
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS393_5
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS393_5.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    M       4      L       6           -
LGA    N       5      K       7           -
LGA    L       6      R       8           -
LGA    K       7      -       -           -
LGA    R       8      -       -           -
LGA    E       9      -       -           -
LGA    Q      10      -       -           -
LGA    E      11      -       -           -
LGA    F      12      -       -           -
LGA    V      13      -       -           -
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      -       -           -
LGA    H      17      -       -           -
LGA    F      18      -       -           -
LGA    D      19      -       -           -
LGA    A      20      -       -           -
LGA    R      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      E       9           #
LGA    E      24      -       -           -
LGA    W      25      -       -           -
LGA    E      26      -       -           -
LGA    N      27      Q      10          4.805
LGA    E      28      E      11           -
LGA    N      29      -       -           -
LGA    G      30      -       -           -
LGA    A      31      -       -           -
LGA    P      32      -       -           -
LGA    E      33      -       -           -
LGA    T      34      -       -           -
LGA    K      35      -       -           -
LGA    V      36      F      12           #
LGA    D      37      V      13           #
LGA    -       -      S      14           -
LGA    V      38      Q      15           #
LGA    N      39      Y      16          2.852
LGA    F      40      H      17          4.550
LGA    Q      41      F      18          3.214
LGA    L      42      D      19           #
LGA    L      43      A      20           -
LGA    Q      44      R      21          4.207
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    -       -      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    H      45      N      29           #
LGA    D      46      G      30          2.962
LGA    Q      47      A      31          2.685
LGA    E      48      P      32          3.435
LGA    N      49      E      33          5.320
LGA    Q      50      T      34           -
LGA    V      51      K      35           -
LGA    T      52      V      36           -
LGA    S      53      D      37           -
LGA    -       -      V      38           -
LGA    -       -      N      39           -
LGA    -       -      F      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    -       -      L      43           -
LGA    -       -      Q      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      I      55           -
LGA    -       -      V      56           -
LGA    -       -      I      57           -
LGA    -       -      L      58           -
LGA    -       -      S      59           -
LGA    -       -      F      60           -
LGA    -       -      M      61           -
LGA    -       -      I      62           -
LGA    -       -      V      63           -
LGA    -       -      F      64           -
LGA    -       -      D      65           -
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    L      54      V      68           #
LGA    I      55      I      69          4.780
LGA    V      56      S      70          4.490
LGA    I      57      -       -           -
LGA    L      58      -       -           -
LGA    S      59      -       -           -
LGA    F      60      -       -           -
LGA    M      61      -       -           -
LGA    I      62      -       -           -
LGA    V      63      -       -           -
LGA    F      64      -       -           -
LGA    D      65      -       -           -
LGA    K      66      -       -           -
LGA    F      67      -       -           -
LGA    V      68      -       -           -
LGA    I      69      -       -           -
LGA    S      70      -       -           -
LGA    G      71      -       -           -
LGA    T      72      -       -           -
LGA    I      73      -       -           -
LGA    S      74      -       -           -
LGA    Q      75      -       -           -
LGA    V      76      G      71          5.046
LGA    N      77      T      72          1.634
LGA    H      78      I      73          3.491
LGA    I      79      -       -           -
LGA    D      80      -       -           -
LGA    G      81      -       -           -
LGA    R      82      -       -           -
LGA    I      83      S      74           #
LGA    V      84      Q      75           -
LGA    -       -      V      76           -
LGA    -       -      N      77           -
LGA    -       -      H      78           -
LGA    -       -      I      79           -
LGA    -       -      D      80           -
LGA    -       -      G      81           -
LGA    -       -      R      82           -
LGA    -       -      I      83           -
LGA    -       -      V      84           -
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    N      85      P      87           #
LGA    E      86      S      88          1.867
LGA    P      87      E      89          1.970
LGA    S      88      L      90          2.169
LGA    -       -      N      91           -
LGA    -       -      Q      92           -
LGA    -       -      E      93           -
LGA    E      89      E      94          4.917
LGA    L      90      -       -           -
LGA    N      91      -       -           -
LGA    Q      92      V      95          2.829
LGA    E      93      E      96          2.086
LGA    E      94      T      97          1.667
LGA    V      95      L      98          2.554
LGA    E      96      A      99          2.519
LGA    T      97      R     100          2.692
LGA    L      98      P     101          2.344
LGA    A      99      C     102          2.316
LGA    R     100      L     103          2.153
LGA    P     101      N     104          1.555
LGA    C     102      M     105          1.262
LGA    L     103      L     106          1.160
LGA    N     104      N     107          1.102
LGA    M     105      R     108          0.696
LGA    L     106      L     109          1.225
LGA    N     107      T     110          0.904
LGA    R     108      Y     111          1.254
LGA    L     109      E     112          1.952
LGA    T     110      V     113          1.275
LGA    Y     111      T     114          1.520
LGA    E     112      E     115          3.012
LGA    V     113      I     116          2.718
LGA    T     114      A     117          0.973
LGA    -       -      L     118           -
LGA    E     115      D     119          2.349
LGA    I     116      L     120           -
LGA    A     117      P     121           -
LGA    L     118      G     122           -
LGA    D     119      I     123           -
LGA    L     120      N     124           -
LGA    P     121      L     125           -
LGA    G     122      E     126           -
LGA    I     123      F     127           -
LGA    N     124      -       -           -
LGA    L     125      -       -           -
LGA    E     126      -       -           -
LGA    F     127      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     42    2.88    16.67     23.308     1.410

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.961899 * X  +  -0.124678 * Y  +  -0.243324 * Z  +  13.063189
  Y_new =  -0.267481 * X  +   0.613414 * Y  +   0.743087 * Z  +  24.011877
  Z_new =   0.056611 * X  +   0.779858 * Y  +  -0.623391 * Z  +   5.083628 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.245149   -0.896443  [ DEG:   128.6376    -51.3624 ]
  Theta =  -0.056641   -3.084951  [ DEG:    -3.2453   -176.7547 ]
  Phi   =  -2.870368    0.271224  [ DEG:  -164.4600     15.5400 ]
 
# 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: T0383TS393_5                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS393_5.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   42   2.88   16.67  23.308
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS393_5
PFRMAT TS
TARGET T0383
MODEL 5
PARENT N/A
ATOM      1  CA  SER     1      19.456   1.759  -1.770  1.00 25.00           C
ATOM      2  CA  ASN     2      16.206   1.587   0.190  1.00 25.00           C
ATOM      3  CA  ALA     3      15.102   5.033   1.447  1.00 25.00           C
ATOM      4  CA  MET     4      16.986   8.306   1.106  1.00 25.00           C
ATOM      5  CA  ASN     5      17.868  11.611   2.748  1.00 25.00           C
ATOM      6  CA  LEU     6      19.730  14.033   4.956  1.00 25.00           C
ATOM      7  CA  LYS     7      16.579  16.033   5.627  1.00 25.00           C
ATOM      8  CA  ARG     8      13.277  17.579   6.882  1.00 25.00           C
ATOM      9  CA  GLU     9      10.740  15.108   5.414  1.00 25.00           C
ATOM     10  CA  GLN    10       7.970  16.861   7.273  1.00 25.00           C
ATOM     11  CA  GLU    11       8.287  15.521  10.846  1.00 25.00           C
ATOM     12  CA  PHE    12      11.332  17.765  11.444  1.00 25.00           C
ATOM     13  CA  VAL    13       9.394  20.789  10.115  1.00 25.00           C
ATOM     14  CA  SER    14       6.460  19.958  12.431  1.00 25.00           C
ATOM     15  CA  GLN    15       8.853  19.686  15.407  1.00 25.00           C
ATOM     16  CA  TYR    16       8.635  15.908  15.883  1.00 25.00           C
ATOM     17  CA  HIS    17       4.841  15.784  15.956  1.00 25.00           C
ATOM     18  CA  PHE    18       5.048  17.498  19.370  1.00 25.00           C
ATOM     19  CA  ASP    19       4.254  15.630  22.512  1.00 25.00           C
ATOM     20  CA  ALA    20       6.247  17.705  24.924  1.00 25.00           C
ATOM     21  CA  ARG    21       8.401  20.806  25.224  1.00 25.00           C
ATOM     22  CA  ASN    22       8.506  20.517  21.434  1.00 25.00           C
ATOM     23  CA  PHE    23      11.723  22.466  20.796  1.00 25.00           C
ATOM     24  CA  GLU    24      13.650  20.016  23.022  1.00 25.00           C
ATOM     25  CA  TRP    25      15.174  18.361  19.923  1.00 25.00           C
ATOM     26  CA  GLU    26      16.210  21.791  18.570  1.00 25.00           C
ATOM     27  CA  ASN    27      17.818  22.661  21.935  1.00 25.00           C
ATOM     28  CA  GLU    28      19.715  19.334  21.916  1.00 25.00           C
ATOM     29  CA  ASN    29      19.569  17.649  25.305  1.00 25.00           C
ATOM     30  CA  GLY    30      17.819  14.905  23.338  1.00 25.00           C
ATOM     31  CA  ALA    31      19.824  14.444  20.180  1.00 25.00           C
ATOM     32  CA  PRO    32      21.499  16.686  17.630  1.00 25.00           C
ATOM     33  CA  GLU    33      20.723  16.345  13.952  1.00 25.00           C
ATOM     34  CA  THR    34      19.094  16.432  10.477  1.00 25.00           C
ATOM     35  CA  LYS    35      17.408  19.710  11.619  1.00 25.00           C
ATOM     36  CA  VAL    36      17.362  20.806   7.936  1.00 25.00           C
ATOM     37  CA  ASP    37      16.029  24.039   6.362  1.00 25.00           C
ATOM     38  CA  VAL    38      12.518  23.091   5.326  1.00 25.00           C
ATOM     39  CA  ASN    39      11.448  24.051   1.797  1.00 25.00           C
ATOM     40  CA  PHE    40      10.997  25.993  -1.471  1.00 25.00           C
ATOM     41  CA  GLN    41       9.415  26.747  -4.841  1.00 25.00           C
ATOM     42  CA  LEU    42       7.836  30.185  -4.182  1.00 25.00           C
ATOM     43  CA  LEU    43       5.265  31.961  -6.375  1.00 25.00           C
ATOM     44  CA  GLN    44       3.219  30.580  -9.265  1.00 25.00           C
ATOM     45  CA  HIS    45       0.014  30.378 -11.217  1.00 25.00           C
ATOM     46  CA  ASP    46      -1.528  33.808 -11.017  1.00 25.00           C
ATOM     47  CA  GLN    47       1.505  35.780  -9.759  1.00 25.00           C
ATOM     48  CA  GLU    48      -0.580  37.191  -6.872  1.00 25.00           C
ATOM     49  CA  ASN    49      -1.766  33.662  -5.972  1.00 25.00           C
ATOM     50  CA  GLN    50      -3.637  30.711  -7.479  1.00 25.00           C
ATOM     51  CA  VAL    51      -2.668  28.896  -4.278  1.00 25.00           C
ATOM     52  CA  THR    52      -0.821  25.661  -4.758  1.00 25.00           C
ATOM     53  CA  SER    53       2.783  25.535  -3.419  1.00 25.00           C
ATOM     54  CA  LEU    54       5.745  25.143  -1.023  1.00 25.00           C
ATOM     55  CA  ILE    55       7.408  27.002   1.906  1.00 25.00           C
ATOM     56  CA  VAL    56       9.315  29.670   3.777  1.00 25.00           C
ATOM     57  CA  ILE    57      11.408  27.864   6.470  1.00 25.00           C
ATOM     58  CA  LEU    58      11.337  25.787   9.694  1.00 25.00           C
ATOM     59  CA  SER    59      13.704  23.198  11.013  1.00 25.00           C
ATOM     60  CA  PHE    60      16.954  25.244  11.238  1.00 25.00           C
ATOM     61  CA  MET    61      20.431  24.379  12.515  1.00 25.00           C
ATOM     62  CA  ILE    62      21.529  24.596   8.879  1.00 25.00           C
ATOM     63  CA  VAL    63      22.918  21.125   9.121  1.00 25.00           C
ATOM     64  CA  PHE    64      26.016  19.367   7.841  1.00 25.00           C
ATOM     65  CA  ASP    65      29.374  19.510   9.681  1.00 25.00           C
ATOM     66  CA  LYS    66      31.426  20.411   6.585  1.00 25.00           C
ATOM     67  CA  PHE    67      29.506  22.551   4.008  1.00 25.00           C
ATOM     68  CA  VAL    68      26.215  24.228   4.950  1.00 25.00           C
ATOM     69  CA  ILE    69      23.443  21.779   4.055  1.00 25.00           C
ATOM     70  CA  SER    70      21.186  18.890   4.985  1.00 25.00           C
ATOM     71  CA  GLY    71      19.066  18.924   1.809  1.00 25.00           C
ATOM     72  CA  THR    72      15.789  20.770   2.275  1.00 25.00           C
ATOM     73  CA  ILE    73      12.653  18.628   1.853  1.00 25.00           C
ATOM     74  CA  SER    74       9.182  19.736   3.100  1.00 25.00           C
ATOM     75  CA  GLN    75       5.936  21.774   3.334  1.00 25.00           C
ATOM     76  CA  VAL    76       7.405  23.144   6.576  1.00 25.00           C
ATOM     77  CA  ASN    77       6.350  26.807   7.061  1.00 25.00           C
ATOM     78  CA  HIS    78       7.163  30.069   8.842  1.00 25.00           C
ATOM     79  CA  ILE    79       3.696  31.553   8.287  1.00 25.00           C
ATOM     80  CA  ASP    80       0.909  31.361  10.827  1.00 25.00           C
ATOM     81  CA  GLY    81       0.766  35.012  11.724  1.00 25.00           C
ATOM     82  CA  ARG    82       3.795  34.854  13.996  1.00 25.00           C
ATOM     83  CA  ILE    83       6.643  36.325  12.009  1.00 25.00           C
ATOM     84  CA  VAL    84       6.272  40.121  12.493  1.00 25.00           C
ATOM     85  CA  ASN    85       3.286  42.144  13.805  1.00 25.00           C
ATOM     86  CA  GLU    86       2.428  44.060  16.977  1.00 25.00           C
ATOM     87  CA  PRO    87       4.446  46.536  19.094  1.00 25.00           C
ATOM     88  CA  SER    88       7.542  45.080  20.772  1.00 25.00           C
ATOM     89  CA  GLU    89      10.544  42.834  20.327  1.00 25.00           C
ATOM     90  CA  LEU    90       8.411  40.232  18.446  1.00 25.00           C
ATOM     91  CA  ASN    91      10.278  41.305  15.318  1.00 25.00           C
ATOM     92  CA  GLN    92      13.617  40.590  17.003  1.00 25.00           C
ATOM     93  CA  GLU    93      15.994  41.836  14.271  1.00 25.00           C
ATOM     94  CA  GLU    94      18.378  38.924  14.984  1.00 25.00           C
ATOM     95  CA  VAL    95      15.463  36.451  14.767  1.00 25.00           C
ATOM     96  CA  GLU    96      14.381  37.982  11.427  1.00 25.00           C
ATOM     97  CA  THR    97      17.962  37.685  10.103  1.00 25.00           C
ATOM     98  CA  LEU    98      18.090  34.018  11.200  1.00 25.00           C
ATOM     99  CA  ALA    99      14.754  33.349   9.442  1.00 25.00           C
ATOM    100  CA  ARG   100      16.075  35.009   6.254  1.00 25.00           C
ATOM    101  CA  PRO   101      19.242  32.862   6.418  1.00 25.00           C
ATOM    102  CA  CYS   102      17.110  29.709   6.847  1.00 25.00           C
ATOM    103  CA  LEU   103      14.974  30.712   3.832  1.00 25.00           C
ATOM    104  CA  ASN   104      18.137  31.278   1.748  1.00 25.00           C
ATOM    105  CA  MET   105      19.465  27.839   2.785  1.00 25.00           C
ATOM    106  CA  LEU   106      16.131  26.228   1.807  1.00 25.00           C
ATOM    107  CA  ASN   107      16.250  27.988  -1.593  1.00 25.00           C
ATOM    108  CA  ARG   108      19.833  26.747  -2.136  1.00 25.00           C
ATOM    109  CA  LEU   109      18.759  23.180  -1.249  1.00 25.00           C
ATOM    110  CA  THR   110      15.839  23.420  -3.715  1.00 25.00           C
ATOM    111  CA  TYR   111      18.217  24.666  -6.447  1.00 25.00           C
ATOM    112  CA  GLU   112      20.601  21.754  -5.734  1.00 25.00           C
ATOM    113  CA  VAL   113      17.685  19.281  -5.951  1.00 25.00           C
ATOM    114  CA  THR   114      16.604  20.812  -9.292  1.00 25.00           C
ATOM    115  CA  GLU   115      20.185  20.515 -10.615  1.00 25.00           C
ATOM    116  CA  ILE   116      20.312  16.848  -9.517  1.00 25.00           C
ATOM    117  CA  ALA   117      16.977  16.180 -11.277  1.00 25.00           C
ATOM    118  CA  LEU   118      18.552  17.363 -14.590  1.00 25.00           C
ATOM    119  CA  ASP   119      21.589  15.082 -14.896  1.00 25.00           C
ATOM    120  CA  LEU   120      21.786  15.222 -18.675  1.00 25.00           C
ATOM    121  CA  PRO   121      19.417  14.952 -21.621  1.00 25.00           C
ATOM    122  CA  GLY   122      18.538  11.449 -20.463  1.00 25.00           C
ATOM    123  CA  ILE   123      18.909   8.752 -17.839  1.00 25.00           C
ATOM    124  CA  ASN   124      16.016   6.918 -19.512  1.00 25.00           C
ATOM    125  CA  LEU   125      12.783   8.872 -19.519  1.00 25.00           C
ATOM    126  CA  GLU   126       9.726   9.779 -17.360  1.00 25.00           C
ATOM    127  CA  PHE   127       6.815  11.977 -16.202  1.00 25.00           C
TER
END
