
#######################################################
#                                                     #
#                        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   44 (  176),  selected   44 , name T0351AL381_3
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351AL381_3.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    R      17      -       -           -
LGA    K      18      M       1          2.854
LGA    D      19      I       2          3.751
LGA    F      20      L       3          4.082
LGA    E      21      Y       4          4.873
LGA    L      22      D       5          3.675
LGA    R      23      A       6           -
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    G      26      -       -           -
LGA    N      27      -       -           -
LGA    G      28      -       -           -
LGA    S      29      -       -           -
LGA    Y      30      -       -           -
LGA    I      31      I       7           #
LGA    E      32      M       8          2.484
LGA    K      33      Y       9          2.088
LGA    W      34      K      10          3.258
LGA    N      35      Y      11          2.833
LGA    L      36      P      12          2.686
LGA    R      37      N      13          1.665
LGA    A      38      A      14          2.473
LGA    P      39      V      15          2.067
LGA    -       -      S      16           -
LGA    -       -      R      17           -
LGA    -       -      K      18           -
LGA    -       -      D      19           -
LGA    L      40      F      20          2.507
LGA    P      41      E      21          3.888
LGA    T      42      L      22          3.552
LGA    Q      43      -       -           -
LGA    A      44      R      23          2.772
LGA    E      45      N      24           -
LGA    -       -      D      25           -
LGA    -       -      G      26           -
LGA    -       -      N      27           -
LGA    -       -      G      28           -
LGA    -       -      S      29           -
LGA    L      46      Y      30          3.001
LGA    E      47      I      31          2.462
LGA    -       -      E      32           -
LGA    -       -      K      33           -
LGA    T      48      W      34           #
LGA    W      49      N      35           -
LGA    W      50      L      36           -
LGA    -       -      R      37           -
LGA    -       -      A      38           -
LGA    E      51      P      39          5.323
LGA    E      52      L      40          4.343
LGA    L      53      P      41          2.800
LGA    Q      54      T      42          2.423
LGA    K      55      Q      43          3.009
LGA    N      56      A      44          1.195
LGA    -       -      E      45           -
LGA    -       -      L      46           -
LGA    P      57      E      47          2.378
LGA    P      58      T      48          3.583
LGA    -       -      W      49           -
LGA    -       -      W      50           -
LGA    Y      59      E      51          1.419
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    E      60      Q      54          3.086
LGA    -       -      K      55           -
LGA    -       -      N      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   44   56    5.0     29    3.13     3.45     32.530     0.898

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.093363 * X  +   0.495451 * Y  +  -0.863604 * Z  +  38.276966
  Y_new =  -0.991012 * X  +  -0.037220 * Y  +  -0.128491 * Z  +  -6.557843
  Z_new =  -0.095805 * X  +   0.867838 * Y  +   0.487523 * Z  +   3.823363 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.058964   -2.082628  [ DEG:    60.6742   -119.3258 ]
  Theta =   0.095952    3.045641  [ DEG:     5.4976    174.5024 ]
  Phi   =  -1.476863    1.664729  [ DEG:   -84.6180     95.3820 ]
 
# 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: T0351AL381_3                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351AL381_3.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   44   56   5.0   29   3.13    3.45  32.530
REMARK  ---------------------------------------------------------- 
MOLECULE T0351AL381_3
REMARK Aligment from pdb entry: 1wxcB
ATOM      1  N   ARG    17     -10.306  -7.065   3.389  1.00  0.00              
ATOM      2  CA  ARG    17     -10.117  -7.870   4.591  1.00  0.00              
ATOM      3  C   ARG    17      -8.675  -8.138   4.930  1.00  0.00              
ATOM      4  O   ARG    17      -8.404  -8.713   6.021  1.00  0.00              
ATOM      5  N   LYS    18      -7.692  -7.785   4.104  1.00  0.00              
ATOM      6  CA  LYS    18      -6.291  -8.032   4.469  1.00  0.00              
ATOM      7  C   LYS    18      -5.699  -6.778   5.040  1.00  0.00              
ATOM      8  O   LYS    18      -5.866  -5.696   4.432  1.00  0.00              
ATOM      9  N   ASP    19      -5.003  -6.883   6.155  1.00  0.00              
ATOM     10  CA  ASP    19      -4.493  -5.669   6.791  1.00  0.00              
ATOM     11  C   ASP    19      -3.359  -5.046   5.996  1.00  0.00              
ATOM     12  O   ASP    19      -2.416  -5.751   5.575  1.00  0.00              
ATOM     13  N   PHE    20      -3.471  -3.752   5.780  1.00  0.00              
ATOM     14  CA  PHE    20      -2.426  -2.952   5.120  1.00  0.00              
ATOM     15  C   PHE    20      -1.614  -2.232   6.174  1.00  0.00              
ATOM     16  O   PHE    20      -2.227  -1.396   6.875  1.00  0.00              
ATOM     17  N   GLU    21      -0.328  -2.465   6.326  1.00  0.00              
ATOM     18  CA  GLU    21       0.417  -1.678   7.318  1.00  0.00              
ATOM     19  C   GLU    21       0.444  -0.216   6.874  1.00  0.00              
ATOM     20  O   GLU    21       0.792   0.101   5.740  1.00  0.00              
ATOM     21  N   LEU    22       0.067   0.655   7.824  1.00  0.00              
ATOM     22  CA  LEU    22       0.055   2.096   7.533  1.00  0.00              
ATOM     23  C   LEU    22       0.757   2.779   8.704  1.00  0.00              
ATOM     24  O   LEU    22       0.910   2.225   9.785  1.00  0.00              
ATOM     25  N   ARG    23       1.192   4.008   8.463  1.00  0.00              
ATOM     26  CA  ARG    23       1.863   4.796   9.489  1.00  0.00              
ATOM     27  C   ARG    23       1.529   6.272   9.369  1.00  0.00              
ATOM     28  O   ARG    23       1.361   6.822   8.304  1.00  0.00              
ATOM     29  N   ASN    24       1.408   6.904  10.547  1.00  0.00              
ATOM     30  CA  ASN    24       1.174   8.326  10.644  1.00  0.00              
ATOM     31  C   ASN    24       2.474   9.085  10.880  1.00  0.00              
ATOM     32  O   ASN    24       3.245   8.669  11.742  1.00  0.00              
ATOM     33  N   ASP    25       2.699  10.134  10.125  1.00  0.00              
ATOM     34  CA  ASP    25       3.872  11.018  10.328  1.00  0.00              
ATOM     35  C   ASP    25       3.499  12.108  11.308  1.00  0.00              
ATOM     36  O   ASP    25       2.312  12.431  11.535  1.00  0.00              
ATOM     37  N   GLY    26       4.524  12.741  11.898  1.00  0.00              
ATOM     38  CA  GLY    26       4.354  13.789  12.898  1.00  0.00              
ATOM     39  C   GLY    26       3.493  14.932  12.383  1.00  0.00              
ATOM     40  O   GLY    26       2.783  15.518  13.234  1.00  0.00              
ATOM     41  N   ASN    27       3.528  15.258  11.104  1.00  0.00              
ATOM     42  CA  ASN    27       2.700  16.351  10.632  1.00  0.00              
ATOM     43  C   ASN    27       1.250  15.925  10.408  1.00  0.00              
ATOM     44  O   ASN    27       0.469  16.768   9.924  1.00  0.00              
ATOM     45  N   GLY    28       0.856  14.693  10.697  1.00  0.00              
ATOM     46  CA  GLY    28      -0.526  14.287  10.488  1.00  0.00              
ATOM     47  C   GLY    28      -0.741  13.579   9.159  1.00  0.00              
ATOM     48  O   GLY    28      -1.841  13.035   8.968  1.00  0.00              
ATOM     49  N   SER    29       0.219  13.551   8.245  1.00  0.00              
ATOM     50  CA  SER    29       0.055  12.788   7.007  1.00  0.00              
ATOM     51  C   SER    29       0.256  11.297   7.270  1.00  0.00              
ATOM     52  O   SER    29       0.656  10.887   8.334  1.00  0.00              
ATOM     53  N   TYR    30      -0.072  10.514   6.229  1.00  0.00              
ATOM     54  CA  TYR    30      -0.084   9.058   6.318  1.00  0.00              
ATOM     55  C   TYR    30       0.718   8.469   5.148  1.00  0.00              
ATOM     56  O   TYR    30       0.806   9.064   4.067  1.00  0.00              
ATOM     57  N   ILE    31       1.271   7.287   5.400  1.00  0.00              
ATOM     58  CA  ILE    31       1.888   6.471   4.341  1.00  0.00              
ATOM     59  C   ILE    31       1.503   5.032   4.598  1.00  0.00              
ATOM     60  O   ILE    31       0.900   4.655   5.608  1.00  0.00              
ATOM     61  N   GLU    32       1.877   4.167   3.634  1.00  0.00              
ATOM     62  CA  GLU    32       1.657   2.733   3.831  1.00  0.00              
ATOM     63  C   GLU    32       2.811   1.897   3.277  1.00  0.00              
ATOM     64  O   GLU    32       3.663   2.461   2.583  1.00  0.00              
ATOM     65  N   LYS    33       2.795   0.597   3.572  1.00  0.00              
ATOM     66  CA  LYS    33       3.868  -0.240   3.015  1.00  0.00              
ATOM     67  C   LYS    33       3.708  -0.397   1.522  1.00  0.00              
ATOM     68  O   LYS    33       4.679  -0.812   0.840  1.00  0.00              
ATOM     69  N   TRP    34       2.582  -0.076   0.916  1.00  0.00              
ATOM     70  CA  TRP    34       2.465  -0.075  -0.541  1.00  0.00              
ATOM     71  C   TRP    34       2.935   1.239  -1.137  1.00  0.00              
ATOM     72  O   TRP    34       3.338   1.317  -2.321  1.00  0.00              
ATOM     73  N   ASN    35       2.890   2.345  -0.405  1.00  0.00              
ATOM     74  CA  ASN    35       3.320   3.657  -0.931  1.00  0.00              
ATOM     75  C   ASN    35       3.910   4.379   0.262  1.00  0.00              
ATOM     76  O   ASN    35       3.220   5.091   1.012  1.00  0.00              
ATOM     77  N   LEU    36       5.210   4.180   0.502  1.00  0.00              
ATOM     78  CA  LEU    36       5.805   4.590   1.759  1.00  0.00              
ATOM     79  C   LEU    36       6.448   5.950   1.712  1.00  0.00              
ATOM     80  O   LEU    36       6.735   6.506   2.777  1.00  0.00              
ATOM     81  N   ARG    37       6.727   6.489   0.531  1.00  0.00              
ATOM     82  CA  ARG    37       7.605   7.630   0.417  1.00  0.00              
ATOM     83  C   ARG    37       6.879   8.881  -0.046  1.00  0.00              
ATOM     84  O   ARG    37       7.502   9.908  -0.280  1.00  0.00              
ATOM     85  N   ALA    38       5.563   8.792  -0.161  1.00  0.00              
ATOM     86  CA  ALA    38       4.744   9.835  -0.747  1.00  0.00              
ATOM     87  C   ALA    38       3.586  10.099   0.225  1.00  0.00              
ATOM     88  O   ALA    38       2.510   9.479   0.088  1.00  0.00              
ATOM     89  N   PRO    39       3.733  10.932   1.219  1.00  0.00              
ATOM     90  CA  PRO    39       2.678  11.123   2.235  1.00  0.00              
ATOM     91  C   PRO    39       1.406  11.700   1.647  1.00  0.00              
ATOM     92  O   PRO    39       1.406  12.483   0.720  1.00  0.00              
ATOM     93  N   LEU    40       0.294  11.227   2.251  1.00  0.00              
ATOM     94  CA  LEU    40      -1.059  11.627   1.838  1.00  0.00              
ATOM     95  C   LEU    40      -1.787  12.069   3.105  1.00  0.00              
ATOM     96  O   LEU    40      -1.376  11.824   4.206  1.00  0.00              
ATOM     97  N   PRO    41      -2.900  12.835   2.964  1.00  0.00              
ATOM     98  CA  PRO    41      -3.408  13.499   4.155  1.00  0.00              
ATOM     99  C   PRO    41      -4.129  12.637   5.182  1.00  0.00              
ATOM    100  O   PRO    41      -4.270  13.105   6.301  1.00  0.00              
ATOM    101  N   THR    42      -4.683  11.494   4.818  1.00  0.00              
ATOM    102  CA  THR    42      -5.568  10.738   5.706  1.00  0.00              
ATOM    103  C   THR    42      -5.341   9.245   5.531  1.00  0.00              
ATOM    104  O   THR    42      -4.788   8.839   4.497  1.00  0.00              
ATOM    105  N   GLN    43      -5.826   8.431   6.473  1.00  0.00              
ATOM    106  CA  GLN    43      -5.742   6.973   6.252  1.00  0.00              
ATOM    107  C   GLN    43      -6.593   6.482   5.105  1.00  0.00              
ATOM    108  O   GLN    43      -6.150   5.566   4.397  1.00  0.00              
ATOM    109  N   ALA    44      -7.747   7.073   4.814  1.00  0.00              
ATOM    110  CA  ALA    44      -8.478   6.673   3.630  1.00  0.00              
ATOM    111  C   ALA    44      -7.676   7.011   2.360  1.00  0.00              
ATOM    112  O   ALA    44      -7.684   6.240   1.396  1.00  0.00              
ATOM    113  N   GLU    45      -6.988   8.141   2.307  1.00  0.00              
ATOM    114  CA  GLU    45      -6.149   8.488   1.167  1.00  0.00              
ATOM    115  C   GLU    45      -5.016   7.453   1.039  1.00  0.00              
ATOM    116  O   GLU    45      -4.686   7.130  -0.091  1.00  0.00              
ATOM    117  N   LEU    46      -5.243   4.270   1.967  1.00  0.00              
ATOM    118  CA  LEU    46      -5.885   3.055   1.441  1.00  0.00              
ATOM    119  C   LEU    46      -6.140   3.168  -0.031  1.00  0.00              
ATOM    120  O   LEU    46      -5.900   2.225  -0.812  1.00  0.00              
ATOM    121  N   GLU    47      -6.625   4.319  -0.497  1.00  0.00              
ATOM    122  CA  GLU    47      -6.877   4.520  -1.906  1.00  0.00              
ATOM    123  C   GLU    47      -5.569   4.501  -2.721  1.00  0.00              
ATOM    124  O   GLU    47      -5.532   3.936  -3.812  1.00  0.00              
ATOM    125  N   THR    48      -4.539   5.140  -2.169  1.00  0.00              
ATOM    126  CA  THR    48      -3.249   5.110  -2.896  1.00  0.00              
ATOM    127  C   THR    48      -2.754   3.673  -3.007  1.00  0.00              
ATOM    128  O   THR    48      -2.151   3.301  -4.039  1.00  0.00              
ATOM    129  N   TRP    49      -3.005   2.887  -1.998  1.00  0.00              
ATOM    130  CA  TRP    49      -2.588   1.470  -2.061  1.00  0.00              
ATOM    131  C   TRP    49      -3.385   0.748  -3.127  1.00  0.00              
ATOM    132  O   TRP    49      -2.798   0.038  -3.949  1.00  0.00              
ATOM    133  N   TRP    50      -4.707   0.899  -3.170  1.00  0.00              
ATOM    134  CA  TRP    50      -5.504   0.248  -4.215  1.00  0.00              
ATOM    135  C   TRP    50      -5.026   0.713  -5.574  1.00  0.00              
ATOM    136  O   TRP    50      -4.977  -0.067  -6.543  1.00  0.00              
ATOM    137  N   GLU    51      -4.734   2.011  -5.733  1.00  0.00              
ATOM    138  CA  GLU    51      -4.254   2.511  -7.023  1.00  0.00              
ATOM    139  C   GLU    51      -2.968   1.775  -7.430  1.00  0.00              
ATOM    140  O   GLU    51      -2.917   1.382  -8.612  1.00  0.00              
ATOM    141  N   GLU    52      -2.067   1.609  -6.520  1.00  0.00              
ATOM    142  CA  GLU    52      -0.769   0.984  -6.815  1.00  0.00              
ATOM    143  C   GLU    52      -0.900  -0.512  -7.067  1.00  0.00              
ATOM    144  O   GLU    52      -0.127  -1.067  -7.866  1.00  0.00              
ATOM    145  N   LEU    53      -1.809  -1.167  -6.381  1.00  0.00              
ATOM    146  CA  LEU    53      -1.965  -2.618  -6.505  1.00  0.00              
ATOM    147  C   LEU    53      -2.475  -3.047  -7.843  1.00  0.00              
ATOM    148  O   LEU    53      -2.236  -4.197  -8.246  1.00  0.00              
ATOM    149  N   GLN    54      -3.224  -2.217  -8.552  1.00  0.00              
ATOM    150  CA  GLN    54      -3.734  -2.502  -9.896  1.00  0.00              
ATOM    151  C   GLN    54      -4.423  -3.857  -9.912  1.00  0.00              
ATOM    152  O   GLN    54      -4.168  -4.694 -10.777  1.00  0.00              
ATOM    153  N   LYS    55      -5.247  -4.075  -8.895  1.00  0.00              
ATOM    154  CA  LYS    55      -6.000  -5.321  -8.794  1.00  0.00              
ATOM    155  C   LYS    55      -5.359  -6.454  -8.045  1.00  0.00              
ATOM    156  O   LYS    55      -6.012  -7.480  -7.734  1.00  0.00              
ATOM    157  N   ASN    56      -4.083  -6.352  -7.700  1.00  0.00              
ATOM    158  CA  ASN    56      -3.446  -7.474  -7.015  1.00  0.00              
ATOM    159  C   ASN    56      -3.920  -7.651  -5.604  1.00  0.00              
ATOM    160  O   ASN    56      -4.009  -6.695  -4.817  1.00  0.00              
ATOM    161  N   PRO    57      -4.195  -8.894  -5.160  1.00  0.00              
ATOM    162  CA  PRO    57      -4.481  -9.155  -3.763  1.00  0.00              
ATOM    163  C   PRO    57      -3.290  -8.739  -2.922  1.00  0.00              
ATOM    164  O   PRO    57      -2.091  -8.890  -3.227  1.00  0.00              
ATOM    165  N   PRO    58      -3.646  -8.116  -1.795  1.00  0.00              
ATOM    166  CA  PRO    58      -2.651  -7.744  -0.840  1.00  0.00              
ATOM    167  C   PRO    58      -2.274  -9.031  -0.107  1.00  0.00              
ATOM    168  O   PRO    58      -3.142  -9.872   0.145  1.00  0.00              
ATOM    169  N   TYR    59      -1.029  -9.225   0.267  1.00  0.00              
ATOM    170  CA  TYR    59      -0.599 -10.291   1.148  1.00  0.00              
ATOM    171  C   TYR    59      -0.542  -9.842   2.603  1.00  0.00              
ATOM    172  O   TYR    59      -0.133  -8.711   2.867  1.00  0.00              
ATOM    173  N   GLU    60      -0.889 -10.732   3.521  1.00  0.00              
ATOM    174  CA  GLU    60      -0.662 -10.414   4.941  1.00  0.00              
ATOM    175  C   GLU    60       0.806 -10.088   5.235  1.00  0.00              
ATOM    176  O   GLU    60       1.039  -9.051   5.892  1.00  0.00              
END
