
#######################################################
#                                                     #
#                        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  156 (  156),  selected  156 , name T0364TS393_5
# Molecule2: number of CA atoms  153 ( 1220),  selected  153 , name T0364.pdb
# PARAMETERS: T0364TS393_5.T0364.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    P       2      P       2          5.096
LGA    A       3      A       3          3.658
LGA    L       4      L       4          1.541
LGA    I       5      I       5          2.744
LGA    T       6      T       6          1.256
LGA    Y       7      Y       7          2.029
LGA    R       8      R       8          2.492
LGA    T       9      T       9          3.549
LGA    T      10      T      10          2.550
LGA    V      11      V      11          1.025
LGA    Q      12      Q      12          4.372
LGA    E      13      E      13          2.016
LGA    D      14      D      14          2.455
LGA    W      15      W      15          2.206
LGA    V      16      V      16          3.630
LGA    D      17      D      17          4.161
LGA    Y      18      Y      18          3.698
LGA    N      19      N      19           #
LGA    G      20      G      20           #
LGA    H      21      H      21          4.200
LGA    L      22      L      22          2.396
LGA    R      23      R      23          3.134
LGA    D      24      D      24          2.323
LGA    A      25      A      25          2.608
LGA    F      26      F      26          2.575
LGA    Y      27      Y      27          2.512
LGA    L      28      L      28          2.834
LGA    L      29      L      29          2.352
LGA    I      30      I      30          2.466
LGA    F      31      F      31          2.530
LGA    S      32      S      32          2.234
LGA    Y      33      Y      33          2.679
LGA    A      34      A      34          2.451
LGA    T      35      T      35          2.243
LGA    D      36      D      36          2.754
LGA    A      37      A      37          2.955
LGA    L      38      L      38          2.436
LGA    M      39      M      39          2.802
LGA    D      40      D      40          3.132
LGA    R      41      R      41          2.917
LGA    I      42      I      42          2.902
LGA    G      43      G      43          4.034
LGA    L      44      -       -           -
LGA    D      45      -       -           -
LGA    A      46      -       -           -
LGA    D      47      L      44          5.060
LGA    S      48      D      45          3.623
LGA    R      49      A      46           #
LGA    G      50      -       -           -
LGA    Q      51      -       -           -
LGA    S      52      -       -           -
LGA    G      53      D      47           #
LGA    N      54      S      48           #
LGA    -       -      R      49           -
LGA    S      55      G      50          2.978
LGA    -       -      Q      51           -
LGA    -       -      S      52           -
LGA    -       -      G      53           -
LGA    -       -      N      54           -
LGA    L      56      S      55          2.513
LGA    F      57      L      56          3.637
LGA    T      58      F      57          1.578
LGA    L      59      T      58          2.825
LGA    E      60      L      59          2.219
LGA    A      61      E      60          4.023
LGA    H      62      A      61          4.271
LGA    I      63      H      62          3.678
LGA    N      64      I      63          1.693
LGA    Y      65      N      64          4.809
LGA    L      66      Y      65          1.610
LGA    -       -      L      66           -
LGA    H      67      H      67          1.034
LGA    E      68      E      68          4.533
LGA    V      69      V      69          3.810
LGA    K      70      K      70           #
LGA    L      71      L      71           #
LGA    G      72      G      72          4.123
LGA    T      73      T      73          4.946
LGA    E      74      E      74          1.833
LGA    V      75      V      75          2.626
LGA    W      76      W      76          1.573
LGA    V      77      V      77          1.517
LGA    Q      78      Q      78          4.164
LGA    T      79      T      79          3.583
LGA    Q      80      Q      80          3.568
LGA    I      81      -       -           -
LGA    L      82      I      81          2.163
LGA    G      83      L      82          3.546
LGA    F      84      G      83          2.196
LGA    D      85      F      84          5.028
LGA    R      86      D      85          3.124
LGA    K      87      R      86          4.466
LGA    -       -      K      87           -
LGA    R      88      R      88          2.362
LGA    L      89      L      89          2.300
LGA    H      90      H      90          3.657
LGA    V      91      V      91          3.892
LGA    Y      92      Y      92          2.311
LGA    H      93      H      93          3.309
LGA    S      94      S      94          1.350
LGA    L      95      L      95          2.406
LGA    H      96      H      96          0.776
LGA    R      97      R      97          1.372
LGA    A      98      A      98          1.780
LGA    G      99      G      99          2.346
LGA    F     100      F     100          4.547
LGA    D     101      D     101          2.017
LGA    E     102      E     102          1.036
LGA    V     103      V     103          1.143
LGA    L     104      L     104          2.796
LGA    A     105      A     105          4.416
LGA    A     106      A     106          3.236
LGA    S     107      S     107          3.852
LGA    E     108      E     108          2.526
LGA    Q     109      Q     109          3.390
LGA    M     110      M     110           #
LGA    L     111      L     111          1.817
LGA    L     112      L     112          4.518
LGA    H     113      H     113          1.920
LGA    V     114      V     114          1.177
LGA    D     115      D     115          0.422
LGA    L     116      L     116          4.563
LGA    A     117      Q     120          5.027
LGA    G     118      S     121           #
LGA    P     119      -       -           -
LGA    Q     120      -       -           -
LGA    S     121      -       -           -
LGA    A     122      A     122           #
LGA    P     123      P     123          3.730
LGA    F     124      F     124          3.892
LGA    G     125      G     125           #
LGA    H     126      -       -           -
LGA    T     127      H     126          4.859
LGA    T     128      T     127           #
LGA    V     129      T     128           #
LGA    C     130      V     129          4.583
LGA    R     131      C     130          0.676
LGA    L     132      R     131          1.971
LGA    -       -      L     132           -
LGA    N     133      N     133          2.580
LGA    H     134      H     134          4.038
LGA    L     135      -       -           -
LGA    V     136      L     135          3.951
LGA    E     137      V     136           -
LGA    Q     138      E     137           -
LGA    Q     139      Q     138           -
LGA    E     140      Q     139           -
LGA    G     141      E     140           -
LGA    A     142      G     141           -
LGA    Q     143      A     142           -
LGA    A     144      Q     143           -
LGA    P     145      A     144           -
LGA    Q     146      P     145           -
LGA    Y     147      Q     146           -
LGA    M     148      Y     147           -
LGA    G     149      M     148           -
LGA    R     150      G     149           -
LGA    T     151      R     150           -
LGA    I     152      T     151           -
LGA    K     153      I     152           -
LGA    L     154      K     153           -
LGA    P     155      L     154           -
LGA    A     156      P     155           -
LGA    -       -      A     156           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  156  153    5.0    110    3.13    76.36     39.837     3.409

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.838842 * X  +  -0.186257 * Y  +   0.511520 * Z  +  45.662983
  Y_new =   0.501356 * X  +   0.101777 * Y  +   0.859234 * Z  +  12.143263
  Z_new =  -0.212100 * X  +   0.977215 * Y  +   0.008006 * Z  +   4.737330 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.562603   -1.578989  [ DEG:    89.5306    -90.4694 ]
  Theta =   0.213723    2.927870  [ DEG:    12.2454    167.7546 ]
  Phi   =   2.602883   -0.538710  [ DEG:   149.1342    -30.8658 ]
 
# 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: T0364TS393_5                                  
REMARK     2: T0364.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0364TS393_5.T0364.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  156  153   5.0  110   3.13   76.36  39.837
REMARK  ---------------------------------------------------------- 
MOLECULE T0364TS393_5
PFRMAT TS
TARGET T0364
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      28.994  11.355  15.128  1.00 25.00           C
ATOM      2  CA  PRO     2      30.950  14.027  13.364  1.00 25.00           C
ATOM      3  CA  ALA     3      34.030  14.185  11.139  1.00 25.00           C
ATOM      4  CA  LEU     4      36.053  13.967   7.966  1.00 25.00           C
ATOM      5  CA  ILE     5      37.552  13.194   4.576  1.00 25.00           C
ATOM      6  CA  THR     6      39.710  11.890   1.766  1.00 25.00           C
ATOM      7  CA  TYR     7      39.207   9.225  -0.951  1.00 25.00           C
ATOM      8  CA  ARG     8      41.574   6.421  -2.146  1.00 25.00           C
ATOM      9  CA  THR     9      43.817   3.715  -3.701  1.00 25.00           C
ATOM     10  CA  THR    10      42.058   0.638  -5.161  1.00 25.00           C
ATOM     11  CA  VAL    11      43.027  -2.996  -4.769  1.00 25.00           C
ATOM     12  CA  GLN    12      42.331  -6.436  -6.256  1.00 25.00           C
ATOM     13  CA  GLU    13      43.881  -6.750  -9.743  1.00 25.00           C
ATOM     14  CA  ASP    14      47.032  -4.574  -9.707  1.00 25.00           C
ATOM     15  CA  TRP    15      48.320  -6.447  -6.625  1.00 25.00           C
ATOM     16  CA  VAL    16      51.149  -8.628  -5.330  1.00 25.00           C
ATOM     17  CA  ASP    17      53.183 -11.829  -5.934  1.00 25.00           C
ATOM     18  CA  TYR    18      52.286 -15.310  -7.221  1.00 25.00           C
ATOM     19  CA  ASN    19      51.794 -17.833  -4.422  1.00 25.00           C
ATOM     20  CA  GLY    20      50.223 -15.358  -2.074  1.00 25.00           C
ATOM     21  CA  HIS    21      48.519 -12.231  -0.844  1.00 25.00           C
ATOM     22  CA  LEU    22      47.446  -8.671  -0.031  1.00 25.00           C
ATOM     23  CA  ARG    23      49.836  -8.530   2.927  1.00 25.00           C
ATOM     24  CA  ASP    24      52.725  -6.308   3.835  1.00 25.00           C
ATOM     25  CA  ALA    25      53.835  -4.466   0.666  1.00 25.00           C
ATOM     26  CA  PHE    26      50.183  -4.099  -0.428  1.00 25.00           C
ATOM     27  CA  TYR    27      49.261  -2.719   3.023  1.00 25.00           C
ATOM     28  CA  LEU    28      52.153  -0.216   2.821  1.00 25.00           C
ATOM     29  CA  LEU    29      50.990   0.885  -0.657  1.00 25.00           C
ATOM     30  CA  ILE    30      47.422   1.349   0.654  1.00 25.00           C
ATOM     31  CA  PHE    31      48.744   3.437   3.581  1.00 25.00           C
ATOM     32  CA  SER    32      50.772   5.597   1.155  1.00 25.00           C
ATOM     33  CA  TYR    33      47.666   6.108  -1.027  1.00 25.00           C
ATOM     34  CA  ALA    34      45.635   7.120   2.059  1.00 25.00           C
ATOM     35  CA  THR    35      48.367   9.608   3.071  1.00 25.00           C
ATOM     36  CA  ASP    36      48.368  11.081  -0.464  1.00 25.00           C
ATOM     37  CA  ALA    37      44.556  11.432  -0.345  1.00 25.00           C
ATOM     38  CA  LEU    38      44.798  13.186   3.051  1.00 25.00           C
ATOM     39  CA  MET    39      47.446  15.575   1.655  1.00 25.00           C
ATOM     40  CA  ASP    40      45.204  16.341  -1.354  1.00 25.00           C
ATOM     41  CA  ARG    41      42.254  17.035   0.989  1.00 25.00           C
ATOM     42  CA  ILE    42      44.440  19.378   3.087  1.00 25.00           C
ATOM     43  CA  GLY    43      48.232  19.756   2.570  1.00 25.00           C
ATOM     44  CA  LEU    44      51.198  17.934   4.166  1.00 25.00           C
ATOM     45  CA  ASP    45      48.858  17.122   7.110  1.00 25.00           C
ATOM     46  CA  ALA    46      48.430  20.736   8.116  1.00 25.00           C
ATOM     47  CA  ASP    47      51.812  22.532   8.147  1.00 25.00           C
ATOM     48  CA  SER    48      51.310  23.593   4.503  1.00 25.00           C
ATOM     49  CA  ARG    49      47.816  24.916   5.343  1.00 25.00           C
ATOM     50  CA  GLY    50      49.245  26.882   8.303  1.00 25.00           C
ATOM     51  CA  GLN    51      51.956  28.364   6.040  1.00 25.00           C
ATOM     52  CA  SER    52      55.719  27.507   5.972  1.00 25.00           C
ATOM     53  CA  GLY    53      55.624  27.227   2.147  1.00 25.00           C
ATOM     54  CA  ASN    54      56.133  23.563   2.749  1.00 25.00           C
ATOM     55  CA  SER    55      56.137  19.733   2.395  1.00 25.00           C
ATOM     56  CA  LEU    56      55.928  16.233   3.867  1.00 25.00           C
ATOM     57  CA  PHE    57      58.558  13.503   3.552  1.00 25.00           C
ATOM     58  CA  THR    58      57.133  12.175   6.752  1.00 25.00           C
ATOM     59  CA  LEU    59      59.407  10.519   9.285  1.00 25.00           C
ATOM     60  CA  GLU    60      56.647   9.384  11.686  1.00 25.00           C
ATOM     61  CA  ALA    61      55.421   6.879   9.074  1.00 25.00           C
ATOM     62  CA  HIS    62      52.800   4.281   7.939  1.00 25.00           C
ATOM     63  CA  ILE    63      50.808   1.892  10.143  1.00 25.00           C
ATOM     64  CA  ASN    64      49.396  -1.640   9.994  1.00 25.00           C
ATOM     65  CA  TYR    65      47.018  -3.374   7.620  1.00 25.00           C
ATOM     66  CA  LEU    66      44.268  -5.724   8.844  1.00 25.00           C
ATOM     67  CA  HIS    67      41.207  -7.283   7.244  1.00 25.00           C
ATOM     68  CA  GLU    68      38.027  -8.804   5.770  1.00 25.00           C
ATOM     69  CA  VAL    69      37.913  -6.222   2.914  1.00 25.00           C
ATOM     70  CA  LYS    70      35.451  -7.502   0.262  1.00 25.00           C
ATOM     71  CA  LEU    71      35.276  -5.567  -3.020  1.00 25.00           C
ATOM     72  CA  GLY    72      35.157  -2.955  -5.837  1.00 25.00           C
ATOM     73  CA  THR    73      33.689  -0.793  -3.072  1.00 25.00           C
ATOM     74  CA  GLU    74      37.255  -0.237  -1.847  1.00 25.00           C
ATOM     75  CA  VAL    75      40.486   1.113  -0.435  1.00 25.00           C
ATOM     76  CA  TRP    76      39.634   3.956   1.879  1.00 25.00           C
ATOM     77  CA  VAL    77      40.659   7.197   3.555  1.00 25.00           C
ATOM     78  CA  GLN    78      42.345   9.676   5.841  1.00 25.00           C
ATOM     79  CA  THR    79      41.759  13.190   7.284  1.00 25.00           C
ATOM     80  CA  GLN    80      40.960  14.721  10.712  1.00 25.00           C
ATOM     81  CA  ILE    81      44.200  16.704  10.918  1.00 25.00           C
ATOM     82  CA  LEU    82      44.465  16.027  14.680  1.00 25.00           C
ATOM     83  CA  GLY    83      45.878  16.230  18.215  1.00 25.00           C
ATOM     84  CA  PHE    84      49.344  14.787  17.815  1.00 25.00           C
ATOM     85  CA  ASP    85      52.251  15.460  20.253  1.00 25.00           C
ATOM     86  CA  ARG    86      53.297  19.094  20.599  1.00 25.00           C
ATOM     87  CA  LYS    87      51.978  19.965  17.135  1.00 25.00           C
ATOM     88  CA  ARG    88      52.633  18.102  13.824  1.00 25.00           C
ATOM     89  CA  LEU    89      49.309  16.621  12.695  1.00 25.00           C
ATOM     90  CA  HIS    90      47.911  13.188  11.922  1.00 25.00           C
ATOM     91  CA  VAL    91      46.014  11.512   9.101  1.00 25.00           C
ATOM     92  CA  TYR    92      43.924   9.481  11.526  1.00 25.00           C
ATOM     93  CA  HIS    93      40.994   7.521  10.156  1.00 25.00           C
ATOM     94  CA  SER    94      41.421   3.741  10.419  1.00 25.00           C
ATOM     95  CA  LEU    95      39.853   3.593   6.986  1.00 25.00           C
ATOM     96  CA  HIS    96      37.144   1.296   5.494  1.00 25.00           C
ATOM     97  CA  ARG    97      34.373  -0.753   3.917  1.00 25.00           C
ATOM     98  CA  ALA    98      30.586  -1.354   3.673  1.00 25.00           C
ATOM     99  CA  GLY    99      28.561  -3.551   6.093  1.00 25.00           C
ATOM    100  CA  PHE   100      28.445  -2.728   9.772  1.00 25.00           C
ATOM    101  CA  ASP   101      31.584  -0.843  10.901  1.00 25.00           C
ATOM    102  CA  GLU   102      35.133  -2.111  11.028  1.00 25.00           C
ATOM    103  CA  VAL   103      38.809  -1.977  10.131  1.00 25.00           C
ATOM    104  CA  LEU   104      41.275  -1.253   7.304  1.00 25.00           C
ATOM    105  CA  ALA   105      44.151   0.019   5.107  1.00 25.00           C
ATOM    106  CA  ALA   106      45.661   1.720   8.187  1.00 25.00           C
ATOM    107  CA  SER   107      47.048   5.264   8.306  1.00 25.00           C
ATOM    108  CA  GLU   108      48.527   6.475  11.613  1.00 25.00           C
ATOM    109  CA  GLN   109      50.547   9.070   9.589  1.00 25.00           C
ATOM    110  CA  MET   110      51.659  11.622   6.974  1.00 25.00           C
ATOM    111  CA  LEU   111      53.388  13.462   9.843  1.00 25.00           C
ATOM    112  CA  LEU   112      53.630  17.159   8.980  1.00 25.00           C
ATOM    113  CA  HIS   113      57.401  16.832   8.613  1.00 25.00           C
ATOM    114  CA  VAL   114      59.384  19.621   7.023  1.00 25.00           C
ATOM    115  CA  ASP   115      61.921  21.990   5.577  1.00 25.00           C
ATOM    116  CA  LEU   116      64.970  24.263   4.962  1.00 25.00           C
ATOM    117  CA  ALA   117      67.811  23.753   7.375  1.00 25.00           C
ATOM    118  CA  GLY   118      69.973  25.937   9.610  1.00 25.00           C
ATOM    119  CA  PRO   119      66.957  27.071  11.660  1.00 25.00           C
ATOM    120  CA  GLN   120      65.695  28.189  14.994  1.00 25.00           C
ATOM    121  CA  SER   121      62.580  29.770  16.434  1.00 25.00           C
ATOM    122  CA  ALA   122      58.806  29.993  16.484  1.00 25.00           C
ATOM    123  CA  PRO   123      56.797  27.034  15.098  1.00 25.00           C
ATOM    124  CA  PHE   124      53.750  24.797  14.792  1.00 25.00           C
ATOM    125  CA  GLY   125      52.502  25.960  18.193  1.00 25.00           C
ATOM    126  CA  HIS   126      48.832  25.789  18.942  1.00 25.00           C
ATOM    127  CA  THR   127      48.573  28.327  16.085  1.00 25.00           C
ATOM    128  CA  THR   128      48.756  25.491  13.518  1.00 25.00           C
ATOM    129  CA  VAL   129      45.999  23.594  15.380  1.00 25.00           C
ATOM    130  CA  CYS   130      43.820  26.744  15.414  1.00 25.00           C
ATOM    131  CA  ARG   131      44.381  27.201  11.655  1.00 25.00           C
ATOM    132  CA  LEU   132      43.411  23.548  11.040  1.00 25.00           C
ATOM    133  CA  ASN   133      40.235  24.014  13.128  1.00 25.00           C
ATOM    134  CA  HIS   134      39.354  27.161  11.132  1.00 25.00           C
ATOM    135  CA  LEU   135      39.883  25.258   7.850  1.00 25.00           C
ATOM    136  CA  VAL   136      37.627  22.426   9.100  1.00 25.00           C
ATOM    137  CA  GLU   137      34.928  24.969  10.061  1.00 25.00           C
ATOM    138  CA  GLN   138      35.168  26.572   6.591  1.00 25.00           C
ATOM    139  CA  GLN   139      34.830  23.128   4.951  1.00 25.00           C
ATOM    140  CA  GLU   140      31.153  23.870   4.765  1.00 25.00           C
ATOM    141  CA  GLY   141      28.722  26.575   3.658  1.00 25.00           C
ATOM    142  CA  ALA   142      29.751  30.223   3.374  1.00 25.00           C
ATOM    143  CA  GLN   143      29.063  33.970   3.196  1.00 25.00           C
ATOM    144  CA  ALA   144      31.131  35.976   0.799  1.00 25.00           C
ATOM    145  CA  PRO   145      31.997  36.291  -2.881  1.00 25.00           C
ATOM    146  CA  GLN   146      29.009  34.748  -4.739  1.00 25.00           C
ATOM    147  CA  TYR   147      31.164  33.007  -7.408  1.00 25.00           C
ATOM    148  CA  MET   148      34.109  35.413  -7.474  1.00 25.00           C
ATOM    149  CA  GLY   149      35.407  34.291 -10.865  1.00 25.00           C
ATOM    150  CA  ARG   150      38.580  32.681 -12.127  1.00 25.00           C
ATOM    151  CA  THR   151      38.409  28.987 -12.977  1.00 25.00           C
ATOM    152  CA  ILE   152      41.456  27.681 -14.839  1.00 25.00           C
ATOM    153  CA  LYS   153      42.426  24.111 -15.659  1.00 25.00           C
ATOM    154  CA  LEU   154      44.715  21.581 -13.999  1.00 25.00           C
ATOM    155  CA  PRO   155      48.358  20.368 -13.755  1.00 25.00           C
ATOM    156  CA  ALA   156      47.885  16.767 -12.734  1.00 25.00           C
TER
END
