
#######################################################
#                                                     #
#                        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  148 (  148),  selected  148 , name T0369TS393_3
# Molecule2: number of CA atoms  147 ( 1193),  selected  147 , name T0369.pdb
# PARAMETERS: T0369TS393_3.T0369.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    D       3      D       3           -
LGA    W       4      W       4           -
LGA    Q       5      Q       5           -
LGA    Q       6      -       -           -
LGA    A       7      -       -           -
LGA    L       8      -       -           -
LGA    D       9      -       -           -
LGA    R      10      -       -           -
LGA    H      11      -       -           -
LGA    V      12      -       -           -
LGA    G      13      -       -           -
LGA    V      14      -       -           -
LGA    G      15      -       -           -
LGA    V      16      -       -           -
LGA    R      17      -       -           -
LGA    T      18      -       -           -
LGA    T      19      -       -           -
LGA    R      20      -       -           -
LGA    D      21      -       -           -
LGA    L      22      -       -           -
LGA    I      23      -       -           -
LGA    R      24      Q       6           #
LGA    L      25      -       -           -
LGA    I      26      -       -           -
LGA    Q      27      A       7          2.995
LGA    P      28      -       -           -
LGA    E      29      -       -           -
LGA    D      30      -       -           -
LGA    W      31      L       8           #
LGA    D      32      D       9           -
LGA    K      33      R      10           -
LGA    R      34      -       -           -
LGA    P      35      -       -           -
LGA    I      36      -       -           -
LGA    S      37      -       -           -
LGA    G      38      -       -           -
LGA    K      39      -       -           -
LGA    R      40      -       -           -
LGA    S      41      -       -           -
LGA    V      42      -       -           -
LGA    Y      43      -       -           -
LGA    E      44      H      11           #
LGA    V      45      V      12           #
LGA    A      46      -       -           -
LGA    V      47      -       -           -
LGA    H      48      G      13          4.232
LGA    L      49      V      14          3.192
LGA    A      50      G      15          3.681
LGA    V      51      V      16          0.194
LGA    L      52      R      17          1.493
LGA    L      53      T      18          4.234
LGA    -       -      T      19           -
LGA    E      54      R      20          3.057
LGA    A      55      D      21           -
LGA    D      56      L      22           -
LGA    L      57      -       -           -
LGA    R      58      -       -           -
LGA    I      59      -       -           -
LGA    A      60      -       -           -
LGA    T      61      -       -           -
LGA    G      62      -       -           -
LGA    A      63      -       -           -
LGA    T      64      -       -           -
LGA    A      65      -       -           -
LGA    D      66      -       -           -
LGA    E      67      -       -           -
LGA    M      68      I      23          3.691
LGA    A      69      -       -           -
LGA    Q      70      R      24          4.101
LGA    F      71      L      25          1.767
LGA    Y      72      I      26          3.395
LGA    A      73      Q      27          3.871
LGA    V      74      P      28           #
LGA    -       -      E      29           -
LGA    -       -      D      30           -
LGA    P      75      W      31          1.112
LGA    V      76      D      32          0.991
LGA    -       -      K      33           -
LGA    -       -      R      34           -
LGA    -       -      P      35           -
LGA    -       -      I      36           -
LGA    -       -      S      37           -
LGA    -       -      G      38           -
LGA    -       -      K      39           -
LGA    -       -      R      40           -
LGA    L      77      S      41          1.521
LGA    P      78      V      42          0.785
LGA    E      79      Y      43          0.977
LGA    Q      80      E      44          0.963
LGA    L      81      V      45          0.445
LGA    V      82      A      46          0.246
LGA    D      83      V      47          0.609
LGA    R      84      H      48          1.010
LGA    L      85      L      49          0.913
LGA    D      86      A      50          0.189
LGA    Q      87      V      51          0.880
LGA    S      88      L      52          2.671
LGA    -       -      L      53           -
LGA    -       -      E      54           -
LGA    -       -      A      55           -
LGA    -       -      D      56           -
LGA    -       -      L      57           -
LGA    -       -      R      58           -
LGA    -       -      I      59           -
LGA    -       -      A      60           -
LGA    -       -      T      61           -
LGA    -       -      G      62           -
LGA    -       -      A      63           -
LGA    -       -      T      64           -
LGA    -       -      A      65           -
LGA    -       -      D      66           -
LGA    -       -      E      67           -
LGA    -       -      M      68           -
LGA    -       -      A      69           -
LGA    -       -      Q      70           -
LGA    -       -      F      71           -
LGA    -       -      Y      72           -
LGA    -       -      A      73           -
LGA    -       -      V      74           -
LGA    -       -      P      75           -
LGA    -       -      V      76           -
LGA    -       -      L      77           -
LGA    -       -      P      78           -
LGA    -       -      E      79           -
LGA    -       -      Q      80           -
LGA    -       -      L      81           -
LGA    -       -      V      82           -
LGA    -       -      D      83           -
LGA    -       -      R      84           -
LGA    W      89      L      85          4.131
LGA    -       -      D      86           -
LGA    Q      90      Q      87          4.721
LGA    Y      91      S      88          4.321
LGA    Y      92      W      89          3.826
LGA    Q      93      Q      90          2.481
LGA    D      94      Y      91          1.350
LGA    R      95      Y      92          2.335
LGA    L      96      Q      93          0.825
LGA    M      97      D      94          1.364
LGA    A      98      R      95          2.586
LGA    D      99      L      96          3.693
LGA    F     100      M      97          3.871
LGA    S     101      A      98           #
LGA    T     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    T     105      -       -           -
LGA    Y     106      -       -           -
LGA    W     107      -       -           -
LGA    G     108      -       -           -
LGA    V     109      D      99          2.977
LGA    T     110      F     100          3.205
LGA    D     111      S     101          2.124
LGA    S     112      T     102          2.520
LGA    T     113      E     103           -
LGA    -       -      T     104           -
LGA    -       -      T     105           -
LGA    -       -      Y     106           -
LGA    -       -      W     107           -
LGA    -       -      G     108           -
LGA    -       -      V     109           -
LGA    -       -      T     110           -
LGA    -       -      D     111           -
LGA    -       -      S     112           -
LGA    T     114      T     113          2.162
LGA    G     115      T     114          5.383
LGA    -       -      G     115           -
LGA    W     116      W     116          2.747
LGA    L     117      L     117          1.187
LGA    L     118      L     118          2.315
LGA    E     119      E     119          2.729
LGA    A     120      A     120          1.565
LGA    A     121      A     121          0.926
LGA    V     122      V     122          2.518
LGA    H     123      H     123          2.445
LGA    L     124      L     124          1.013
LGA    Y     125      Y     125          1.007
LGA    H     126      H     126          2.081
LGA    H     127      H     127          2.382
LGA    R     128      R     128          1.040
LGA    S     129      S     129          0.807
LGA    Q     130      Q     130          1.744
LGA    L     131      L     131          2.095
LGA    L     132      L     132          1.334
LGA    D     133      D     133          0.623
LGA    Y     134      Y     134          2.057
LGA    L     135      L     135          2.661
LGA    N     136      N     136          1.415
LGA    L     137      L     137          1.071
LGA    L     138      L     138          2.510
LGA    -       -      G     139           -
LGA    G     139      Y     140          1.930
LGA    Y     140      D     141          3.877
LGA    D     141      I     142           -
LGA    I     142      -       -           -
LGA    K     143      -       -           -
LGA    L     144      K     143           #
LGA    D     145      L     144           -
LGA    L     146      -       -           -
LGA    F     147      -       -           -
LGA    E     148      D     145           #
LGA    -       -      L     146           -
LGA    -       -      F     147           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  148  147    5.0     70    2.52    40.00     32.406     2.669

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.339838 * X  +  -0.711929 * Y  +  -0.614547 * Z  +  11.319967
  Y_new =  -0.749034 * X  +  -0.600033 * Y  +   0.280907 * Z  +  -1.776904
  Z_new =  -0.568734 * X  +   0.364854 * Y  +  -0.737173 * Z  +  -1.080812 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.682004   -0.459589  [ DEG:   153.6675    -26.3325 ]
  Theta =   0.604965    2.536627  [ DEG:    34.6620    145.3380 ]
  Phi   =  -1.144869    1.996724  [ DEG:   -65.5961    114.4039 ]
 
# 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: T0369TS393_3                                  
REMARK     2: T0369.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0369TS393_3.T0369.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  148  147   5.0   70   2.52   40.00  32.406
REMARK  ---------------------------------------------------------- 
MOLECULE T0369TS393_3
PFRMAT TS
TARGET T0369
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      24.357 -25.188   8.882  1.00 25.00           C
ATOM      2  CA  THR     2      23.071 -25.167   5.340  1.00 25.00           C
ATOM      3  CA  ASP     3      23.711 -21.588   4.178  1.00 25.00           C
ATOM      4  CA  TRP     4      21.147 -18.904   3.237  1.00 25.00           C
ATOM      5  CA  GLN     5      20.061 -18.622   6.899  1.00 25.00           C
ATOM      6  CA  GLN     6      23.717 -18.258   7.979  1.00 25.00           C
ATOM      7  CA  ALA     7      24.247 -15.521   5.355  1.00 25.00           C
ATOM      8  CA  LEU     8      21.121 -13.690   6.596  1.00 25.00           C
ATOM      9  CA  ASP     9      22.391 -13.918  10.203  1.00 25.00           C
ATOM     10  CA  ARG    10      25.790 -12.525   9.119  1.00 25.00           C
ATOM     11  CA  HIS    11      24.054  -9.635   7.302  1.00 25.00           C
ATOM     12  CA  VAL    12      24.970  -7.160  10.036  1.00 25.00           C
ATOM     13  CA  GLY    13      23.413  -8.911  12.972  1.00 25.00           C
ATOM     14  CA  VAL    14      20.573  -6.807  14.273  1.00 25.00           C
ATOM     15  CA  GLY    15      22.994  -3.929  14.856  1.00 25.00           C
ATOM     16  CA  VAL    16      24.995  -2.344  12.035  1.00 25.00           C
ATOM     17  CA  ARG    17      24.505   1.134  10.704  1.00 25.00           C
ATOM     18  CA  THR    18      22.875  -0.510   7.655  1.00 25.00           C
ATOM     19  CA  THR    19      19.429  -0.197   9.297  1.00 25.00           C
ATOM     20  CA  ARG    20      20.092   3.503  10.035  1.00 25.00           C
ATOM     21  CA  ASP    21      21.142   4.067   6.396  1.00 25.00           C
ATOM     22  CA  LEU    22      17.950   2.335   5.181  1.00 25.00           C
ATOM     23  CA  ILE    23      15.843   4.536   7.501  1.00 25.00           C
ATOM     24  CA  ARG    24      17.602   7.666   6.170  1.00 25.00           C
ATOM     25  CA  LEU    25      16.933   6.542   2.570  1.00 25.00           C
ATOM     26  CA  ILE    26      13.241   5.965   3.412  1.00 25.00           C
ATOM     27  CA  GLN    27      12.920   9.372   5.167  1.00 25.00           C
ATOM     28  CA  PRO    28      13.599  11.529   8.258  1.00 25.00           C
ATOM     29  CA  GLU    29      16.453  14.067   7.974  1.00 25.00           C
ATOM     30  CA  ASP    30      13.919  16.933   7.794  1.00 25.00           C
ATOM     31  CA  TRP    31      10.326  15.570   7.602  1.00 25.00           C
ATOM     32  CA  ASP    32       8.399  18.158   9.561  1.00 25.00           C
ATOM     33  CA  LYS    33       5.957  16.285  11.891  1.00 25.00           C
ATOM     34  CA  ARG    34       5.655  15.358  15.602  1.00 25.00           C
ATOM     35  CA  PRO    35       3.526  12.430  16.570  1.00 25.00           C
ATOM     36  CA  ILE    36       2.316   9.379  14.563  1.00 25.00           C
ATOM     37  CA  SER    37       1.687   5.629  14.570  1.00 25.00           C
ATOM     38  CA  GLY    38      -1.140   5.507  12.026  1.00 25.00           C
ATOM     39  CA  LYS    39      -0.350   3.731   8.824  1.00 25.00           C
ATOM     40  CA  ARG    40       1.046   5.913   6.003  1.00 25.00           C
ATOM     41  CA  SER    41       4.541   5.731   7.558  1.00 25.00           C
ATOM     42  CA  VAL    42       4.258   1.920   7.809  1.00 25.00           C
ATOM     43  CA  TYR    43       3.188   1.733   4.137  1.00 25.00           C
ATOM     44  CA  GLU    44       6.169   3.917   3.131  1.00 25.00           C
ATOM     45  CA  VAL    45       8.530   1.654   5.123  1.00 25.00           C
ATOM     46  CA  ALA    46       7.056  -1.437   3.407  1.00 25.00           C
ATOM     47  CA  VAL    47       7.533   0.208  -0.018  1.00 25.00           C
ATOM     48  CA  HIS    48      11.168   1.034   0.856  1.00 25.00           C
ATOM     49  CA  LEU    49      11.755  -2.589   1.948  1.00 25.00           C
ATOM     50  CA  ALA    50      10.242  -3.850  -1.337  1.00 25.00           C
ATOM     51  CA  VAL    51      12.507  -1.480  -3.318  1.00 25.00           C
ATOM     52  CA  LEU    52      15.559  -2.736  -1.375  1.00 25.00           C
ATOM     53  CA  LEU    53      14.560  -6.361  -2.099  1.00 25.00           C
ATOM     54  CA  GLU    54      14.181  -5.539  -5.821  1.00 25.00           C
ATOM     55  CA  ALA    55      17.638  -3.891  -5.834  1.00 25.00           C
ATOM     56  CA  ASP    56      19.143  -6.978  -4.138  1.00 25.00           C
ATOM     57  CA  LEU    57      17.490  -9.246  -6.744  1.00 25.00           C
ATOM     58  CA  ARG    58      18.885  -7.064  -9.565  1.00 25.00           C
ATOM     59  CA  ILE    59      22.381  -7.246  -8.010  1.00 25.00           C
ATOM     60  CA  ALA    60      22.097 -11.056  -7.759  1.00 25.00           C
ATOM     61  CA  THR    61      21.710 -11.971 -11.412  1.00 25.00           C
ATOM     62  CA  GLY    62      18.693 -13.907 -10.061  1.00 25.00           C
ATOM     63  CA  ALA    63      16.057 -11.309 -11.011  1.00 25.00           C
ATOM     64  CA  THR    64      15.064 -12.834 -14.417  1.00 25.00           C
ATOM     65  CA  ALA    65      13.049 -15.211 -12.221  1.00 25.00           C
ATOM     66  CA  ASP    66      13.922 -18.035  -9.786  1.00 25.00           C
ATOM     67  CA  GLU    67      14.707 -15.469  -7.054  1.00 25.00           C
ATOM     68  CA  MET    68      11.360 -13.724  -7.697  1.00 25.00           C
ATOM     69  CA  ALA    69       9.535 -17.082  -7.465  1.00 25.00           C
ATOM     70  CA  GLN    70      11.314 -17.848  -4.161  1.00 25.00           C
ATOM     71  CA  PHE    71      10.319 -14.410  -2.799  1.00 25.00           C
ATOM     72  CA  TYR    72       6.541 -13.978  -2.953  1.00 25.00           C
ATOM     73  CA  ALA    73       5.639 -17.485  -4.049  1.00 25.00           C
ATOM     74  CA  VAL    74       4.514 -15.785  -7.278  1.00 25.00           C
ATOM     75  CA  PRO    75       3.315 -18.296  -9.849  1.00 25.00           C
ATOM     76  CA  VAL    76       0.282 -16.994 -11.773  1.00 25.00           C
ATOM     77  CA  LEU    77      -2.354 -14.344 -10.845  1.00 25.00           C
ATOM     78  CA  PRO    78       0.350 -12.689  -8.683  1.00 25.00           C
ATOM     79  CA  GLU    79       2.416 -12.420 -11.896  1.00 25.00           C
ATOM     80  CA  GLN    80       0.708  -9.098 -12.745  1.00 25.00           C
ATOM     81  CA  LEU    81       1.454  -7.787  -9.224  1.00 25.00           C
ATOM     82  CA  VAL    82       5.121  -8.829  -9.587  1.00 25.00           C
ATOM     83  CA  ASP    83       5.319  -7.045 -12.970  1.00 25.00           C
ATOM     84  CA  ARG    84       3.803  -3.888 -11.421  1.00 25.00           C
ATOM     85  CA  LEU    85       6.350  -4.035  -8.565  1.00 25.00           C
ATOM     86  CA  ASP    86       9.201  -4.407 -11.094  1.00 25.00           C
ATOM     87  CA  GLN    87       7.883  -1.396 -13.060  1.00 25.00           C
ATOM     88  CA  SER    88       7.708   0.663  -9.836  1.00 25.00           C
ATOM     89  CA  TRP    89      11.306  -0.328  -8.978  1.00 25.00           C
ATOM     90  CA  GLN    90      12.450   0.690 -12.488  1.00 25.00           C
ATOM     91  CA  TYR    91      10.673   4.062 -12.115  1.00 25.00           C
ATOM     92  CA  TYR    92      12.365   4.607  -8.723  1.00 25.00           C
ATOM     93  CA  GLN    93      15.773   3.780 -10.262  1.00 25.00           C
ATOM     94  CA  ASP    94      15.115   6.257 -13.109  1.00 25.00           C
ATOM     95  CA  ARG    95      14.155   8.958 -10.569  1.00 25.00           C
ATOM     96  CA  LEU    96      17.364   8.276  -8.594  1.00 25.00           C
ATOM     97  CA  MET    97      19.429   8.546 -11.808  1.00 25.00           C
ATOM     98  CA  ALA    98      17.721  11.867 -12.655  1.00 25.00           C
ATOM     99  CA  ASP    99      18.468  13.178  -9.135  1.00 25.00           C
ATOM    100  CA  PHE   100      21.466  11.333  -7.667  1.00 25.00           C
ATOM    101  CA  SER   101      24.634  12.218  -9.654  1.00 25.00           C
ATOM    102  CA  THR   102      26.959  14.403 -11.725  1.00 25.00           C
ATOM    103  CA  GLU   103      27.709  17.181  -9.226  1.00 25.00           C
ATOM    104  CA  THR   104      24.033  17.983  -8.929  1.00 25.00           C
ATOM    105  CA  THR   105      24.342  21.733  -8.885  1.00 25.00           C
ATOM    106  CA  TYR   106      20.989  23.414  -9.426  1.00 25.00           C
ATOM    107  CA  TRP   107      18.493  25.161 -11.648  1.00 25.00           C
ATOM    108  CA  GLY   108      15.815  24.605  -8.947  1.00 25.00           C
ATOM    109  CA  VAL   109      15.959  20.971 -10.172  1.00 25.00           C
ATOM    110  CA  THR   110      13.506  18.488 -11.685  1.00 25.00           C
ATOM    111  CA  ASP   111      11.634  19.696 -14.802  1.00 25.00           C
ATOM    112  CA  SER   112       9.483  16.659 -15.619  1.00 25.00           C
ATOM    113  CA  THR   113       9.197  15.670 -11.987  1.00 25.00           C
ATOM    114  CA  THR   114       7.688  15.827  -8.470  1.00 25.00           C
ATOM    115  CA  GLY   115       4.395  14.385  -9.792  1.00 25.00           C
ATOM    116  CA  TRP   116       6.303  11.552 -11.525  1.00 25.00           C
ATOM    117  CA  LEU   117       8.188  10.801  -8.277  1.00 25.00           C
ATOM    118  CA  LEU   118       4.880  10.719  -6.347  1.00 25.00           C
ATOM    119  CA  GLU   119       3.399   8.322  -8.941  1.00 25.00           C
ATOM    120  CA  ALA   120       6.476   6.061  -8.645  1.00 25.00           C
ATOM    121  CA  ALA   121       6.144   6.067  -4.830  1.00 25.00           C
ATOM    122  CA  VAL   122       2.438   5.150  -5.127  1.00 25.00           C
ATOM    123  CA  HIS   123       3.311   2.286  -7.515  1.00 25.00           C
ATOM    124  CA  LEU   124       5.970   1.022  -5.065  1.00 25.00           C
ATOM    125  CA  TYR   125       3.426   1.148  -2.203  1.00 25.00           C
ATOM    126  CA  HIS   126       0.907  -0.807  -4.323  1.00 25.00           C
ATOM    127  CA  HIS   127       3.579  -3.431  -5.124  1.00 25.00           C
ATOM    128  CA  ARG   128       4.426  -3.741  -1.402  1.00 25.00           C
ATOM    129  CA  SER   129       0.715  -4.185  -0.569  1.00 25.00           C
ATOM    130  CA  GLN   130       0.412  -6.898  -3.256  1.00 25.00           C
ATOM    131  CA  LEU   131       3.484  -8.687  -1.832  1.00 25.00           C
ATOM    132  CA  LEU   132       1.974  -8.529   1.685  1.00 25.00           C
ATOM    133  CA  ASP   133      -1.318  -9.971   0.363  1.00 25.00           C
ATOM    134  CA  TYR   134       0.590 -12.804  -1.370  1.00 25.00           C
ATOM    135  CA  LEU   135       2.475 -13.555   1.878  1.00 25.00           C
ATOM    136  CA  ASN   136      -0.833 -13.638   3.808  1.00 25.00           C
ATOM    137  CA  LEU   137      -2.314 -16.034   1.213  1.00 25.00           C
ATOM    138  CA  LEU   138       0.763 -18.296   1.510  1.00 25.00           C
ATOM    139  CA  GLY   139       2.520 -17.582   4.864  1.00 25.00           C
ATOM    140  CA  TYR   140       1.039 -19.395   7.853  1.00 25.00           C
ATOM    141  CA  ASP   141      -1.062 -20.501  10.830  1.00 25.00           C
ATOM    142  CA  ILE   142      -0.129 -20.266  14.563  1.00 25.00           C
ATOM    143  CA  LYS   143       3.068 -18.335  13.806  1.00 25.00           C
ATOM    144  CA  LEU   144       5.234 -15.316  14.535  1.00 25.00           C
ATOM    145  CA  ASP   145       4.205 -12.682  17.056  1.00 25.00           C
ATOM    146  CA  LEU   146       7.544 -11.634  18.516  1.00 25.00           C
ATOM    147  CA  PHE   147       9.785 -11.072  15.523  1.00 25.00           C
ATOM    148  CA  GLU   148       8.121  -8.383  13.439  1.00 25.00           C
TER
END
