
#######################################################
#                                                     #
#                        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_1
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS393_1.T0283  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    S       2      S       2           -
LGA    F       3      F       3           -
LGA    I       4      I       4           -
LGA    E       5      E       5           -
LGA    K       6      K       6           -
LGA    M       7      M       7           -
LGA    I       8      I       8           -
LGA    G       9      G       9           -
LGA    S      10      S      10           -
LGA    L      11      L      11           -
LGA    N      12      N      12           -
LGA    D      13      D      13           -
LGA    K      14      K      14           -
LGA    R      15      R      15           -
LGA    E      16      E      16           -
LGA    W      17      W      17           -
LGA    K      18      K      18           -
LGA    A      19      A      19           -
LGA    M      20      M      20           -
LGA    E      21      E      21           -
LGA    A      22      A      22           -
LGA    -       -      R      23           -
LGA    -       -      A      24           -
LGA    -       -      K      25           -
LGA    -       -      A      26           -
LGA    -       -      L      27           -
LGA    -       -      P      28           -
LGA    -       -      K      29           -
LGA    R      23      E      30           #
LGA    A      24      -       -           -
LGA    K      25      -       -           -
LGA    A      26      -       -           -
LGA    L      27      Y      31          4.117
LGA    P      28      H      32          1.601
LGA    K      29      H      33          1.003
LGA    E      30      A      34          0.765
LGA    Y      31      Y      35          1.374
LGA    H      32      K      36          0.840
LGA    H      33      A      37          1.023
LGA    A      34      I      38          1.337
LGA    Y      35      Q      39          0.290
LGA    K      36      K      40          1.747
LGA    A      37      Y      41          2.725
LGA    I      38      M      42          2.370
LGA    Q      39      W      43          2.045
LGA    K      40      -       -           -
LGA    Y      41      T      44          2.175
LGA    M      42      S      45          4.597
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      G      46          1.553
LGA    G      60      -       -           -
LGA    I      61      -       -           -
LGA    L      62      G      47          3.022
LGA    D      63      P      48          2.085
LGA    -       -      T      49           -
LGA    L      64      D      50           #
LGA    F      65      -       -           -
LGA    E      66      W      51           #
LGA    E      67      Q      52          4.508
LGA    -       -      D      53           -
LGA    G      68      T      54          2.737
LGA    A      69      K      55          2.094
LGA    A      70      R      56           -
LGA    E      71      I      57           -
LGA    G      72      -       -           -
LGA    K      73      -       -           -
LGA    K      74      -       -           -
LGA    V      75      F      58          3.100
LGA    T      76      G      59           #
LGA    D      77      G      60          3.960
LGA    L      78      I      61          2.075
LGA    -       -      L      62           -
LGA    T      79      D      63          5.054
LGA    G      80      L      64          5.191
LGA    E      81      F      65           -
LGA    D      82      E      66           -
LGA    V      83      E      67           -
LGA    A      84      G      68           -
LGA    A      85      A      69           -
LGA    F      86      A      70           -
LGA    -       -      E      71           -
LGA    -       -      G      72           -
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    C      87      L      90          3.549
LGA    D      88      -       -           -
LGA    E      89      -       -           -
LGA    L      90      M      91          4.323
LGA    M      91      K      92          3.401
LGA    K      92      D      93          1.154
LGA    D      93      T      94          1.452
LGA    T      94      K      95          2.394
LGA    K      95      -       -           -
LGA    T      96      T      96           #
LGA    W      97      W      97           #
LGA    M      98      M      98          3.560
LGA    D      99      D      99          3.407
LGA    K     100      K     100          4.287
LGA    Y     101      Y     101          3.035
LGA    R     102      R     102          1.017
LGA    T     103      T     103          2.530
LGA    K     104      K     104          2.527
LGA    L     105      L     105          0.975
LGA    N     106      N     106          1.293
LGA    D     107      D     107          1.818
LGA    S     108      S     108          0.530
LGA    I     109      I     109          1.732
LGA    G     110      G     110           #
LGA    R     111      R     111           -
LGA    D     112      D     112           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  112  112    5.0     44    2.74    34.09     25.763     1.550

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.503241 * X  +  -0.762158 * Y  +  -0.407263 * Z  +  18.586905
  Y_new =   0.304288 * X  +   0.597395 * Y  +  -0.741976 * Z  +  35.581181
  Z_new =   0.808800 * X  +   0.249468 * Y  +   0.532549 * Z  +   3.475948 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.438084   -2.703509  [ DEG:    25.1003   -154.8997 ]
  Theta =  -0.942108   -2.199484  [ DEG:   -53.9788   -126.0212 ]
  Phi   =   0.543836   -2.597757  [ DEG:    31.1595   -148.8405 ]
 
# 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_1                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS393_1.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  112  112   5.0   44   2.74   34.09  25.763
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS393_1
PFRMAT TS
TARGET T0283
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      -2.206  61.089  -5.284  1.00 25.00           C
ATOM      2  CA  SER     2      -1.807  59.028  -2.092  1.00 25.00           C
ATOM      3  CA  PHE     3       0.406  56.314  -3.718  1.00 25.00           C
ATOM      4  CA  ILE     4       1.181  55.558  -7.391  1.00 25.00           C
ATOM      5  CA  GLU     5       4.936  55.654  -6.643  1.00 25.00           C
ATOM      6  CA  LYS     6       4.435  53.263  -3.693  1.00 25.00           C
ATOM      7  CA  MET     7       2.432  50.886  -5.929  1.00 25.00           C
ATOM      8  CA  ILE     8       5.208  50.988  -8.567  1.00 25.00           C
ATOM      9  CA  GLY     9       7.824  50.218  -5.879  1.00 25.00           C
ATOM     10  CA  SER    10       5.718  47.269  -4.639  1.00 25.00           C
ATOM     11  CA  LEU    11       5.411  45.951  -8.221  1.00 25.00           C
ATOM     12  CA  ASN    12       9.202  46.244  -8.681  1.00 25.00           C
ATOM     13  CA  ASP    13       9.770  44.348  -5.402  1.00 25.00           C
ATOM     14  CA  LYS    14       7.360  41.600  -6.546  1.00 25.00           C
ATOM     15  CA  ARG    15       9.207  41.337  -9.891  1.00 25.00           C
ATOM     16  CA  GLU    16      12.554  41.064  -8.050  1.00 25.00           C
ATOM     17  CA  TRP    17      11.124  38.308  -5.808  1.00 25.00           C
ATOM     18  CA  LYS    18       9.851  36.425  -8.891  1.00 25.00           C
ATOM     19  CA  ALA    19      13.302  36.723 -10.526  1.00 25.00           C
ATOM     20  CA  MET    20      14.954  35.389  -7.339  1.00 25.00           C
ATOM     21  CA  GLU    21      12.508  32.442  -7.274  1.00 25.00           C
ATOM     22  CA  ALA    22      13.284  31.687 -10.948  1.00 25.00           C
ATOM     23  CA  ARG    23      17.038  31.782 -10.199  1.00 25.00           C
ATOM     24  CA  ALA    24      16.537  29.392  -7.250  1.00 25.00           C
ATOM     25  CA  LYS    25      14.535  27.013  -9.486  1.00 25.00           C
ATOM     26  CA  ALA    26      17.310  27.117 -12.123  1.00 25.00           C
ATOM     27  CA  LEU    27      19.284  25.163  -9.477  1.00 25.00           C
ATOM     28  CA  PRO    28      22.943  25.953  -9.315  1.00 25.00           C
ATOM     29  CA  LYS    29      25.272  28.840 -10.336  1.00 25.00           C
ATOM     30  CA  GLU    30      23.604  31.788  -8.550  1.00 25.00           C
ATOM     31  CA  TYR    31      22.487  29.470  -5.713  1.00 25.00           C
ATOM     32  CA  HIS    32      26.050  28.101  -5.397  1.00 25.00           C
ATOM     33  CA  HIS    33      27.435  31.668  -5.257  1.00 25.00           C
ATOM     34  CA  ALA    34      24.897  32.573  -2.535  1.00 25.00           C
ATOM     35  CA  TYR    35      25.900  29.464  -0.534  1.00 25.00           C
ATOM     36  CA  LYS    36      29.596  30.414  -0.864  1.00 25.00           C
ATOM     37  CA  ALA    37      28.816  33.966   0.337  1.00 25.00           C
ATOM     38  CA  ILE    38      26.898  32.557   3.337  1.00 25.00           C
ATOM     39  CA  GLN    39      29.850  30.268   4.182  1.00 25.00           C
ATOM     40  CA  LYS    40      32.249  33.246   3.975  1.00 25.00           C
ATOM     41  CA  TYR    41      29.970  35.275   6.290  1.00 25.00           C
ATOM     42  CA  MET    42      29.868  32.367   8.779  1.00 25.00           C
ATOM     43  CA  TRP    43      33.689  32.122   8.687  1.00 25.00           C
ATOM     44  CA  THR    44      33.970  35.889   9.317  1.00 25.00           C
ATOM     45  CA  SER    45      33.213  38.967   7.216  1.00 25.00           C
ATOM     46  CA  GLY    46      32.721  38.460   3.479  1.00 25.00           C
ATOM     47  CA  GLY    47      30.634  41.568   3.606  1.00 25.00           C
ATOM     48  CA  PRO    48      30.321  43.148   0.180  1.00 25.00           C
ATOM     49  CA  THR    49      26.883  44.701  -0.489  1.00 25.00           C
ATOM     50  CA  ASP    50      23.689  45.918   1.221  1.00 25.00           C
ATOM     51  CA  TRP    51      23.664  48.163   4.362  1.00 25.00           C
ATOM     52  CA  GLN    52      25.118  46.438   7.457  1.00 25.00           C
ATOM     53  CA  ASP    53      21.609  45.328   8.517  1.00 25.00           C
ATOM     54  CA  THR    54      20.960  43.942   5.006  1.00 25.00           C
ATOM     55  CA  LYS    55      24.280  42.037   5.117  1.00 25.00           C
ATOM     56  CA  ARG    56      23.362  40.588   8.542  1.00 25.00           C
ATOM     57  CA  ILE    57      19.947  39.500   7.194  1.00 25.00           C
ATOM     58  CA  PHE    58      21.637  37.831   4.190  1.00 25.00           C
ATOM     59  CA  GLY    59      24.052  36.002   6.533  1.00 25.00           C
ATOM     60  CA  GLY    60      21.110  34.811   8.675  1.00 25.00           C
ATOM     61  CA  ILE    61      19.303  33.557   5.540  1.00 25.00           C
ATOM     62  CA  LEU    62      22.459  31.688   4.439  1.00 25.00           C
ATOM     63  CA  ASP    63      22.756  30.095   7.909  1.00 25.00           C
ATOM     64  CA  LEU    64      19.083  29.021   7.757  1.00 25.00           C
ATOM     65  CA  PHE    65      19.648  27.490   4.292  1.00 25.00           C
ATOM     66  CA  GLU    66      22.711  25.599   5.600  1.00 25.00           C
ATOM     67  CA  GLU    67      20.668  24.290   8.563  1.00 25.00           C
ATOM     68  CA  GLY    68      17.901  23.139   6.179  1.00 25.00           C
ATOM     69  CA  ALA    69      20.491  21.352   3.996  1.00 25.00           C
ATOM     70  CA  ALA    70      21.945  19.627   7.091  1.00 25.00           C
ATOM     71  CA  GLU    71      25.194  20.098   5.152  1.00 25.00           C
ATOM     72  CA  GLY    72      25.719  21.656   1.719  1.00 25.00           C
ATOM     73  CA  LYS    73      25.206  22.725  -1.873  1.00 25.00           C
ATOM     74  CA  LYS    74      21.431  22.431  -1.378  1.00 25.00           C
ATOM     75  CA  VAL    75      21.547  25.875   0.197  1.00 25.00           C
ATOM     76  CA  THR    76      18.538  28.054  -0.735  1.00 25.00           C
ATOM     77  CA  ASP    77      16.976  25.123  -2.642  1.00 25.00           C
ATOM     78  CA  LEU    78      13.988  27.398  -3.346  1.00 25.00           C
ATOM     79  CA  THR    79      10.727  27.574  -5.389  1.00 25.00           C
ATOM     80  CA  GLY    80       7.031  26.629  -5.810  1.00 25.00           C
ATOM     81  CA  GLU    81       4.763  28.078  -3.085  1.00 25.00           C
ATOM     82  CA  ASP    82       5.856  25.313  -0.671  1.00 25.00           C
ATOM     83  CA  VAL    83       9.532  26.046  -1.458  1.00 25.00           C
ATOM     84  CA  ALA    84       8.950  29.777  -0.822  1.00 25.00           C
ATOM     85  CA  ALA    85       7.264  28.970   2.521  1.00 25.00           C
ATOM     86  CA  PHE    86      10.219  26.740   3.501  1.00 25.00           C
ATOM     87  CA  CYS    87      12.667  29.543   2.594  1.00 25.00           C
ATOM     88  CA  ASP    88      10.650  32.021   4.706  1.00 25.00           C
ATOM     89  CA  GLU    89      10.691  29.579   7.655  1.00 25.00           C
ATOM     90  CA  LEU    90      14.482  29.170   7.296  1.00 25.00           C
ATOM     91  CA  MET    91      14.912  32.976   7.247  1.00 25.00           C
ATOM     92  CA  LYS    92      12.760  33.284  10.399  1.00 25.00           C
ATOM     93  CA  ASP    93      14.864  30.593  12.130  1.00 25.00           C
ATOM     94  CA  THR    94      18.074  32.440  11.153  1.00 25.00           C
ATOM     95  CA  LYS    95      16.642  35.711  12.539  1.00 25.00           C
ATOM     96  CA  THR    96      15.718  33.948  15.811  1.00 25.00           C
ATOM     97  CA  TRP    97      19.258  32.511  16.065  1.00 25.00           C
ATOM     98  CA  MET    98      20.741  35.994  15.481  1.00 25.00           C
ATOM     99  CA  ASP    99      18.473  37.443  18.206  1.00 25.00           C
ATOM    100  CA  LYS   100      19.567  34.679  20.621  1.00 25.00           C
ATOM    101  CA  TYR   101      23.242  35.411  19.834  1.00 25.00           C
ATOM    102  CA  ARG   102      22.661  39.143  20.469  1.00 25.00           C
ATOM    103  CA  THR   103      20.975  38.335  23.811  1.00 25.00           C
ATOM    104  CA  LYS   104      23.930  36.105  24.792  1.00 25.00           C
ATOM    105  CA  LEU   105      26.378  38.908  23.885  1.00 25.00           C
ATOM    106  CA  ASN   106      24.360  41.386  25.996  1.00 25.00           C
ATOM    107  CA  ASP   107      24.401  38.943  28.947  1.00 25.00           C
ATOM    108  CA  SER   108      28.193  38.535  28.587  1.00 25.00           C
ATOM    109  CA  ILE   109      28.622  42.341  28.539  1.00 25.00           C
ATOM    110  CA  GLY   110      26.861  45.711  28.252  1.00 25.00           C
ATOM    111  CA  ARG   111      28.099  49.037  26.774  1.00 25.00           C
ATOM    112  CA  ASP   112      27.249  48.850  23.100  1.00 25.00           C
TER
END
