
#######################################################
#                                                     #
#                        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   49 (  196),  selected   49 , name T0351AL243_5
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351AL243_5.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E      45      M       1           -
LGA    L      46      I       2           -
LGA    E      47      L       3           -
LGA    T      48      Y       4           -
LGA    W      49      D       5           -
LGA    W      50      A       6           -
LGA    E      51      I       7           -
LGA    E      52      M       8           -
LGA    L      53      Y       9           -
LGA    Q      54      K      10           -
LGA    K      55      Y      11           -
LGA    Q      64      P      12           -
LGA    V      65      N      13           -
LGA    E      66      A      14           -
LGA    L      67      V      15           -
LGA    L      68      S      16           -
LGA    A      69      R      17           -
LGA    Q      70      K      18           -
LGA    E      71      D      19           -
LGA    L      72      F      20           -
LGA    S      73      E      21           -
LGA    Q      74      L      22           -
LGA    E      75      R      23           -
LGA    K      76      N      24           -
LGA    L      77      D      25           -
LGA    A      78      G      26           -
LGA    -       -      N      27           -
LGA    -       -      G      28           -
LGA    -       -      S      29           -
LGA    -       -      Y      30           -
LGA    -       -      I      31           -
LGA    -       -      E      32           -
LGA    -       -      K      33           -
LGA    -       -      W      34           -
LGA    -       -      N      35           -
LGA    -       -      L      36           -
LGA    -       -      R      37           -
LGA    R      79      A      38          5.105
LGA    K      80      P      39          4.682
LGA    Q      81      L      40          4.376
LGA    L      82      P      41          3.148
LGA    E      83      T      42           #
LGA    E      84      Q      43          4.854
LGA    L      85      A      44          4.172
LGA    N      86      E      45          3.641
LGA    K      87      L      46          2.703
LGA    T      88      E      47          1.885
LGA    L      89      T      48          1.612
LGA    G      90      W      49          1.317
LGA    N      91      W      50          0.530
LGA    E      92      E      51          0.602
LGA    L      93      E      52          0.680
LGA    S      94      L      53          1.728
LGA    D      95      Q      54          2.165
LGA    I      96      K      55          1.777
LGA    K      97      N      56          2.243
LGA    L      98      -       -           -
LGA    S      99      -       -           -
LGA    L     100      -       -           -
LGA    L     101      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   49   56    5.0     18    3.01     5.56     28.313     0.578

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.066273 * X  +  -0.828544 * Y  +  -0.555988 * Z  +  94.827545
  Y_new =  -0.868884 * X  +  -0.226028 * Y  +   0.440400 * Z  + 151.833374
  Z_new =  -0.490560 * X  +   0.512276 * Y  +  -0.704929 * Z  +   4.978470 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.513168   -0.628425  [ DEG:   143.9939    -36.0061 ]
  Theta =   0.512732    2.628861  [ DEG:    29.3774    150.6226 ]
  Phi   =  -1.646922    1.494671  [ DEG:   -94.3617     85.6383 ]
 
# 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: T0351AL243_5                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351AL243_5.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   49   56   5.0   18   3.01    5.56  28.313
REMARK  ---------------------------------------------------------- 
MOLECULE T0351AL243_5
REMARK Aligment from pdb entry: 1bg1A
ATOM      1  N   GLU    45     -14.551  32.540 -35.235  1.00  0.00              
ATOM      2  CA  GLU    45     -14.943  31.196 -35.787  1.00  0.00              
ATOM      3  C   GLU    45     -13.738  30.235 -35.869  1.00  0.00              
ATOM      4  O   GLU    45     -12.617  30.655 -36.186  1.00  0.00              
ATOM      5  N   LEU    46     -13.997  28.948 -35.635  1.00  0.00              
ATOM      6  CA  LEU    46     -12.951  27.931 -35.627  1.00  0.00              
ATOM      7  C   LEU    46     -12.384  27.555 -36.971  1.00  0.00              
ATOM      8  O   LEU    46     -13.123  27.315 -37.921  1.00  0.00              
ATOM      9  N   GLU    47     -11.062  27.483 -37.034  1.00  0.00              
ATOM     10  CA  GLU    47     -10.402  27.073 -38.252  1.00  0.00              
ATOM     11  C   GLU    47     -10.172  25.579 -38.061  1.00  0.00              
ATOM     12  O   GLU    47     -10.423  25.037 -36.976  1.00  0.00              
ATOM     13  N   THR    48      -9.660  24.920 -39.092  1.00  0.00              
ATOM     14  CA  THR    48      -9.407  23.492 -39.014  1.00  0.00              
ATOM     15  C   THR    48      -8.232  23.225 -38.100  1.00  0.00              
ATOM     16  O   THR    48      -8.216  22.251 -37.357  1.00  0.00              
ATOM     17  N   TRP    49      -7.243  24.101 -38.140  1.00  0.00              
ATOM     18  CA  TRP    49      -6.091  23.905 -37.284  1.00  0.00              
ATOM     19  C   TRP    49      -6.503  23.964 -35.804  1.00  0.00              
ATOM     20  O   TRP    49      -6.012  23.196 -34.980  1.00  0.00              
ATOM     21  N   TRP    50      -7.423  24.862 -35.471  1.00  0.00              
ATOM     22  CA  TRP    50      -7.884  24.981 -34.103  1.00  0.00              
ATOM     23  C   TRP    50      -8.691  23.768 -33.737  1.00  0.00              
ATOM     24  O   TRP    50      -8.679  23.358 -32.583  1.00  0.00              
ATOM     25  N   GLU    51      -9.392  23.196 -34.719  1.00  0.00              
ATOM     26  CA  GLU    51     -10.205  21.975 -34.526  1.00  0.00              
ATOM     27  C   GLU    51      -9.336  20.827 -34.040  1.00  0.00              
ATOM     28  O   GLU    51      -9.674  20.120 -33.089  1.00  0.00              
ATOM     29  N   GLU    52      -8.223  20.637 -34.733  1.00  0.00              
ATOM     30  CA  GLU    52      -7.278  19.589 -34.403  1.00  0.00              
ATOM     31  C   GLU    52      -6.685  19.834 -33.039  1.00  0.00              
ATOM     32  O   GLU    52      -6.521  18.906 -32.256  1.00  0.00              
ATOM     33  N   LEU    53      -6.342  21.089 -32.770  1.00  0.00              
ATOM     34  CA  LEU    53      -5.773  21.475 -31.489  1.00  0.00              
ATOM     35  C   LEU    53      -6.716  21.051 -30.377  1.00  0.00              
ATOM     36  O   LEU    53      -6.311  20.346 -29.461  1.00  0.00              
ATOM     37  N   GLN    54      -7.972  21.472 -30.460  1.00  0.00              
ATOM     38  CA  GLN    54      -8.958  21.095 -29.450  1.00  0.00              
ATOM     39  C   GLN    54      -9.014  19.564 -29.334  1.00  0.00              
ATOM     40  O   GLN    54      -8.959  19.008 -28.239  1.00  0.00              
ATOM     41  N   LYS    55      -9.024  18.891 -30.478  1.00  0.00              
ATOM     42  CA  LYS    55      -9.055  17.439 -30.526  1.00  0.00              
ATOM     43  C   LYS    55      -7.886  16.843 -29.723  1.00  0.00              
ATOM     44  O   LYS    55      -8.090  16.116 -28.743  1.00  0.00              
ATOM     45  N   GLN    64      -6.669  17.214 -30.112  1.00  0.00              
ATOM     46  CA  GLN    64      -5.445  16.751 -29.459  1.00  0.00              
ATOM     47  C   GLN    64      -5.417  17.050 -27.962  1.00  0.00              
ATOM     48  O   GLN    64      -4.916  16.256 -27.169  1.00  0.00              
ATOM     49  N   VAL    65      -5.922  18.215 -27.575  1.00  0.00              
ATOM     50  CA  VAL    65      -5.947  18.576 -26.172  1.00  0.00              
ATOM     51  C   VAL    65      -6.869  17.602 -25.442  1.00  0.00              
ATOM     52  O   VAL    65      -6.601  17.235 -24.293  1.00  0.00              
ATOM     53  N   GLU    66      -7.911  17.131 -26.130  1.00  0.00              
ATOM     54  CA  GLU    66      -8.841  16.166 -25.550  1.00  0.00              
ATOM     55  C   GLU    66      -8.214  14.800 -25.475  1.00  0.00              
ATOM     56  O   GLU    66      -8.372  14.113 -24.479  1.00  0.00              
ATOM     57  N   LEU    67      -7.473  14.418 -26.508  1.00  0.00              
ATOM     58  CA  LEU    67      -6.793  13.121 -26.511  1.00  0.00              
ATOM     59  C   LEU    67      -5.868  13.089 -25.305  1.00  0.00              
ATOM     60  O   LEU    67      -5.771  12.078 -24.604  1.00  0.00              
ATOM     61  N   LEU    68      -5.198  14.213 -25.060  1.00  0.00              
ATOM     62  CA  LEU    68      -4.283  14.335 -23.934  1.00  0.00              
ATOM     63  C   LEU    68      -5.070  14.201 -22.643  1.00  0.00              
ATOM     64  O   LEU    68      -4.654  13.503 -21.728  1.00  0.00              
ATOM     65  N   ALA    69      -6.234  14.832 -22.591  1.00  0.00              
ATOM     66  CA  ALA    69      -7.078  14.768 -21.406  1.00  0.00              
ATOM     67  C   ALA    69      -7.432  13.304 -21.144  1.00  0.00              
ATOM     68  O   ALA    69      -7.315  12.816 -20.023  1.00  0.00              
ATOM     69  N   GLN    70      -7.793  12.595 -22.209  1.00  0.00              
ATOM     70  CA  GLN    70      -8.194  11.193 -22.134  1.00  0.00              
ATOM     71  C   GLN    70      -7.078  10.299 -21.601  1.00  0.00              
ATOM     72  O   GLN    70      -7.280   9.531 -20.659  1.00  0.00              
ATOM     73  N   GLU    71      -5.901  10.432 -22.192  1.00  0.00              
ATOM     74  CA  GLU    71      -4.742   9.648 -21.811  1.00  0.00              
ATOM     75  C   GLU    71      -4.378   9.766 -20.359  1.00  0.00              
ATOM     76  O   GLU    71      -3.834   8.828 -19.763  1.00  0.00              
ATOM     77  N   LEU    72      -4.528  10.980 -19.849  1.00  0.00              
ATOM     78  CA  LEU    72      -4.241  11.281 -18.460  1.00  0.00              
ATOM     79  C   LEU    72      -5.273  10.550 -17.581  1.00  0.00              
ATOM     80  O   LEU    72      -4.919   9.995 -16.540  1.00  0.00              
ATOM     81  N   SER    73      -6.535  10.491 -18.000  1.00  0.00              
ATOM     82  CA  SER    73      -7.529   9.769 -17.201  1.00  0.00              
ATOM     83  C   SER    73      -7.217   8.266 -17.223  1.00  0.00              
ATOM     84  O   SER    73      -7.256   7.607 -16.180  1.00  0.00              
ATOM     85  N   GLN    74      -6.862   7.744 -18.400  1.00  0.00              
ATOM     86  CA  GLN    74      -6.524   6.330 -18.554  1.00  0.00              
ATOM     87  C   GLN    74      -5.370   5.964 -17.645  1.00  0.00              
ATOM     88  O   GLN    74      -5.420   4.944 -16.959  1.00  0.00              
ATOM     89  N   GLU    75      -4.342   6.809 -17.626  1.00  0.00              
ATOM     90  CA  GLU    75      -3.165   6.607 -16.772  1.00  0.00              
ATOM     91  C   GLU    75      -3.538   6.707 -15.303  1.00  0.00              
ATOM     92  O   GLU    75      -2.988   6.000 -14.464  1.00  0.00              
ATOM     93  N   LYS    76      -4.463   7.601 -14.995  1.00  0.00              
ATOM     94  CA  LYS    76      -4.921   7.757 -13.633  1.00  0.00              
ATOM     95  C   LYS    76      -5.574   6.417 -13.249  1.00  0.00              
ATOM     96  O   LYS    76      -5.367   5.902 -12.139  1.00  0.00              
ATOM     97  N   LEU    77      -6.312   5.824 -14.192  1.00  0.00              
ATOM     98  CA  LEU    77      -6.972   4.542 -13.965  1.00  0.00              
ATOM     99  C   LEU    77      -5.906   3.496 -13.666  1.00  0.00              
ATOM    100  O   LEU    77      -5.929   2.827 -12.616  1.00  0.00              
ATOM    101  N   ALA    78      -4.934   3.417 -14.571  1.00  0.00              
ATOM    102  CA  ALA    78      -3.829   2.478 -14.465  1.00  0.00              
ATOM    103  C   ALA    78      -3.026   2.636 -13.188  1.00  0.00              
ATOM    104  O   ALA    78      -2.436   1.678 -12.712  1.00  0.00              
ATOM    105  N   ARG    79      -3.010   3.836 -12.630  1.00  0.00              
ATOM    106  CA  ARG    79      -2.308   4.082 -11.387  1.00  0.00              
ATOM    107  C   ARG    79      -3.085   3.465 -10.240  1.00  0.00              
ATOM    108  O   ARG    79      -2.490   2.864  -9.347  1.00  0.00              
ATOM    109  N   LYS    80      -4.411   3.580 -10.275  1.00  0.00              
ATOM    110  CA  LYS    80      -5.251   3.002  -9.222  1.00  0.00              
ATOM    111  C   LYS    80      -5.093   1.490  -9.173  1.00  0.00              
ATOM    112  O   LYS    80      -4.941   0.895  -8.102  1.00  0.00              
ATOM    113  N   GLN    81      -5.102   0.873 -10.343  1.00  0.00              
ATOM    114  CA  GLN    81      -4.952  -0.569 -10.435  1.00  0.00              
ATOM    115  C   GLN    81      -3.621  -1.015  -9.842  1.00  0.00              
ATOM    116  O   GLN    81      -3.579  -1.899  -8.996  1.00  0.00              
ATOM    117  N   LEU    82      -2.537  -0.361 -10.238  1.00  0.00              
ATOM    118  CA  LEU    82      -1.214  -0.742  -9.758  1.00  0.00              
ATOM    119  C   LEU    82      -1.047  -0.501  -8.266  1.00  0.00              
ATOM    120  O   LEU    82      -0.309  -1.218  -7.604  1.00  0.00              
ATOM    121  N   GLU    83      -1.731   0.504  -7.738  1.00  0.00              
ATOM    122  CA  GLU    83      -1.658   0.779  -6.317  1.00  0.00              
ATOM    123  C   GLU    83      -2.344  -0.334  -5.552  1.00  0.00              
ATOM    124  O   GLU    83      -1.762  -0.912  -4.649  1.00  0.00              
ATOM    125  N   GLU    84      -3.579  -0.645  -5.926  1.00  0.00              
ATOM    126  CA  GLU    84      -4.314  -1.706  -5.251  1.00  0.00              
ATOM    127  C   GLU    84      -3.572  -3.009  -5.310  1.00  0.00              
ATOM    128  O   GLU    84      -3.459  -3.695  -4.307  1.00  0.00              
ATOM    129  N   LEU    85      -3.052  -3.356  -6.475  1.00  0.00              
ATOM    130  CA  LEU    85      -2.296  -4.585  -6.586  1.00  0.00              
ATOM    131  C   LEU    85      -1.068  -4.528  -5.662  1.00  0.00              
ATOM    132  O   LEU    85      -0.687  -5.537  -5.062  1.00  0.00              
ATOM    133  N   ASN    86      -0.448  -3.356  -5.530  1.00  0.00              
ATOM    134  CA  ASN    86       0.703  -3.246  -4.643  1.00  0.00              
ATOM    135  C   ASN    86       0.277  -3.441  -3.195  1.00  0.00              
ATOM    136  O   ASN    86       0.979  -4.096  -2.437  1.00  0.00              
ATOM    137  N   LYS    87      -0.881  -2.905  -2.820  1.00  0.00              
ATOM    138  CA  LYS    87      -1.402  -3.078  -1.461  1.00  0.00              
ATOM    139  C   LYS    87      -1.667  -4.561  -1.232  1.00  0.00              
ATOM    140  O   LYS    87      -1.267  -5.128  -0.214  1.00  0.00              
ATOM    141  N   THR    88      -2.368  -5.186  -2.173  1.00  0.00              
ATOM    142  CA  THR    88      -2.685  -6.610  -2.084  1.00  0.00              
ATOM    143  C   THR    88      -1.403  -7.397  -1.953  1.00  0.00              
ATOM    144  O   THR    88      -1.313  -8.308  -1.145  1.00  0.00              
ATOM    145  N   LEU    89      -0.414  -7.049  -2.758  1.00  0.00              
ATOM    146  CA  LEU    89       0.851  -7.748  -2.717  1.00  0.00              
ATOM    147  C   LEU    89       1.545  -7.591  -1.379  1.00  0.00              
ATOM    148  O   LEU    89       2.149  -8.530  -0.865  1.00  0.00              
ATOM    149  N   GLY    90       1.499  -6.372  -0.858  1.00  0.00              
ATOM    150  CA  GLY    90       2.105  -6.011   0.417  1.00  0.00              
ATOM    151  C   GLY    90       1.497  -6.793   1.581  1.00  0.00              
ATOM    152  O   GLY    90       2.219  -7.352   2.402  1.00  0.00              
ATOM    153  N   ASN    91       0.172  -6.798   1.677  1.00  0.00              
ATOM    154  CA  ASN    91      -0.518  -7.538   2.724  1.00  0.00              
ATOM    155  C   ASN    91      -0.228  -9.039   2.589  1.00  0.00              
ATOM    156  O   ASN    91       0.005  -9.712   3.592  1.00  0.00              
ATOM    157  N   GLU    92      -0.321  -9.575   1.368  1.00  0.00              
ATOM    158  CA  GLU    92      -0.067 -10.999   1.116  1.00  0.00              
ATOM    159  C   GLU    92       1.329 -11.366   1.568  1.00  0.00              
ATOM    160  O   GLU    92       1.524 -12.392   2.209  1.00  0.00              
ATOM    161  N   LEU    93       2.295 -10.522   1.216  1.00  0.00              
ATOM    162  CA  LEU    93       3.694 -10.705   1.584  1.00  0.00              
ATOM    163  C   LEU    93       3.851 -10.717   3.101  1.00  0.00              
ATOM    164  O   LEU    93       4.562 -11.552   3.649  1.00  0.00              
ATOM    165  N   SER    94       3.247  -9.727   3.751  1.00  0.00              
ATOM    166  CA  SER    94       3.248  -9.572   5.206  1.00  0.00              
ATOM    167  C   SER    94       2.713 -10.882   5.788  1.00  0.00              
ATOM    168  O   SER    94       3.384 -11.554   6.558  1.00  0.00              
ATOM    169  N   ASP    95       1.513 -11.255   5.370  1.00  0.00              
ATOM    170  CA  ASP    95       0.868 -12.477   5.815  1.00  0.00              
ATOM    171  C   ASP    95       1.716 -13.727   5.612  1.00  0.00              
ATOM    172  O   ASP    95       1.726 -14.605   6.464  1.00  0.00              
ATOM    173  N   ILE    96       2.435 -13.806   4.497  1.00  0.00              
ATOM    174  CA  ILE    96       3.256 -14.982   4.220  1.00  0.00              
ATOM    175  C   ILE    96       4.507 -15.047   5.096  1.00  0.00              
ATOM    176  O   ILE    96       4.914 -16.131   5.521  1.00  0.00              
ATOM    177  N   LYS    97       5.128 -13.898   5.353  1.00  0.00              
ATOM    178  CA  LYS    97       6.309 -13.855   6.211  1.00  0.00              
ATOM    179  C   LYS    97       5.841 -14.184   7.640  1.00  0.00              
ATOM    180  O   LYS    97       6.444 -15.013   8.316  1.00  0.00              
ATOM    181  N   LEU    98       4.713 -13.603   8.055  1.00  0.00              
ATOM    182  CA  LEU    98       4.139 -13.834   9.387  1.00  0.00              
ATOM    183  C   LEU    98       3.537 -15.235   9.503  1.00  0.00              
ATOM    184  O   LEU    98       2.337 -15.366   9.742  1.00  0.00              
ATOM    185  N   SER    99       4.363 -16.266   9.328  1.00  0.00              
ATOM    186  CA  SER    99       3.948 -17.677   9.407  1.00  0.00              
ATOM    187  C   SER    99       5.085 -18.560   8.906  1.00  0.00              
ATOM    188  O   SER    99       5.109 -19.778   9.131  1.00  0.00              
ATOM    189  N   LEU   100       6.008 -17.939   8.179  1.00  0.00              
ATOM    190  CA  LEU   100       7.186 -18.636   7.709  1.00  0.00              
ATOM    191  C   LEU   100       8.189 -18.395   8.830  1.00  0.00              
ATOM    192  O   LEU   100       9.404 -18.388   8.603  1.00  0.00              
ATOM    193  N   LEU   101       7.649 -18.186  10.038  1.00  0.00              
ATOM    194  CA  LEU   101       8.394 -17.920  11.266  1.00  0.00              
ATOM    195  C   LEU   101       7.676 -18.616  12.435  1.00  0.00              
ATOM    196  O   LEU   101       6.487 -18.291  12.674  1.00  0.00              
END
