
#######################################################
#                                                     #
#                        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  108 (  108),  selected  108 , name T0283TS383_5
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS383_5.T0283  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      S       2           -
LGA    -       -      F       3           -
LGA    -       -      I       4           -
LGA    S       2      E       5          1.805
LGA    F       3      K       6          3.041
LGA    I       4      M       7          2.092
LGA    E       5      I       8          0.374
LGA    K       6      G       9          1.959
LGA    M       7      S      10          2.037
LGA    I       8      L      11          1.133
LGA    G       9      N      12          1.786
LGA    -       -      D      13           -
LGA    S      10      K      14          1.035
LGA    L      11      R      15          2.753
LGA    N      12      E      16          3.192
LGA    D      13      W      17          1.833
LGA    K      14      K      18          2.584
LGA    R      15      A      19          3.938
LGA    E      16      M      20          3.192
LGA    W      17      E      21          2.038
LGA    K      18      A      22          3.985
LGA    A      19      R      23          4.677
LGA    M      20      A      24          2.442
LGA    E      21      K      25          2.347
LGA    A      22      A      26          3.979
LGA    R      23      L      27          3.976
LGA    A      24      P      28          2.639
LGA    K      25      K      29           #
LGA    A      26      E      30           -
LGA    L      27      Y      31           -
LGA    P      28      H      32          5.501
LGA    K      29      H      33          4.469
LGA    E      30      A      34           -
LGA    Y      31      Y      35           -
LGA    H      32      -       -           -
LGA    H      33      -       -           -
LGA    A      34      -       -           -
LGA    Y      35      K      36          3.829
LGA    K      36      -       -           -
LGA    A      37      A      37          4.174
LGA    I      38      I      38          2.939
LGA    Q      39      Q      39          1.378
LGA    K      40      K      40           #
LGA    -       -      Y      41           -
LGA    Y      41      M      42          2.445
LGA    T      44      W      43          3.246
LGA    S      45      T      44          3.834
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    G      46      G      47          3.635
LGA    G      47      P      48          4.246
LGA    P      48      T      49           #
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      D      50          2.117
LGA    I      61      W      51          2.169
LGA    L      62      Q      52          2.355
LGA    D      63      D      53          2.063
LGA    L      64      T      54          1.611
LGA    F      65      K      55          1.748
LGA    E      66      R      56          1.850
LGA    E      67      I      57          1.103
LGA    G      68      F      58          1.530
LGA    A      69      G      59          2.537
LGA    A      70      G      60          2.136
LGA    E      71      I      61          1.687
LGA    G      72      L      62          2.336
LGA    K      73      D      63          2.852
LGA    K      74      L      64          2.209
LGA    V      75      F      65          2.358
LGA    T      76      E      66          3.667
LGA    D      77      E      67          3.346
LGA    L      78      G      68          2.333
LGA    T      79      A      69          3.101
LGA    G      80      A      70          4.092
LGA    E      81      E      71          3.793
LGA    D      82      G      72          5.210
LGA    V      83      K      73           -
LGA    A      84      K      74           -
LGA    A      85      V      75           -
LGA    F      86      T      76           -
LGA    C      87      D      77           -
LGA    D      88      L      78           -
LGA    E      89      T      79           -
LGA    L      90      G      80           -
LGA    M      91      E      81           -
LGA    K      92      D      82           -
LGA    D      93      V      83           -
LGA    T      94      A      84           -
LGA    K      95      A      85           -
LGA    T      96      F      86           -
LGA    W      97      C      87           -
LGA    M      98      D      88           -
LGA    D      99      E      89           -
LGA    K     100      L      90           -
LGA    Y     101      M      91           -
LGA    R     102      K      92           -
LGA    T     103      D      93           -
LGA    K     104      T      94           -
LGA    L     105      K      95           -
LGA    N     106      T      96           -
LGA    D     107      W      97           -
LGA    S     108      M      98           -
LGA    I     109      D      99           -
LGA    G     110      K     100           -
LGA    R     111      Y     101           -
LGA    -       -      R     102           -
LGA    -       -      T     103           -
LGA    -       -      K     104           -
LGA    -       -      L     105           -
LGA    -       -      N     106           -
LGA    -       -      D     107           -
LGA    -       -      S     108           -
LGA    -       -      I     109           -
LGA    -       -      G     110           -
LGA    -       -      R     111           -
LGA    -       -      D     112           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  108  112    5.0     57    2.96    14.04     34.970     1.864

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.937994 * X  +  -0.164527 * Y  +  -0.305119 * Z  +  -7.771942
  Y_new =  -0.117385 * X  +  -0.978944 * Y  +   0.167003 * Z  +  36.893967
  Z_new =  -0.326171 * X  +  -0.120831 * Y  +  -0.937557 * Z  +  44.399311 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.013420    0.128172  [ DEG:  -172.6563      7.3437 ]
  Theta =   0.332250    2.809343  [ DEG:    19.0365    160.9635 ]
  Phi   =  -0.124498    3.017095  [ DEG:    -7.1332    172.8668 ]
 
# 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: T0283TS383_5                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS383_5.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  108  112   5.0   57   2.96   14.04  34.970
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS383_5
PFRMAT TS
TARGET T0283
MODEL 5
PARENT 1o9rA
ATOM      1  CA  SER     2      23.821   8.006  16.663  1.00  0.00
ATOM      2  CA  PHE     3      24.274  11.673  15.636  1.00  0.00
ATOM      3  CA  ILE     4      27.943  11.260  14.632  1.00  0.00
ATOM      4  CA  GLU     5      26.563   8.683  12.249  1.00  0.00
ATOM      5  CA  LYS     6      23.522  10.563  10.974  1.00  0.00
ATOM      6  CA  MET     7      25.582  13.613   9.969  1.00  0.00
ATOM      7  CA  ILE     8      27.968  11.450   7.900  1.00  0.00
ATOM      8  CA  GLY     9      24.902   9.999   6.179  1.00  0.00
ATOM      9  CA  SER    10      27.512  15.220   4.060  1.00  0.00
ATOM     10  CA  LEU    11      27.795  12.225   1.712  1.00  0.00
ATOM     11  CA  ASN    12      24.430  13.330   0.379  1.00  0.00
ATOM     12  CA  ASP    13      25.518  16.963  -0.025  1.00  0.00
ATOM     13  CA  LYS    14      28.573  15.786  -1.935  1.00  0.00
ATOM     14  CA  ARG    15      26.235  13.992  -4.361  1.00  0.00
ATOM     15  CA  GLU    16      23.866  16.954  -4.590  1.00  0.00
ATOM     16  CA  TRP    17      26.843  19.229  -5.222  1.00  0.00
ATOM     17  CA  LYS    18      27.870  17.051  -8.167  1.00  0.00
ATOM     18  CA  ALA    19      24.348  16.615  -9.602  1.00  0.00
ATOM     19  CA  MET    20      23.560  20.331  -9.465  1.00  0.00
ATOM     20  CA  GLU    21      26.820  21.176 -11.227  1.00  0.00
ATOM     21  CA  ALA    22      25.414  18.113 -14.304  1.00  0.00
ATOM     22  CA  ARG    23      22.151  19.727 -15.485  1.00  0.00
ATOM     23  CA  ALA    24      23.850  23.124 -15.714  1.00  0.00
ATOM     24  CA  LYS    25      26.444  21.638 -18.069  1.00  0.00
ATOM     25  CA  ALA    26      23.890  19.687 -20.069  1.00  0.00
ATOM     26  CA  LEU    27      22.255  23.065 -20.868  1.00  0.00
ATOM     27  CA  PRO    28      28.689  24.456 -13.038  1.00  0.00
ATOM     28  CA  LYS    29      29.868  26.676 -10.201  1.00  0.00
ATOM     29  CA  GLU    30      30.740  24.651  -7.138  1.00  0.00
ATOM     30  CA  TYR    31      34.228  25.791  -6.098  1.00  0.00
ATOM     31  CA  HIS    32      34.868  27.141  -2.599  1.00  0.00
ATOM     32  CA  HIS    33      34.748  30.700  -3.890  1.00  0.00
ATOM     33  CA  ALA    34      31.506  30.256  -5.863  1.00  0.00
ATOM     34  CA  TYR    35      29.854  28.616  -2.858  1.00  0.00
ATOM     35  CA  LYS    36      31.046  31.440  -0.546  1.00  0.00
ATOM     36  CA  ALA    37      29.707  34.161  -2.901  1.00  0.00
ATOM     37  CA  ILE    38      26.377  32.410  -3.630  1.00  0.00
ATOM     38  CA  GLN    39      25.210  30.479  -0.613  1.00  0.00
ATOM     39  CA  LYS    40      22.058  31.681   1.165  1.00  0.00
ATOM     40  CA  TYR    41      23.972  29.680   4.074  1.00  0.00
ATOM     41  CA  THR    44      25.004  30.457   6.133  1.00  0.00
ATOM     42  CA  SER    45      26.332  30.713   6.894  1.00  0.00
ATOM     43  CA  GLY    46      22.964  29.989   4.449  1.00  0.00
ATOM     44  CA  GLY    47      24.259  31.797   7.475  1.00  0.00
ATOM     45  CA  PRO    48      28.383  27.986  14.532  1.00  0.00
ATOM     46  CA  THR    49      31.640  26.232  15.412  1.00  0.00
ATOM     47  CA  ASP    50      31.154  26.579  19.148  1.00  0.00
ATOM     48  CA  TRP    51      28.030  24.453  19.689  1.00  0.00
ATOM     49  CA  GLN    52      28.165  20.848  20.955  1.00  0.00
ATOM     50  CA  ASP    53      24.868  19.864  22.564  1.00  0.00
ATOM     51  CA  THR    54      22.845  17.790  20.108  1.00  0.00
ATOM     52  CA  LYS    55      19.748  19.934  20.560  1.00  0.00
ATOM     53  CA  ARG    56      21.811  23.022  19.533  1.00  0.00
ATOM     54  CA  ILE    57      23.030  21.274  16.384  1.00  0.00
ATOM     55  CA  PHE    58      19.529  20.011  15.608  1.00  0.00
ATOM     56  CA  GLY    59      18.147  23.567  15.780  1.00  0.00
ATOM     57  CA  GLY    60      20.994  24.910  13.597  1.00  0.00
ATOM     58  CA  ILE    61      20.517  22.095  11.103  1.00  0.00
ATOM     59  CA  LEU    62      16.716  22.533  11.049  1.00  0.00
ATOM     60  CA  ASP    63      17.131  26.198  10.113  1.00  0.00
ATOM     61  CA  LEU    64      19.474  25.427   7.202  1.00  0.00
ATOM     62  CA  PHE    65      17.704  22.324   5.994  1.00  0.00
ATOM     63  CA  GLU    66      14.413  24.291   6.075  1.00  0.00
ATOM     64  CA  GLU    67      15.935  27.067   3.984  1.00  0.00
ATOM     65  CA  GLY    68      17.331  24.671   1.382  1.00  0.00
ATOM     66  CA  ALA    69      14.127  22.545   1.283  1.00  0.00
ATOM     67  CA  ALA    70      12.129  25.709   0.657  1.00  0.00
ATOM     68  CA  GLU    71      14.573  27.020  -1.919  1.00  0.00
ATOM     69  CA  GLY    72      14.338  23.737  -3.868  1.00  0.00
ATOM     70  CA  LYS    73      10.517  23.747  -3.543  1.00  0.00
ATOM     71  CA  LYS    74      10.474  27.160  -5.313  1.00  0.00
ATOM     72  CA  VAL    75      13.049  25.923  -7.869  1.00  0.00
ATOM     73  CA  THR    76      10.625  23.227  -9.023  1.00  0.00
ATOM     74  CA  ASP    77       8.011  25.852  -9.833  1.00  0.00
ATOM     75  CA  LEU    78      10.466  28.333 -11.385  1.00  0.00
ATOM     76  CA  THR    79      11.890  25.594 -13.600  1.00  0.00
ATOM     77  CA  GLY    80       8.428  24.423 -14.674  1.00  0.00
ATOM     78  CA  GLU    81       7.482  28.058 -15.412  1.00  0.00
ATOM     79  CA  ASP    82      11.851  22.785 -18.435  1.00  0.00
ATOM     80  CA  VAL    83      15.075  20.191 -14.693  1.00  0.00
ATOM     81  CA  ALA    84      11.915  20.547 -12.549  1.00  0.00
ATOM     82  CA  ALA    85      12.010  16.754 -12.014  1.00  0.00
ATOM     83  CA  PHE    86      15.632  16.973 -10.791  1.00  0.00
ATOM     84  CA  CYS    87      14.502  19.548  -8.221  1.00  0.00
ATOM     85  CA  ASP    88      11.401  17.452  -7.354  1.00  0.00
ATOM     86  CA  GLU    89      13.526  14.412  -6.527  1.00  0.00
ATOM     87  CA  LEU    90      15.745  16.650  -4.392  1.00  0.00
ATOM     88  CA  MET    91      12.683  18.128  -2.668  1.00  0.00
ATOM     89  CA  LYS    92      11.366  14.720  -1.695  1.00  0.00
ATOM     90  CA  ASP    93      14.648  13.880   0.111  1.00  0.00
ATOM     91  CA  THR    94      15.047  17.423   1.622  1.00  0.00
ATOM     92  CA  LYS    95      11.503  17.403   2.993  1.00  0.00
ATOM     93  CA  THR    96      11.957  13.942   4.493  1.00  0.00
ATOM     94  CA  TRP    97      15.340  14.893   5.967  1.00  0.00
ATOM     95  CA  MET    98      13.806  18.054   7.440  1.00  0.00
ATOM     96  CA  ASP    99      11.027  15.993   9.026  1.00  0.00
ATOM     97  CA  LYS   100      13.587  13.531  10.450  1.00  0.00
ATOM     98  CA  TYR   101      15.426  16.457  12.082  1.00  0.00
ATOM     99  CA  ARG   102      12.298  18.190  13.354  1.00  0.00
ATOM    100  CA  THR   103      10.836  14.945  14.687  1.00  0.00
ATOM    101  CA  LYS   104      13.687  14.822  17.217  1.00  0.00
ATOM    102  CA  LEU   105      12.631  18.160  18.766  1.00  0.00
ATOM    103  CA  ASN   106       8.841  18.276  18.209  1.00  0.00
ATOM    104  CA  ASP   107       8.345  16.257  21.398  1.00  0.00
ATOM    105  CA  SER   108      10.753  16.021  24.357  1.00  0.00
ATOM    106  CA  ILE   109       5.945  18.843  14.417  1.00  0.00
ATOM    107  CA  GLY   110       7.619  19.273  10.990  1.00  0.00
ATOM    108  CA  ARG   111       6.133  22.760  10.598  1.00  0.00
TER
END
