
#######################################################
#                                                     #
#                        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  112 (  112),  selected  112 , name T0283TS393_3
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS393_3.T0283  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          3.410
LGA    S       2      S       2          2.973
LGA    F       3      F       3          2.604
LGA    I       4      I       4          1.482
LGA    E       5      E       5          1.679
LGA    K       6      K       6          2.194
LGA    M       7      M       7          1.791
LGA    I       8      I       8          1.076
LGA    G       9      G       9          1.383
LGA    S      10      S      10          1.808
LGA    L      11      L      11          1.538
LGA    N      12      N      12          0.900
LGA    D      13      D      13          1.111
LGA    K      14      K      14          1.368
LGA    R      15      R      15          1.300
LGA    E      16      E      16          1.044
LGA    W      17      W      17          1.307
LGA    K      18      K      18          1.719
LGA    A      19      A      19          1.442
LGA    M      20      M      20          1.166
LGA    E      21      E      21          1.552
LGA    A      22      A      22          1.895
LGA    R      23      R      23          1.528
LGA    A      24      A      24          1.291
LGA    K      25      K      25          1.926
LGA    A      26      A      26          1.935
LGA    L      27      L      27          0.239
LGA    P      28      P      28          1.080
LGA    K      29      K      29          1.830
LGA    E      30      -       -           -
LGA    Y      31      -       -           -
LGA    H      32      E      30          1.925
LGA    H      33      Y      31          1.763
LGA    A      34      H      32          4.609
LGA    -       -      H      33           -
LGA    Y      35      A      34          5.162
LGA    K      36      Y      35           -
LGA    -       -      K      36           -
LGA    -       -      A      37           -
LGA    -       -      I      38           -
LGA    -       -      Q      39           -
LGA    -       -      K      40           -
LGA    -       -      Y      41           -
LGA    -       -      M      42           -
LGA    -       -      W      43           -
LGA    -       -      T      44           -
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    -       -      G      47           -
LGA    -       -      P      48           -
LGA    -       -      T      49           -
LGA    -       -      D      50           -
LGA    -       -      W      51           -
LGA    -       -      Q      52           -
LGA    -       -      D      53           -
LGA    -       -      T      54           -
LGA    -       -      K      55           -
LGA    -       -      R      56           -
LGA    -       -      I      57           -
LGA    -       -      F      58           -
LGA    -       -      G      59           -
LGA    -       -      G      60           -
LGA    -       -      I      61           -
LGA    -       -      L      62           -
LGA    -       -      D      63           -
LGA    -       -      L      64           -
LGA    -       -      F      65           -
LGA    -       -      E      66           -
LGA    -       -      E      67           -
LGA    -       -      G      68           -
LGA    -       -      A      69           -
LGA    -       -      A      70           -
LGA    -       -      E      71           -
LGA    -       -      G      72           -
LGA    -       -      K      73           -
LGA    -       -      K      74           -
LGA    A      37      V      75          4.603
LGA    I      38      T      76          4.758
LGA    Q      39      D      77          3.297
LGA    K      40      L      78          2.200
LGA    Y      41      T      79          3.457
LGA    M      42      -       -           -
LGA    W      43      -       -           -
LGA    T      44      -       -           -
LGA    S      45      -       -           -
LGA    G      46      -       -           -
LGA    G      47      G      80          5.623
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    D      50      -       -           -
LGA    W      51      -       -           -
LGA    Q      52      -       -           -
LGA    D      53      -       -           -
LGA    T      54      -       -           -
LGA    K      55      E      81          3.278
LGA    R      56      D      82          1.990
LGA    I      57      -       -           -
LGA    F      58      V      83          1.108
LGA    G      59      A      84          1.275
LGA    G      60      A      85          1.033
LGA    I      61      F      86          1.497
LGA    L      62      C      87          2.435
LGA    D      63      D      88          2.915
LGA    L      64      E      89          3.505
LGA    F      65      L      90          3.908
LGA    E      66      M      91          4.579
LGA    -       -      K      92           -
LGA    E      67      D      93           #
LGA    G      68      T      94          4.461
LGA    A      69      -       -           -
LGA    A      70      K      95          3.887
LGA    E      71      T      96          2.418
LGA    G      72      W      97           #
LGA    K      73      -       -           -
LGA    K      74      -       -           -
LGA    V      75      -       -           -
LGA    T      76      -       -           -
LGA    D      77      -       -           -
LGA    L      78      -       -           -
LGA    T      79      -       -           -
LGA    G      80      -       -           -
LGA    E      81      -       -           -
LGA    D      82      -       -           -
LGA    V      83      -       -           -
LGA    A      84      -       -           -
LGA    A      85      -       -           -
LGA    F      86      -       -           -
LGA    C      87      -       -           -
LGA    D      88      -       -           -
LGA    E      89      -       -           -
LGA    L      90      -       -           -
LGA    M      91      -       -           -
LGA    K      92      -       -           -
LGA    D      93      -       -           -
LGA    T      94      -       -           -
LGA    K      95      M      98           #
LGA    T      96      D      99           -
LGA    W      97      K     100           -
LGA    M      98      Y     101           -
LGA    D      99      R     102           -
LGA    K     100      T     103           -
LGA    Y     101      K     104           -
LGA    R     102      L     105           -
LGA    T     103      N     106           -
LGA    K     104      D     107           -
LGA    L     105      S     108           -
LGA    N     106      I     109           -
LGA    D     107      G     110           -
LGA    S     108      R     111           -
LGA    I     109      D     112           -
LGA    G     110      -       -           -
LGA    R     111      -       -           -
LGA    D     112      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  112  112    5.0     53    2.64    58.49     34.064     1.937

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.781851 * X  +   0.309060 * Y  +   0.541471 * Z  +  20.164965
  Y_new =  -0.093986 * X  +  -0.916988 * Y  +   0.387686 * Z  +  32.010883
  Z_new =   0.616341 * X  +   0.252222 * Y  +   0.745995 * Z  +   1.219058 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.326036   -2.815557  [ DEG:    18.6805   -161.3195 ]
  Theta =  -0.664087   -2.477505  [ DEG:   -38.0494   -141.9506 ]
  Phi   =  -3.021957    0.119635  [ DEG:  -173.1454      6.8546 ]
 
# 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: T0283TS393_3                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS393_3.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  112  112   5.0   53   2.64   58.49  34.064
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS393_3
PFRMAT TS
TARGET T0283
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      29.442   4.793  24.382  1.00 25.00           C
ATOM      2  CA  SER     2      26.444   6.673  22.915  1.00 25.00           C
ATOM      3  CA  PHE     3      27.588   9.495  20.582  1.00 25.00           C
ATOM      4  CA  ILE     4      27.444   6.898  17.771  1.00 25.00           C
ATOM      5  CA  GLU     5      23.880   8.000  16.903  1.00 25.00           C
ATOM      6  CA  LYS     6      25.007  11.659  16.814  1.00 25.00           C
ATOM      7  CA  MET     7      27.925  10.731  14.513  1.00 25.00           C
ATOM      8  CA  ILE     8      25.529   8.839  12.200  1.00 25.00           C
ATOM      9  CA  GLY     9      23.189  11.869  12.104  1.00 25.00           C
ATOM     10  CA  SER    10      26.141  14.154  11.250  1.00 25.00           C
ATOM     11  CA  LEU    11      27.201  11.775   8.442  1.00 25.00           C
ATOM     12  CA  ASN    12      23.625  11.761   7.072  1.00 25.00           C
ATOM     13  CA  ASP    13      23.553  15.590   7.155  1.00 25.00           C
ATOM     14  CA  LYS    14      26.899  15.719   5.296  1.00 25.00           C
ATOM     15  CA  ARG    15      25.553  13.291   2.657  1.00 25.00           C
ATOM     16  CA  GLU    16      22.419  15.450   2.232  1.00 25.00           C
ATOM     17  CA  TRP    17      24.598  18.573   1.817  1.00 25.00           C
ATOM     18  CA  LYS    18      26.720  16.773  -0.814  1.00 25.00           C
ATOM     19  CA  ALA    19      23.550  15.720  -2.687  1.00 25.00           C
ATOM     20  CA  MET    20      22.273  19.330  -2.606  1.00 25.00           C
ATOM     21  CA  GLU    21      25.632  20.575  -3.961  1.00 25.00           C
ATOM     22  CA  ALA    22      25.486  17.978  -6.773  1.00 25.00           C
ATOM     23  CA  ARG    23      21.923  19.080  -7.640  1.00 25.00           C
ATOM     24  CA  ALA    24      23.051  22.739  -7.729  1.00 25.00           C
ATOM     25  CA  LYS    25      25.968  21.811 -10.031  1.00 25.00           C
ATOM     26  CA  ALA    26      23.571  19.919 -12.344  1.00 25.00           C
ATOM     27  CA  LEU    27      20.638  22.141 -13.047  1.00 25.00           C
ATOM     28  CA  PRO    28      20.811  24.099 -16.354  1.00 25.00           C
ATOM     29  CA  LYS    29      24.340  25.450 -16.785  1.00 25.00           C
ATOM     30  CA  GLU    30      24.875  25.685 -13.000  1.00 25.00           C
ATOM     31  CA  TYR    31      24.876  29.509 -13.214  1.00 25.00           C
ATOM     32  CA  HIS    32      21.626  29.421 -15.237  1.00 25.00           C
ATOM     33  CA  HIS    33      20.039  27.103 -12.634  1.00 25.00           C
ATOM     34  CA  ALA    34      21.125  29.473  -9.827  1.00 25.00           C
ATOM     35  CA  TYR    35      19.620  32.443 -11.718  1.00 25.00           C
ATOM     36  CA  LYS    36      16.341  30.518 -12.180  1.00 25.00           C
ATOM     37  CA  ALA    37      16.270  29.692  -8.441  1.00 25.00           C
ATOM     38  CA  ILE    38      16.858  33.379  -7.591  1.00 25.00           C
ATOM     39  CA  GLN    39      14.009  34.401  -9.937  1.00 25.00           C
ATOM     40  CA  LYS    40      11.696  31.834  -8.286  1.00 25.00           C
ATOM     41  CA  TYR    41      12.633  33.181  -4.825  1.00 25.00           C
ATOM     42  CA  MET    42      11.906  36.755  -5.992  1.00 25.00           C
ATOM     43  CA  TRP    43       8.506  35.644  -7.359  1.00 25.00           C
ATOM     44  CA  THR    44       7.699  33.930  -4.030  1.00 25.00           C
ATOM     45  CA  SER    45       8.291  37.206  -2.188  1.00 25.00           C
ATOM     46  CA  GLY    46       8.603  40.258  -4.337  1.00 25.00           C
ATOM     47  CA  GLY    47       8.863  40.828  -8.070  1.00 25.00           C
ATOM     48  CA  PRO    48      10.678  41.936 -11.257  1.00 25.00           C
ATOM     49  CA  THR    49      13.383  41.704 -13.947  1.00 25.00           C
ATOM     50  CA  ASP    50      16.942  42.679 -15.084  1.00 25.00           C
ATOM     51  CA  TRP    51      19.286  45.138 -13.353  1.00 25.00           C
ATOM     52  CA  GLN    52      19.712  46.789  -9.924  1.00 25.00           C
ATOM     53  CA  ASP    53      16.137  45.795  -8.974  1.00 25.00           C
ATOM     54  CA  THR    54      16.823  42.190 -10.070  1.00 25.00           C
ATOM     55  CA  LYS    55      20.029  42.137  -7.975  1.00 25.00           C
ATOM     56  CA  ARG    56      18.100  43.462  -4.944  1.00 25.00           C
ATOM     57  CA  ILE    57      15.434  40.755  -5.427  1.00 25.00           C
ATOM     58  CA  PHE    58      18.159  38.072  -5.628  1.00 25.00           C
ATOM     59  CA  GLY    59      19.748  39.412  -2.411  1.00 25.00           C
ATOM     60  CA  GLY    60      16.340  39.330  -0.664  1.00 25.00           C
ATOM     61  CA  ILE    61      15.804  35.721  -1.824  1.00 25.00           C
ATOM     62  CA  LEU    62      19.267  34.756  -0.504  1.00 25.00           C
ATOM     63  CA  ASP    63      18.470  36.403   2.861  1.00 25.00           C
ATOM     64  CA  LEU    64      15.154  34.497   3.036  1.00 25.00           C
ATOM     65  CA  PHE    65      16.972  31.213   2.274  1.00 25.00           C
ATOM     66  CA  GLU    66      19.527  31.961   5.027  1.00 25.00           C
ATOM     67  CA  GLU    67      16.691  32.686   7.497  1.00 25.00           C
ATOM     68  CA  GLY    68      14.990  29.387   6.550  1.00 25.00           C
ATOM     69  CA  ALA    69      18.287  27.509   7.073  1.00 25.00           C
ATOM     70  CA  ALA    70      18.713  29.161  10.502  1.00 25.00           C
ATOM     71  CA  GLU    71      21.297  31.887   9.888  1.00 25.00           C
ATOM     72  CA  GLY    72      24.145  31.866   7.400  1.00 25.00           C
ATOM     73  CA  LYS    73      23.260  28.291   6.388  1.00 25.00           C
ATOM     74  CA  LYS    74      22.845  27.888   2.643  1.00 25.00           C
ATOM     75  CA  VAL    75      21.556  29.725  -0.449  1.00 25.00           C
ATOM     76  CA  THR    76      19.111  28.051  -2.875  1.00 25.00           C
ATOM     77  CA  ASP    77      21.448  25.032  -3.184  1.00 25.00           C
ATOM     78  CA  LEU    78      23.674  27.631  -4.951  1.00 25.00           C
ATOM     79  CA  THR    79      26.534  25.569  -3.431  1.00 25.00           C
ATOM     80  CA  GLY    80      30.040  25.878  -4.899  1.00 25.00           C
ATOM     81  CA  GLU    81      32.392  27.900  -2.653  1.00 25.00           C
ATOM     82  CA  ASP    82      31.636  31.066  -4.670  1.00 25.00           C
ATOM     83  CA  VAL    83      27.877  30.410  -4.336  1.00 25.00           C
ATOM     84  CA  ALA    84      28.270  29.937  -0.556  1.00 25.00           C
ATOM     85  CA  ALA    85      30.223  33.223  -0.323  1.00 25.00           C
ATOM     86  CA  PHE    86      27.483  35.021  -2.304  1.00 25.00           C
ATOM     87  CA  CYS    87      24.812  33.575   0.030  1.00 25.00           C
ATOM     88  CA  ASP    88      26.811  34.746   3.081  1.00 25.00           C
ATOM     89  CA  GLU    89      27.119  38.249   1.566  1.00 25.00           C
ATOM     90  CA  LEU    90      23.344  38.329   0.922  1.00 25.00           C
ATOM     91  CA  MET    91      22.679  37.262   4.539  1.00 25.00           C
ATOM     92  CA  LYS    92      25.015  40.020   5.807  1.00 25.00           C
ATOM     93  CA  ASP    93      23.200  42.594   3.628  1.00 25.00           C
ATOM     94  CA  THR    94      19.825  41.408   4.997  1.00 25.00           C
ATOM     95  CA  LYS    95      21.144  41.711   8.580  1.00 25.00           C
ATOM     96  CA  THR    96      22.391  45.257   7.846  1.00 25.00           C
ATOM     97  CA  TRP    97      18.971  46.188   6.398  1.00 25.00           C
ATOM     98  CA  MET    98      17.242  44.785   9.513  1.00 25.00           C
ATOM     99  CA  ASP    99      19.595  46.808  11.760  1.00 25.00           C
ATOM    100  CA  LYS   100      18.838  49.974   9.743  1.00 25.00           C
ATOM    101  CA  TYR   101      15.079  49.318  10.077  1.00 25.00           C
ATOM    102  CA  ARG   102      15.472  48.845  13.857  1.00 25.00           C
ATOM    103  CA  THR   103      17.425  52.131  14.090  1.00 25.00           C
ATOM    104  CA  LYS   104      14.685  53.928  12.108  1.00 25.00           C
ATOM    105  CA  LEU   105      12.015  52.483  14.444  1.00 25.00           C
ATOM    106  CA  ASN   106      14.013  53.653  17.493  1.00 25.00           C
ATOM    107  CA  ASP   107      14.320  57.158  15.979  1.00 25.00           C
ATOM    108  CA  SER   108      10.546  57.236  15.334  1.00 25.00           C
ATOM    109  CA  ILE   109       9.882  56.170  18.952  1.00 25.00           C
ATOM    110  CA  GLY   110       8.489  52.632  19.512  1.00 25.00           C
ATOM    111  CA  ARG   111       7.076  49.106  19.695  1.00 25.00           C
ATOM    112  CA  ASP   112       6.967  45.918  17.531  1.00 25.00           C
TER
END
