
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS393_4.T0283  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          4.848
LGA    S       2      S       2          2.594
LGA    F       3      F       3          1.481
LGA    I       4      I       4          1.482
LGA    E       5      E       5          1.230
LGA    K       6      K       6          1.062
LGA    M       7      M       7          1.127
LGA    I       8      I       8          1.086
LGA    G       9      G       9          0.653
LGA    S      10      S      10          0.483
LGA    L      11      L      11          0.465
LGA    N      12      N      12          0.400
LGA    D      13      D      13          0.246
LGA    K      14      K      14          0.572
LGA    R      15      R      15          0.281
LGA    E      16      E      16          0.385
LGA    W      17      W      17          0.672
LGA    K      18      K      18          0.559
LGA    A      19      A      19          0.192
LGA    M      20      M      20          0.729
LGA    E      21      E      21          1.031
LGA    A      22      A      22          0.954
LGA    R      23      R      23          0.879
LGA    A      24      A      24          1.132
LGA    K      25      K      25          1.146
LGA    A      26      A      26          0.823
LGA    L      27      L      27          1.026
LGA    P      28      P      28          4.201
LGA    K      29      K      29          1.440
LGA    E      30      E      30          2.590
LGA    Y      31      Y      31           #
LGA    H      32      H      32           #
LGA    H      33      H      33          5.468
LGA    A      34      A      34          4.624
LGA    Y      35      -       -           -
LGA    K      36      -       -           -
LGA    A      37      Y      35           #
LGA    I      38      K      36           -
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      A      37          5.725
LGA    D      63      I      38          3.360
LGA    L      64      -       -           -
LGA    F      65      -       -           -
LGA    E      66      Q      39          2.347
LGA    E      67      K      40          0.501
LGA    -       -      Y      41           -
LGA    -       -      M      42           -
LGA    G      68      W      43          2.823
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    A      69      T      54           #
LGA    A      70      K      55           -
LGA    E      71      R      56           -
LGA    G      72      I      57           -
LGA    K      73      F      58           -
LGA    -       -      G      59           -
LGA    -       -      G      60           -
LGA    K      74      I      61           #
LGA    V      75      L      62          2.738
LGA    -       -      D      63           -
LGA    -       -      L      64           -
LGA    T      76      F      65          2.520
LGA    D      77      E      66          0.595
LGA    L      78      E      67          3.481
LGA    T      79      G      68           -
LGA    G      80      A      69           -
LGA    E      81      A      70           -
LGA    D      82      E      71           -
LGA    V      83      G      72           -
LGA    A      84      K      73           -
LGA    A      85      K      74           -
LGA    F      86      V      75           -
LGA    C      87      T      76           -
LGA    D      88      D      77           -
LGA    E      89      L      78           -
LGA    L      90      T      79           -
LGA    -       -      G      80           -
LGA    -       -      E      81           -
LGA    -       -      D      82           -
LGA    -       -      V      83           -
LGA    -       -      A      84           -
LGA    -       -      A      85           -
LGA    -       -      F      86           -
LGA    M      91      C      87          4.165
LGA    K      92      D      88           #
LGA    -       -      E      89           -
LGA    -       -      L      90           -
LGA    D      93      M      91           #
LGA    T      94      K      92           -
LGA    K      95      D      93           -
LGA    T      96      T      94           #
LGA    -       -      K      95           -
LGA    -       -      T      96           -
LGA    W      97      W      97           #
LGA    M      98      -       -           -
LGA    D      99      -       -           -
LGA    K     100      M      98          4.395
LGA    Y     101      D      99           -
LGA    R     102      K     100           -
LGA    -       -      Y     101           -
LGA    T     103      R     102           #
LGA    K     104      T     103           -
LGA    L     105      K     104           -
LGA    N     106      L     105           -
LGA    D     107      N     106           -
LGA    S     108      D     107           -
LGA    I     109      S     108           -
LGA    G     110      I     109           -
LGA    R     111      G     110           -
LGA    D     112      R     111           -
LGA    -       -      D     112           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  112  112    5.0     43    2.40    74.42     30.105     1.718

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.660365 * X  +   0.652377 * Y  +  -0.371917 * Z  +  21.134588
  Y_new =  -0.605402 * X  +   0.169469 * Y  +  -0.777669 * Z  +  29.568855
  Z_new =  -0.444305 * X  +   0.738704 * Y  +   0.506862 * Z  +   0.260327 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.969427   -2.172166  [ DEG:    55.5440   -124.4560 ]
  Theta =   0.460398    2.681194  [ DEG:    26.3789    153.6211 ]
  Phi   =  -0.742003    2.399590  [ DEG:   -42.5136    137.4864 ]
 
# 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_4                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS393_4.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  112  112   5.0   43   2.40   74.42  30.105
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS393_4
PFRMAT TS
TARGET T0283
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      29.336   6.399  26.592  1.00 25.00           C
ATOM      2  CA  SER     2      27.523   7.792  23.572  1.00 25.00           C
ATOM      3  CA  PHE     3      28.895   8.416  20.100  1.00 25.00           C
ATOM      4  CA  ILE     4      27.709   5.817  17.548  1.00 25.00           C
ATOM      5  CA  GLU     5      24.413   7.716  17.108  1.00 25.00           C
ATOM      6  CA  LYS     6      26.339  10.985  16.577  1.00 25.00           C
ATOM      7  CA  MET     7      28.561   9.280  13.966  1.00 25.00           C
ATOM      8  CA  ILE     8      25.459   7.934  12.168  1.00 25.00           C
ATOM      9  CA  GLY     9      23.909  11.435  12.169  1.00 25.00           C
ATOM     10  CA  SER    10      27.145  12.895  10.731  1.00 25.00           C
ATOM     11  CA  LEU    11      27.167  10.216   7.995  1.00 25.00           C
ATOM     12  CA  ASN    12      23.519  11.016   7.148  1.00 25.00           C
ATOM     13  CA  ASP    13      24.358  14.747   6.943  1.00 25.00           C
ATOM     14  CA  LYS    14      27.310  13.980   4.626  1.00 25.00           C
ATOM     15  CA  ARG    15      25.040  11.845   2.401  1.00 25.00           C
ATOM     16  CA  GLU    16      22.473  14.683   2.256  1.00 25.00           C
ATOM     17  CA  TRP    17      25.229  17.162   1.296  1.00 25.00           C
ATOM     18  CA  LYS    18      26.435  14.792  -1.460  1.00 25.00           C
ATOM     19  CA  ALA    19      22.854  14.466  -2.779  1.00 25.00           C
ATOM     20  CA  MET    20      22.488  18.278  -2.800  1.00 25.00           C
ATOM     21  CA  GLU    21      25.791  18.610  -4.709  1.00 25.00           C
ATOM     22  CA  ALA    22      24.605  16.012  -7.261  1.00 25.00           C
ATOM     23  CA  ARG    23      21.309  17.912  -7.700  1.00 25.00           C
ATOM     24  CA  ALA    24      23.235  21.179  -8.231  1.00 25.00           C
ATOM     25  CA  LYS    25      25.458  19.474 -10.842  1.00 25.00           C
ATOM     26  CA  ALA    26      22.355  18.128 -12.640  1.00 25.00           C
ATOM     27  CA  LEU    27      21.459  21.853 -12.682  1.00 25.00           C
ATOM     28  CA  PRO    28      22.501  25.427 -11.820  1.00 25.00           C
ATOM     29  CA  LYS    29      24.298  27.471 -14.558  1.00 25.00           C
ATOM     30  CA  GLU    30      25.094  30.771 -12.785  1.00 25.00           C
ATOM     31  CA  TYR    31      22.364  32.543 -14.804  1.00 25.00           C
ATOM     32  CA  HIS    32      19.862  29.795 -13.880  1.00 25.00           C
ATOM     33  CA  HIS    33      20.807  30.146 -10.185  1.00 25.00           C
ATOM     34  CA  ALA    34      20.326  33.940 -10.397  1.00 25.00           C
ATOM     35  CA  TYR    35      16.894  33.440 -12.021  1.00 25.00           C
ATOM     36  CA  LYS    36      15.912  30.987  -9.248  1.00 25.00           C
ATOM     37  CA  ALA    37      17.030  33.507  -6.589  1.00 25.00           C
ATOM     38  CA  ILE    38      14.971  36.252  -8.289  1.00 25.00           C
ATOM     39  CA  GLN    39      11.913  33.947  -8.360  1.00 25.00           C
ATOM     40  CA  LYS    40      12.381  33.171  -4.640  1.00 25.00           C
ATOM     41  CA  TYR    41      12.621  36.913  -3.864  1.00 25.00           C
ATOM     42  CA  MET    42       9.415  37.558  -5.858  1.00 25.00           C
ATOM     43  CA  TRP    43       7.633  34.759  -3.944  1.00 25.00           C
ATOM     44  CA  THR    44       8.804  36.254  -0.618  1.00 25.00           C
ATOM     45  CA  SER    45      12.099  36.338   1.298  1.00 25.00           C
ATOM     46  CA  GLY    46      11.787  40.086   0.711  1.00 25.00           C
ATOM     47  CA  GLY    47       8.355  41.537   0.058  1.00 25.00           C
ATOM     48  CA  PRO    48       7.215  42.224  -3.520  1.00 25.00           C
ATOM     49  CA  THR    49       6.013  41.187  -6.961  1.00 25.00           C
ATOM     50  CA  ASP    50       9.453  41.853  -8.485  1.00 25.00           C
ATOM     51  CA  TRP    51      10.694  45.499  -8.451  1.00 25.00           C
ATOM     52  CA  GLN    52      14.341  46.063  -9.475  1.00 25.00           C
ATOM     53  CA  ASP    53      15.330  46.501  -5.801  1.00 25.00           C
ATOM     54  CA  THR    54      13.503  43.259  -4.898  1.00 25.00           C
ATOM     55  CA  LYS    55      15.312  41.421  -7.729  1.00 25.00           C
ATOM     56  CA  ARG    56      18.674  42.776  -6.492  1.00 25.00           C
ATOM     57  CA  ILE    57      17.860  41.617  -2.934  1.00 25.00           C
ATOM     58  CA  PHE    58      16.944  38.139  -4.250  1.00 25.00           C
ATOM     59  CA  GLY    59      20.239  37.979  -6.194  1.00 25.00           C
ATOM     60  CA  GLY    60      22.174  38.987  -3.047  1.00 25.00           C
ATOM     61  CA  ILE    61      20.370  36.271  -1.039  1.00 25.00           C
ATOM     62  CA  LEU    62      21.225  33.680  -3.727  1.00 25.00           C
ATOM     63  CA  ASP    63      24.895  34.770  -3.645  1.00 25.00           C
ATOM     64  CA  LEU    64      24.929  34.456   0.172  1.00 25.00           C
ATOM     65  CA  PHE    65      23.410  30.949  -0.080  1.00 25.00           C
ATOM     66  CA  GLU    66      26.066  29.955  -2.653  1.00 25.00           C
ATOM     67  CA  GLU    67      28.826  31.281  -0.351  1.00 25.00           C
ATOM     68  CA  GLY    68      27.374  29.288   2.579  1.00 25.00           C
ATOM     69  CA  ALA    69      27.282  26.129   0.417  1.00 25.00           C
ATOM     70  CA  ALA    70      30.929  26.693  -0.607  1.00 25.00           C
ATOM     71  CA  GLU    71      30.283  27.748  -4.240  1.00 25.00           C
ATOM     72  CA  GLY    72      28.083  28.346  -7.297  1.00 25.00           C
ATOM     73  CA  LYS    73      24.322  27.586  -7.499  1.00 25.00           C
ATOM     74  CA  LYS    74      20.905  25.963  -7.094  1.00 25.00           C
ATOM     75  CA  VAL    75      17.143  25.529  -6.655  1.00 25.00           C
ATOM     76  CA  THR    76      16.980  25.558 -10.481  1.00 25.00           C
ATOM     77  CA  ASP    77      14.556  22.594 -10.425  1.00 25.00           C
ATOM     78  CA  LEU    78      12.339  24.644  -8.160  1.00 25.00           C
ATOM     79  CA  THR    79      11.652  21.675  -5.953  1.00 25.00           C
ATOM     80  CA  GLY    80      10.820  18.482  -4.088  1.00 25.00           C
ATOM     81  CA  GLU    81       8.987  20.324  -1.275  1.00 25.00           C
ATOM     82  CA  ASP    82      11.665  19.217   1.229  1.00 25.00           C
ATOM     83  CA  VAL    83      14.416  20.449  -1.132  1.00 25.00           C
ATOM     84  CA  ALA    84      12.631  23.818  -1.495  1.00 25.00           C
ATOM     85  CA  ALA    85      12.348  24.106   2.313  1.00 25.00           C
ATOM     86  CA  PHE    86      16.080  23.327   2.675  1.00 25.00           C
ATOM     87  CA  CYS    87      16.916  26.000   0.062  1.00 25.00           C
ATOM     88  CA  ASP    88      14.741  28.540   1.929  1.00 25.00           C
ATOM     89  CA  GLU    89      16.509  27.675   5.214  1.00 25.00           C
ATOM     90  CA  LEU    90      19.918  28.125   3.528  1.00 25.00           C
ATOM     91  CA  MET    91      18.814  31.524   2.149  1.00 25.00           C
ATOM     92  CA  LYS    92      17.637  32.583   5.636  1.00 25.00           C
ATOM     93  CA  ASP    93      20.997  31.506   7.125  1.00 25.00           C
ATOM     94  CA  THR    94      22.856  33.511   4.442  1.00 25.00           C
ATOM     95  CA  LYS    95      20.698  36.581   5.206  1.00 25.00           C
ATOM     96  CA  THR    96      21.438  36.200   8.945  1.00 25.00           C
ATOM     97  CA  TRP    97      25.187  35.952   8.204  1.00 25.00           C
ATOM     98  CA  MET    98      24.993  39.109   6.043  1.00 25.00           C
ATOM     99  CA  ASP    99      23.159  40.951   8.857  1.00 25.00           C
ATOM    100  CA  LYS   100      25.837  39.844  11.361  1.00 25.00           C
ATOM    101  CA  TYR   101      28.590  41.076   8.999  1.00 25.00           C
ATOM    102  CA  ARG   102      26.803  44.445   8.637  1.00 25.00           C
ATOM    103  CA  THR   103      26.520  44.732  12.445  1.00 25.00           C
ATOM    104  CA  LYS   104      30.253  43.954  12.806  1.00 25.00           C
ATOM    105  CA  LEU   105      31.088  46.626  10.194  1.00 25.00           C
ATOM    106  CA  ASN   106      28.914  49.167  12.061  1.00 25.00           C
ATOM    107  CA  ASP   107      30.682  48.301  15.346  1.00 25.00           C
ATOM    108  CA  SER   108      34.091  48.752  13.659  1.00 25.00           C
ATOM    109  CA  ILE   109      32.987  52.150  12.281  1.00 25.00           C
ATOM    110  CA  GLY   110      35.766  51.731   9.769  1.00 25.00           C
ATOM    111  CA  ARG   111      37.711  49.431   7.379  1.00 25.00           C
ATOM    112  CA  ASP   112      38.412  46.389   5.285  1.00 25.00           C
TER
END
