00  9.99
ATOM     34  O   VAL    95      12.958  45.168  15.578  1.00  9.99
ATOM     35  CB  VAL    95      12.090  48.348  16.413  1.00  9.99
ATOM     36  N   GLU    96      14.018  46.042  17.348  1.00  9.99
ATOM     37  CA  GLU    96      15.198  45.173  17.226  1.00  9.99
ATOM     38  C   GLU    96      14.834  43.703  17.294  1.00  9.99
ATOM     39  O   GLU    96      15.412  42.897  16.574  1.00  9.99
ATOM     40  CB  GLU    96      16.239  45.489  18.319  1.00  9.99
ATOM     41  N   THR    97      13.904  43.338  18.174  1.00  9.99
ATOM     42  CA  THR    97      13.466  41.950  18.304  1.00  9.99
ATOM     43  C   THR    97      12.817  41.468  17.024  1.00  9.99
ATOM     44  O   THR    97      13.094  40.359  16.565  1.00  9.99
ATOM     45  CB  THR    97      12.482  41.776  19.459  1.00  9.99
ATOM     46  N   LEU    98      11.929  42.282  16.450  1.00  9.99
ATOM     47  CA  LEU    98      11.280  41.905  15.189  1.00  9.99
ATOM     48  C   LEU    98      12.305  41.806  14.060  1.00  9.99
ATOM     49  O   LEU    98      12.284  40.837  13.253  1.00  9.99
ATOM     50  CB  LEU    98      10.156  42.876  14.836  1.00  9.99
ATOM     51  N   ALA    99      13.198  42.782  13.972  1.00  9.99
ATOM     52  CA  ALA    99      14.239  42.792  12.947  1.00  9.99
ATOM     53  C   ALA    99      15.077  41.524  13.029  1.00  9.99
ATOM     54  O   ALA    99      15.313  40.843  12.007  1.00  9.99
ATOM     55  CB  ALA    99      15.117  44.028  13.126  1.00  9.99
ATOM     56  N   ARG   100      15.520  41.172  14.226  1.00  9.99
ATOM     57  CA  ARG   100      16.371  39.999  14.385  1.00  9.99
ATOM     58  C   ARG   100      15.616  38.717  14.054  1.00  9.99
ATOM     59  O   ARG   100      16.146  37.849  13.334  1.00  9.99
ATOM     60  CB  ARG   100      16.940  39.938  15.800  1.00  9.99
ATOM     61  N   PRO   101      14.394  38.574  14.549  1.00  9.99
ATOM     62  CA  PRO   101      13.622  37.373  14.254  1.00  9.99
ATOM     63  C   PRO   101      13.475  37.217  12.752  1.00  9.99
ATOM     64  O   PRO   101      13.678  36.130  12.202  1.00  9.99
ATOM     65  CB  PRO   101      12.232  37.423  14.910  1.00  9.99
ATOM     66  N   CYS   102      13.131  38.297  12.067  1.00  9.99
ATOM     67  CA  CYS   102      12.944  38.225  10.619  1.00  9.99
ATOM     68  C   CYS   102      14.240  37.840   9.906  1.00  9.99
ATOM     69  O   CYS   102      14.244  36.927   9.074  1.00  9.99
ATOM     70  CB  CYS   102      12.430  39.558  10.063  1.00  9.99
ATOM     71  N   LEU   103      15.344  38.517  10.175  1.00  9.99
ATOM     72  CA  LEU   103      16.558  38.258   9.392  1.00  9.99
ATOM     73  C   LEU   103      17.146  36.885   9.704  1.00  9.99
ATOM     74  O   LEU   103      17.664  36.212   8.806  1.00  9.99
ATOM     75  CB  LEU   103      17.648  39.405   9.482  1.00  9.99
ATOM     76  N   ASN   104      17.089  36.440  10.956  1.00  9.99
ATOM     77  CA  ASN   104      17.596  35.113  11.303  1.00  9.99
ATOM     78  C   ASN   104      16.703  34.034  10.681  1.00  9.99
ATOM     79  O   ASN   104      17.203  33.043  10.116  1.00  9.99
ATOM     80  CB  ASN   104      17.723  34.927  12.827  1.00  9.99
ATOM     81  N   MET   105      15.385  34.210  10.772  1.00  9.99
ATOM     82  CA  MET   105      14.464  33.229  10.200  1.00  9.99
ATOM     83  C   MET   105      14.642  33.173   8.689  1.00  9.99
ATOM     84  O   MET   105      14.646  32.080   8.093  1.00  9.99
ATOM     85  CB  MET   105      13.017  33.563  10.579  1.00  9.99
ATOM     86  N   LEU   106      14.756  34.332   8.046  1.00  9.99
ATOM     87  CA  LEU   106      14.954  34.376   6.606  1.00  9.99
ATOM     88  C   LEU   106      16.242  33.701   6.212  1.00  9.99
ATOM     89  O   LEU   106      16.241  32.887   5.280  1.00  9.99
ATOM     90  CB  LEU   106      14.873  35.827   6.093  1.00  9.99
ATOM     91  N   ASN   107      17.335  33.985   6.888  1.00  9.99
ATOM     92  CA  ASN   107      18.602  33.380   6.493  1.00  9.99
ATOM     93  C   ASN   107      18.546  31.850   6.662  1.00  9.99
ATOM     94  O   ASN   107      19.028  31.104   5.786  1.00  9.99
ATOM     95  CB  ASN   107      19.762  33.978   7.286  1.00  9.99
ATOM     96  N   ARG   108      17.981  31.370   7.762  1.00  9.99
ATOM     97  CA  ARG   108      17.900  29.925   7.996  1.00  9.99
ATOM     98  C   ARG   108      17.047  29.257   6.907  1.00  9.99
ATOM     99  O   ARG   108      17.350  28.143   6.460  1.00  9.99
ATOM    100  CB  ARG   108      17.303  29.643   9.373  1.00  9.99
ATOM    101  N   LEU   109      15.993  29.941   6.469  1.00  9.99
ATOM    102  CA  LEU   109      15.082  29.417   5.456  1.00  9.99
ATOM    103  C   LEU   109      15.746  29.444   4.101  1.00  9.99
ATOM    104  O   LEU   109      15.643  28.462   3.337  1.00  9.99
ATOM    105  CB  LEU   109      13.783  30.220   5.446  1.00  9.99
ATOM    106  N   THR   110      16.403  30.555   3.759  1.00  9.99
ATOM    107  CA  THR   110      17.093  30.706   2.493  1.00  9.99
ATOM    108  C   THR   110      18.223  29.693   2.363  1.00  9.99
ATOM    109  O   THR   110      18.462  29.185   1.264  1.00  9.99
ATOM    110  CB  THR   110      17.570  32.184   2.321  1.00  9.99
ATOM    111  N   TYR   111      18.929  29.382   3.443  1.00  9.99
ATOM    112  CA  TYR   111      19.963  28.362   3.377  1.00  9.99
ATOM    113  C   TYR   111      19.387  27.020   2.922  1.00  9.99
ATOM    114  O   TYR   111      20.036  26.279   2.159  1.00  9.99
ATOM    115  CB  TYR   111      20.647  28.215   4.741  1.00  9.99
ATOM    116  N   GLU   112      18.178  26.708   3.364  1.00  9.99
ATOM    117  CA  GLU   112      17.531  25.455   2.934  1.00  9.99
ATOM    118  C   GLU   112      17.036  25.533   1.499  1.00  9.99
ATOM    119  O   GLU   112      17.201  24.582   0.722  1.00  9.99
ATOM    120  CB  GLU   112      16.384  25.090   3.870  1.00  9.99
ATOM    121  N   VAL   113      16.414  26.646   1.137  1.00  9.99
ATOM    122  CA  VAL   113      15.984  26.846  -0.243  1.00  9.99
ATOM    123  C   VAL   113      17.183  26.737  -1.199  1.00  9.99
ATOM    124  O   VAL   113      17.057  26.135  -2.274  1.00  9.99
ATOM    125  CB  VAL   113      15.258  28.188  -0.426  1.00  9.99
ATOM    126  N   THR   114      18.343  27.268  -0.839  1.00  9.99
ATOM    127  CA  THR   114      19.539  27.187  -1.670  1.00  9.99
ATOM    128  C   THR   114      19.920  25.729  -1.872  1.00  9.99
ATOM    129  O   THR   114      20.253  25.315  -2.986  1.00  9.99
ATOM    130  CB  THR   114      20.691  27.970  -1.024  1.00  9.99
ATOM    131  N   GLU   115      19.886  24.937  -0.808  1.00  9.99
ATOM    132  CA  GLU   115      20.220  23.520  -0.936  1.00  9.99
ATOM    133  C   GLU   115      19.232  22.807  -1.841  1.00  9.99
ATOM    134  O   GLU   115      19.636  21.995  -2.693  1.00  9.99
ATOM    135  CB  GLU   115      20.256  22.876   0.461  1.00  9.99
ATOM    136  N   ILE   116      17.934  23.061  -1.659  1.00  9.99
ATOM    137  CA  ILE   116      16.936  22.405  -2.521  1.00  9.99
ATOM    138  C   ILE   116      17.138  22.801  -3.989  1.00  9.99
ATOM    139  O   ILE   116      17.093  21.945  -4.885  1.00  9.99
ATOM    140  CB  ILE   116      15.511  22.738  -2.051  1.00  9.99
ATOM    141  N   ALA   117      17.374  24.084  -4.239  1.00  9.99
ATOM    142  CA  ALA   117      17.556  24.568  -5.607  1.00  9.99
ATOM    143  C   ALA   117      18.804  23.984  -6.265  1.00  9.99
ATOM    144  O   ALA   117      18.827  23.742  -7.479  1.00  9.99
ATOM    145  CB  ALA   117      17.610  26.101  -5.648  1.00  9.99
ATOM    146  N   LEU   118      19.847  23.759  -5.473  1.00  9.99
ATOM    147  CA  LEU   118      21.072  23.137  -6.010  1.00  9.99
ATOM    148  C   LEU   118      20.816  21.726  -6.565  1.00  9.99
ATOM    149  O   LEU   118      21.566  21.254  -7.439  1.00  9.99
ATOM    150  CB  LEU   118      22.172  23.095  -4.939  1.00  9.99
ATOM    151  N   ASP   119      19.762  21.068  -6.077  1.00  9.99
ATOM    152  CA  ASP   119      19.420  19.705  -6.467  1.00  9.99
ATOM    153  C   ASP   119      18.478  19.693  -7.663  1.00  9.99
ATOM    154  O   ASP   119      18.125  18.601  -8.156  1.00  9.99
ATOM    155  CB  ASP   119      18.787  18.962  -5.266  1.00  9.99
ATOM    156  N   LEU   120      18.076  20.872  -8.146  1.00  9.99
ATOM    157  CA  LEU   120      17.138  20.950  -9.258  1.00  9.99
ATOM    158  C   LEU   120      17.751  20.359 -10.532  1.00  9.99
ATOM    159  O   LEU   120      18.892  20.676 -10.875  1.00  9.99
ATOM    160  CB  LEU   120      16.734  22.388  -9.589  1.00  9.99
ATOM    161  N   PRO   121      16.972  19.547 -11.273  1.00  9.99
ATOM    162  CA  PRO   121      17.553  18.946 -12.482  1.00  9.99
ATOM    163  C   PRO   121      18.013  19.939 -13.558  1.00  9.99
ATOM    164  O   PRO   121      18.953  19.641 -14.288  1.00  9.99
ATOM    165  CB  PRO   121      16.429  18.046 -13.027  1.00  9.99
ATOM    166  N   GLY   122      17.411  21.125 -13.651  1.00  9.99
ATOM    167  CA  GLY   122      17.840  22.055 -14.714  1.00  9.99
ATOM    168  C   GLY   122      19.194  22.735 -14.479  1.00  9.99
ATOM    169  O   GLY   122      19.760  23.342 -15.399  1.00  9.99
ATOM    170  N   ILE   123      19.733  22.605 -13.266  1.00  9.99
ATOM    171  CA  ILE   123      21.100  23.089 -13.041  1.00  9.99
ATOM    172  C   ILE   123      22.156  21.988 -12.814  1.00  9.99
ATOM    173  O   ILE   123      23.309  22.273 -12.538  1.00  9.99
ATOM    174  CB  ILE   123      21.175  24.243 -12.002  1.00  9.99
ATOM    175  N   ASN   124      25.880  22.310 -14.169  1.00  9.99
ATOM    176  CA  ASN   124      26.203  23.719 -14.272  1.00  9.99
ATOM    177  C   ASN   124      27.084  24.089 -13.078  1.00  9.99
ATOM    178  O   ASN   124      26.608  24.194 -11.940  1.00  9.99
ATOM    179  CB  ASN   124      24.922  24.556 -14.301  1.00  9.99
ATOM    180  N   LEU   125      28.376  24.274 -13.329  1.00  9.99
ATOM    181  CA  LEU   125      29.334  24.480 -12.256  1.00  9.99
ATOM    182  C   LEU   125      28.995  25.694 -11.399  1.00  9.99
ATOM    183  O   LEU   125      29.333  25.715 -10.207  1.00  9.99
ATOM    184  CB  LEU   125      30.743  24.640 -12.832  1.00  9.99
ATOM    185  N   GLU   126      28.343  26.699 -11.993  1.00  9.99
ATOM    186  CA  GLU   126      28.041  27.955 -11.284  1.00  9.99
ATOM    187  C   GLU   126      27.104  27.674 -10.106  1.00  9.99
ATOM    188  O   GLU   126      27.148  28.355  -9.083  1.00  9.99
ATOM    189  CB  GLU   126      27.416  28.969 -12.243  1.00  9.99
ATOM    190  N   PHE   127      26.274  26.646 -10.250  1.00  9.99
ATOM    191  CA  PHE   127      25.252  26.347  -9.249  1.00  9.99
ATOM    192  C   PHE   127      25.482  25.040  -8.478  1.00  9.99
ATOM    193  O   PHE   127      24.603  24.572  -7.740  1.00  9.99
ATOM    194  CB  PHE   127      23.875  26.408  -9.896  1.00  9.99
TER
END
