
#######################################################
#                                                     #
#                        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 T0283TS168_5
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS168_5.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           -
LGA    -       -      I       4           -
LGA    -       -      E       5           -
LGA    F       3      K       6          3.539
LGA    I       4      M       7          3.020
LGA    -       -      I       8           -
LGA    E       5      G       9          1.127
LGA    K       6      S      10          1.189
LGA    M       7      L      11          1.145
LGA    I       8      N      12          1.139
LGA    G       9      D      13          1.102
LGA    S      10      K      14          0.755
LGA    L      11      R      15          0.790
LGA    N      12      E      16          1.087
LGA    D      13      W      17          0.705
LGA    K      14      K      18          0.468
LGA    R      15      A      19          0.901
LGA    E      16      M      20          0.601
LGA    W      17      E      21          0.225
LGA    K      18      A      22          0.803
LGA    A      19      R      23          0.835
LGA    M      20      A      24          0.667
LGA    E      21      K      25          0.987
LGA    A      22      A      26          1.453
LGA    R      23      L      27          2.065
LGA    A      24      P      28          2.911
LGA    K      25      K      29           #
LGA    A      26      E      30           -
LGA    L      27      Y      31           -
LGA    P      28      H      32           -
LGA    K      29      H      33           -
LGA    -       -      A      34           -
LGA    -       -      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    E      30      G      60           #
LGA    -       -      I      61           -
LGA    -       -      L      62           -
LGA    -       -      D      63           -
LGA    -       -      L      64           -
LGA    Y      31      F      65          2.439
LGA    H      32      E      66          0.944
LGA    H      33      E      67          2.251
LGA    A      34      G      68          3.913
LGA    Y      35      A      69          3.242
LGA    K      36      A      70          4.733
LGA    A      37      -       -           -
LGA    I      38      -       -           -
LGA    Q      39      E      71          4.341
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      G      72          4.498
LGA    Q      52      K      73          5.637
LGA    D      53      K      74          1.339
LGA    T      54      -       -           -
LGA    K      55      -       -           -
LGA    R      56      -       -           -
LGA    I      57      V      75          2.790
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    V      75      -       -           -
LGA    T      76      -       -           -
LGA    D      77      -       -           -
LGA    L      78      -       -           -
LGA    T      79      -       -           -
LGA    G      80      T      76           #
LGA    E      81      D      77           -
LGA    -       -      L      78           -
LGA    -       -      T      79           -
LGA    D      82      G      80           #
LGA    V      83      E      81          1.893
LGA    A      84      D      82          2.855
LGA    A      85      -       -           -
LGA    F      86      -       -           -
LGA    C      87      V      83          1.251
LGA    D      88      A      84          3.150
LGA    E      89      A      85          3.530
LGA    L      90      F      86          2.021
LGA    M      91      C      87          1.175
LGA    K      92      D      88          1.711
LGA    D      93      E      89          2.948
LGA    T      94      L      90          2.605
LGA    K      95      M      91          1.200
LGA    T      96      K      92          2.861
LGA    W      97      D      93           #
LGA    M      98      T      94          3.429
LGA    D      99      -       -           -
LGA    K     100      -       -           -
LGA    Y     101      -       -           -
LGA    R     102      K      95          5.277
LGA    T     103      T      96           -
LGA    K     104      W      97           -
LGA    L     105      M      98           -
LGA    N     106      D      99           -
LGA    D     107      K     100           -
LGA    S     108      Y     101           -
LGA    I     109      R     102           -
LGA    G     110      T     103           -
LGA    R     111      K     104           -
LGA    D     112      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)  112  112    5.0     47    2.52     4.26     30.043     1.791

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.585503 * X  +   0.564159 * Y  +   0.582160 * Z  +  18.876581
  Y_new =   0.776377 * X  +   0.183569 * Y  +   0.602943 * Z  +  27.976458
  Z_new =   0.233290 * X  +   0.805001 * Y  +  -0.545480 * Z  +  -3.865644 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.166340   -0.975253  [ DEG:   124.1221    -55.8779 ]
  Theta =  -0.235459   -2.906133  [ DEG:   -13.4908   -166.5092 ]
  Phi   =   2.216947   -0.924646  [ DEG:   127.0217    -52.9783 ]
 
# 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: T0283TS168_5                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS168_5.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  112  112   5.0   47   2.52    4.26  30.043
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS168_5
PFRMAT TS
TARGET T0283
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      35.895  10.595  10.572  1.00 25.00           C
ATOM      2  CA  SER     2      32.270  11.216  11.635  1.00 25.00           C
ATOM      3  CA  PHE     3      29.904  10.556  14.533  1.00 25.00           C
ATOM      4  CA  ILE     4      26.780   8.928  13.031  1.00 25.00           C
ATOM      5  CA  GLU     5      24.982  12.310  13.044  1.00 25.00           C
ATOM      6  CA  LYS     6      27.981  13.939  11.309  1.00 25.00           C
ATOM      7  CA  MET     7      27.988  11.167   8.665  1.00 25.00           C
ATOM      8  CA  ILE     8      24.237  11.677   8.086  1.00 25.00           C
ATOM      9  CA  GLY     9      24.783  15.448   7.698  1.00 25.00           C
ATOM     10  CA  SER    10      27.596  14.805   5.179  1.00 25.00           C
ATOM     11  CA  LEU    11      25.323  12.434   3.209  1.00 25.00           C
ATOM     12  CA  ASN    12      22.551  15.076   3.179  1.00 25.00           C
ATOM     13  CA  ASP    13      25.038  17.705   1.925  1.00 25.00           C
ATOM     14  CA  LYS    14      26.198  15.326  -0.842  1.00 25.00           C
ATOM     15  CA  ARG    15      22.559  14.698  -1.861  1.00 25.00           C
ATOM     16  CA  GLU    16      21.914  18.472  -1.972  1.00 25.00           C
ATOM     17  CA  TRP    17      25.027  18.964  -4.148  1.00 25.00           C
ATOM     18  CA  LYS    18      23.842  16.196  -6.514  1.00 25.00           C
ATOM     19  CA  ALA    19      20.391  17.841  -6.750  1.00 25.00           C
ATOM     20  CA  MET    20      22.026  21.214  -7.536  1.00 25.00           C
ATOM     21  CA  GLU    21      24.159  19.574 -10.259  1.00 25.00           C
ATOM     22  CA  ALA    22      21.035  17.946 -11.762  1.00 25.00           C
ATOM     23  CA  ARG    23      19.238  21.328 -11.748  1.00 25.00           C
ATOM     24  CA  ALA    24      22.238  22.957 -13.484  1.00 25.00           C
ATOM     25  CA  LYS    25      22.244  20.186 -16.128  1.00 25.00           C
ATOM     26  CA  ALA    26      18.493  20.695 -16.707  1.00 25.00           C
ATOM     27  CA  LEU    27      15.577  19.278 -14.648  1.00 25.00           C
ATOM     28  CA  PRO    28      15.859  17.683 -11.190  1.00 25.00           C
ATOM     29  CA  LYS    29      15.355  19.150  -7.720  1.00 25.00           C
ATOM     30  CA  GLU    30      14.924  22.423  -5.779  1.00 25.00           C
ATOM     31  CA  TYR    31      16.682  24.348  -8.584  1.00 25.00           C
ATOM     32  CA  HIS    32      14.391  22.706 -11.178  1.00 25.00           C
ATOM     33  CA  HIS    33      11.318  23.653  -9.099  1.00 25.00           C
ATOM     34  CA  ALA    34      12.564  27.265  -8.854  1.00 25.00           C
ATOM     35  CA  TYR    35      13.093  27.365 -12.646  1.00 25.00           C
ATOM     36  CA  LYS    36       9.552  26.018 -13.201  1.00 25.00           C
ATOM     37  CA  ALA    37       8.142  28.687 -10.843  1.00 25.00           C
ATOM     38  CA  ILE    38      10.062  31.408 -12.735  1.00 25.00           C
ATOM     39  CA  GLN    39       8.694  30.094 -16.062  1.00 25.00           C
ATOM     40  CA  LYS    40       5.138  30.130 -14.643  1.00 25.00           C
ATOM     41  CA  TYR    41       5.629  33.731 -13.435  1.00 25.00           C
ATOM     42  CA  MET    42       6.904  34.745 -16.902  1.00 25.00           C
ATOM     43  CA  TRP    43       3.858  33.093 -18.532  1.00 25.00           C
ATOM     44  CA  THR    44       1.529  34.953 -16.127  1.00 25.00           C
ATOM     45  CA  SER    45       2.208  37.226 -13.213  1.00 25.00           C
ATOM     46  CA  GLY    46       5.402  38.917 -14.275  1.00 25.00           C
ATOM     47  CA  GLY    47       6.282  39.766 -17.879  1.00 25.00           C
ATOM     48  CA  PRO    48       9.877  39.050 -16.855  1.00 25.00           C
ATOM     49  CA  THR    49      11.255  37.475 -19.974  1.00 25.00           C
ATOM     50  CA  ASP    50      11.524  34.170 -21.923  1.00 25.00           C
ATOM     51  CA  TRP    51      14.249  31.818 -20.613  1.00 25.00           C
ATOM     52  CA  GLN    52      15.631  35.000 -18.989  1.00 25.00           C
ATOM     53  CA  ASP    53      14.765  33.634 -15.518  1.00 25.00           C
ATOM     54  CA  THR    54      16.524  30.335 -16.351  1.00 25.00           C
ATOM     55  CA  LYS    55      19.618  32.255 -17.537  1.00 25.00           C
ATOM     56  CA  ARG    56      19.625  34.295 -14.296  1.00 25.00           C
ATOM     57  CA  ILE    57      19.368  31.074 -12.239  1.00 25.00           C
ATOM     58  CA  PHE    58      22.290  29.561 -14.199  1.00 25.00           C
ATOM     59  CA  GLY    59      24.371  32.715 -13.578  1.00 25.00           C
ATOM     60  CA  GLY    60      23.566  32.541  -9.839  1.00 25.00           C
ATOM     61  CA  ILE    61      24.603  28.856  -9.762  1.00 25.00           C
ATOM     62  CA  LEU    62      27.888  29.718 -11.532  1.00 25.00           C
ATOM     63  CA  ASP    63      28.549  32.511  -8.998  1.00 25.00           C
ATOM     64  CA  LEU    64      27.874  30.086  -6.112  1.00 25.00           C
ATOM     65  CA  PHE    65      30.286  27.542  -7.652  1.00 25.00           C
ATOM     66  CA  GLU    66      32.963  30.259  -8.007  1.00 25.00           C
ATOM     67  CA  GLU    67      32.461  31.267  -4.347  1.00 25.00           C
ATOM     68  CA  GLY    68      32.798  27.608  -3.267  1.00 25.00           C
ATOM     69  CA  ALA    69      36.023  27.279  -5.307  1.00 25.00           C
ATOM     70  CA  ALA    70      37.404  30.460  -3.683  1.00 25.00           C
ATOM     71  CA  GLU    71      37.020  33.674  -5.762  1.00 25.00           C
ATOM     72  CA  GLY    72      35.058  36.412  -7.467  1.00 25.00           C
ATOM     73  CA  LYS    73      32.738  37.336 -10.410  1.00 25.00           C
ATOM     74  CA  LYS    74      29.149  37.162 -11.753  1.00 25.00           C
ATOM     75  CA  VAL    75      27.357  37.770  -8.518  1.00 25.00           C
ATOM     76  CA  THR    76      26.404  39.018  -5.024  1.00 25.00           C
ATOM     77  CA  ASP    77      26.077  42.592  -6.364  1.00 25.00           C
ATOM     78  CA  LEU    78      23.852  41.343  -9.221  1.00 25.00           C
ATOM     79  CA  THR    79      22.692  44.572 -10.960  1.00 25.00           C
ATOM     80  CA  GLY    80      19.939  45.048 -13.539  1.00 25.00           C
ATOM     81  CA  GLU    81      18.038  46.800 -10.714  1.00 25.00           C
ATOM     82  CA  ASP    82      15.102  44.381 -11.155  1.00 25.00           C
ATOM     83  CA  VAL    83      17.506  41.402 -11.023  1.00 25.00           C
ATOM     84  CA  ALA    84      19.090  42.789  -7.824  1.00 25.00           C
ATOM     85  CA  ALA    85      15.620  43.221  -6.263  1.00 25.00           C
ATOM     86  CA  PHE    86      14.724  39.616  -7.201  1.00 25.00           C
ATOM     87  CA  CYS    87      17.989  38.372  -5.633  1.00 25.00           C
ATOM     88  CA  ASP    88      17.233  40.341  -2.437  1.00 25.00           C
ATOM     89  CA  GLU    89      13.714  38.836  -2.311  1.00 25.00           C
ATOM     90  CA  LEU    90      15.175  35.322  -2.747  1.00 25.00           C
ATOM     91  CA  MET    91      17.671  35.981   0.082  1.00 25.00           C
ATOM     92  CA  LYS    92      14.826  37.200   2.340  1.00 25.00           C
ATOM     93  CA  ASP    93      12.802  34.050   1.529  1.00 25.00           C
ATOM     94  CA  THR    94      15.833  31.860   2.357  1.00 25.00           C
ATOM     95  CA  LYS    95      16.287  33.703   5.683  1.00 25.00           C
ATOM     96  CA  THR    96      12.582  33.187   6.504  1.00 25.00           C
ATOM     97  CA  TRP    97      12.897  29.457   5.696  1.00 25.00           C
ATOM     98  CA  MET    98      15.976  29.202   7.959  1.00 25.00           C
ATOM     99  CA  ASP    99      14.076  30.955  10.785  1.00 25.00           C
ATOM    100  CA  LYS   100      11.140  28.534  10.345  1.00 25.00           C
ATOM    101  CA  TYR   101      13.544  25.556  10.476  1.00 25.00           C
ATOM    102  CA  ARG   102      15.128  26.944  13.674  1.00 25.00           C
ATOM    103  CA  THR   103      11.657  27.373  15.236  1.00 25.00           C
ATOM    104  CA  LYS   104      10.762  23.770  14.298  1.00 25.00           C
ATOM    105  CA  LEU   105      14.027  22.526  15.866  1.00 25.00           C
ATOM    106  CA  ASN   106      13.271  24.495  19.063  1.00 25.00           C
ATOM    107  CA  ASP   107       9.752  22.990  19.188  1.00 25.00           C
ATOM    108  CA  SER   108      11.213  19.476  18.752  1.00 25.00           C
ATOM    109  CA  ILE   109      13.709  20.136  21.581  1.00 25.00           C
ATOM    110  CA  GLY   110      11.219  18.629  24.033  1.00 25.00           C
ATOM    111  CA  ARG   111      10.212  15.052  23.558  1.00 25.00           C
ATOM    112  CA  ASP   112      11.422  14.199  20.087  1.00 25.00           C
TER
END
