
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  147 ( 1193),  selected  147 , name T0369.pdb
# PARAMETERS: T0369TS393_4.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      Q       6           -
LGA    A       7      A       7           -
LGA    L       8      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      -       -           -
LGA    L      25      -       -           -
LGA    I      26      D       9           #
LGA    Q      27      R      10          3.573
LGA    P      28      -       -           -
LGA    E      29      -       -           -
LGA    D      30      -       -           -
LGA    W      31      -       -           -
LGA    D      32      -       -           -
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    S      41      -       -           -
LGA    V      42      -       -           -
LGA    Y      43      -       -           -
LGA    E      44      H      11          3.576
LGA    V      45      V      12           -
LGA    A      46      G      13           -
LGA    -       -      V      14           -
LGA    V      47      G      15          1.211
LGA    H      48      V      16          2.592
LGA    L      49      R      17          3.720
LGA    A      50      T      18          5.215
LGA    V      51      T      19          4.698
LGA    L      52      -       -           -
LGA    L      53      R      20          2.764
LGA    E      54      D      21           -
LGA    A      55      L      22           -
LGA    -       -      I      23           -
LGA    D      56      R      24           #
LGA    L      57      L      25           -
LGA    R      58      I      26           -
LGA    I      59      Q      27           -
LGA    A      60      -       -           -
LGA    T      61      -       -           -
LGA    G      62      -       -           -
LGA    A      63      -       -           -
LGA    T      64      -       -           -
LGA    A      65      -       -           -
LGA    D      66      -       -           -
LGA    E      67      P      28           #
LGA    -       -      E      29           -
LGA    M      68      D      30           #
LGA    A      69      W      31          3.419
LGA    Q      70      D      32           #
LGA    F      71      -       -           -
LGA    Y      72      -       -           -
LGA    A      73      K      33          4.204
LGA    V      74      R      34          3.665
LGA    P      75      P      35          5.314
LGA    -       -      I      36           -
LGA    -       -      S      37           -
LGA    V      76      G      38          4.659
LGA    L      77      K      39          1.508
LGA    P      78      R      40          1.517
LGA    E      79      S      41           #
LGA    Q      80      V      42           -
LGA    -       -      Y      43           -
LGA    -       -      E      44           -
LGA    L      81      V      45          2.490
LGA    V      82      A      46          5.127
LGA    D      83      V      47           #
LGA    R      84      H      48          4.030
LGA    L      85      L      49          1.331
LGA    D      86      A      50          4.971
LGA    Q      87      V      51          5.081
LGA    S      88      L      52          3.061
LGA    W      89      L      53          3.438
LGA    Q      90      E      54          0.873
LGA    -       -      A      55           -
LGA    Y      91      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    -       -      L      85           -
LGA    -       -      D      86           -
LGA    -       -      Q      87           -
LGA    -       -      S      88           -
LGA    Y      92      W      89          2.923
LGA    -       -      Q      90           -
LGA    Q      93      Y      91          1.591
LGA    D      94      Y      92          3.073
LGA    R      95      Q      93          2.551
LGA    L      96      D      94          2.385
LGA    M      97      R      95          3.831
LGA    A      98      L      96          4.024
LGA    D      99      -       -           -
LGA    F     100      M      97          2.121
LGA    S     101      A      98          5.057
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           #
LGA    T     110      F     100          3.212
LGA    D     111      S     101          1.115
LGA    S     112      T     102          2.634
LGA    -       -      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     113      T     113          1.813
LGA    T     114      T     114          1.452
LGA    G     115      G     115          1.701
LGA    W     116      W     116          1.579
LGA    L     117      L     117          1.111
LGA    L     118      L     118          1.224
LGA    E     119      E     119          1.394
LGA    A     120      A     120          0.895
LGA    A     121      A     121          0.613
LGA    V     122      V     122          1.241
LGA    H     123      H     123          1.362
LGA    L     124      L     124          0.754
LGA    Y     125      Y     125          0.186
LGA    H     126      H     126          1.014
LGA    H     127      H     127          1.488
LGA    R     128      R     128          1.216
LGA    S     129      S     129          0.476
LGA    Q     130      Q     130          0.867
LGA    L     131      L     131          1.739
LGA    L     132      L     132          1.616
LGA    D     133      D     133          0.595
LGA    Y     134      Y     134          1.501
LGA    L     135      L     135          2.462
LGA    N     136      N     136          1.851
LGA    L     137      L     137          1.001
LGA    L     138      L     138          1.952
LGA    G     139      G     139          2.403
LGA    -       -      Y     140           -
LGA    Y     140      D     141          4.301
LGA    D     141      I     142           -
LGA    I     142      -       -           -
LGA    K     143      -       -           -
LGA    L     144      -       -           -
LGA    D     145      -       -           -
LGA    L     146      -       -           -
LGA    F     147      K     143           #
LGA    E     148      L     144           #
LGA    -       -      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     64    2.82    45.31     29.639     2.189

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.281946 * X  +   0.459590 * Y  +  -0.842190 * Z  +  10.454031
  Y_new =   0.935558 * X  +   0.062898 * Y  +   0.347528 * Z  +  -2.954036
  Z_new =   0.212692 * X  +  -0.885901 * Y  +  -0.412239 * Z  +  -3.024127 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.006328    1.135265  [ DEG:  -114.9541     65.0459 ]
  Theta =  -0.214329   -2.927263  [ DEG:   -12.2802   -167.7198 ]
  Phi   =   1.278086   -1.863507  [ DEG:    73.2289   -106.7711 ]
 
# 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_4                                  
REMARK     2: T0369.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0369TS393_4.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   64   2.82   45.31  29.639
REMARK  ---------------------------------------------------------- 
MOLECULE T0369TS393_4
PFRMAT TS
TARGET T0369
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      14.313 -30.242  -6.340  1.00 25.00           C
ATOM      2  CA  THR     2      17.584 -28.410  -6.087  1.00 25.00           C
ATOM      3  CA  ASP     3      19.421 -25.324  -7.370  1.00 25.00           C
ATOM      4  CA  TRP     4      16.528 -23.441  -5.711  1.00 25.00           C
ATOM      5  CA  GLN     5      17.529 -24.863  -2.298  1.00 25.00           C
ATOM      6  CA  GLN     6      21.155 -23.778  -2.882  1.00 25.00           C
ATOM      7  CA  ALA     7      19.976 -20.260  -3.831  1.00 25.00           C
ATOM      8  CA  LEU     8      17.840 -20.094  -0.656  1.00 25.00           C
ATOM      9  CA  ASP     9      20.842 -21.196   1.451  1.00 25.00           C
ATOM     10  CA  ARG    10      23.016 -18.506  -0.194  1.00 25.00           C
ATOM     11  CA  HIS    11      20.340 -15.864   0.531  1.00 25.00           C
ATOM     12  CA  VAL    12      19.234 -16.535   4.101  1.00 25.00           C
ATOM     13  CA  GLY    13      22.415 -18.014   5.629  1.00 25.00           C
ATOM     14  CA  VAL    14      22.840 -15.382   8.252  1.00 25.00           C
ATOM     15  CA  GLY    15      22.589 -11.657   8.637  1.00 25.00           C
ATOM     16  CA  VAL    16      24.159 -10.431   5.415  1.00 25.00           C
ATOM     17  CA  ARG    17      26.401  -7.618   4.187  1.00 25.00           C
ATOM     18  CA  THR    18      23.883  -7.473   1.304  1.00 25.00           C
ATOM     19  CA  THR    19      21.073  -6.638   3.769  1.00 25.00           C
ATOM     20  CA  ARG    20      23.213  -3.859   5.306  1.00 25.00           C
ATOM     21  CA  ASP    21      23.926  -2.446   1.819  1.00 25.00           C
ATOM     22  CA  LEU    22      20.185  -2.503   1.004  1.00 25.00           C
ATOM     23  CA  ILE    23      19.417  -0.684   4.285  1.00 25.00           C
ATOM     24  CA  ARG    24      22.071   1.955   3.472  1.00 25.00           C
ATOM     25  CA  LEU    25      20.563   2.432  -0.016  1.00 25.00           C
ATOM     26  CA  ILE    26      17.080   2.842   1.520  1.00 25.00           C
ATOM     27  CA  GLN    27      18.288   5.400   4.078  1.00 25.00           C
ATOM     28  CA  PRO    28      21.600   6.966   5.036  1.00 25.00           C
ATOM     29  CA  GLU    29      21.600   9.611   7.806  1.00 25.00           C
ATOM     30  CA  ASP    30      17.925  10.409   7.077  1.00 25.00           C
ATOM     31  CA  TRP    31      15.851   9.390  10.097  1.00 25.00           C
ATOM     32  CA  ASP    32      14.439  12.878  10.312  1.00 25.00           C
ATOM     33  CA  LYS    33      16.424  13.606  13.453  1.00 25.00           C
ATOM     34  CA  ARG    34      15.902  10.389  15.358  1.00 25.00           C
ATOM     35  CA  PRO    35      12.914   8.488  16.840  1.00 25.00           C
ATOM     36  CA  ILE    36      10.431   6.053  15.168  1.00 25.00           C
ATOM     37  CA  SER    37       7.216   4.555  16.648  1.00 25.00           C
ATOM     38  CA  GLY    38       4.819   4.260  13.672  1.00 25.00           C
ATOM     39  CA  LYS    39       4.472   3.410  10.001  1.00 25.00           C
ATOM     40  CA  ARG    40       6.689   5.440   7.628  1.00 25.00           C
ATOM     41  CA  SER    41       9.631   3.091   8.327  1.00 25.00           C
ATOM     42  CA  VAL    42       7.407   0.055   7.620  1.00 25.00           C
ATOM     43  CA  TYR    43       6.251   1.637   4.330  1.00 25.00           C
ATOM     44  CA  GLU    44       9.890   2.302   3.342  1.00 25.00           C
ATOM     45  CA  VAL    45      10.797  -1.334   4.138  1.00 25.00           C
ATOM     46  CA  ALA    46       7.855  -2.558   2.013  1.00 25.00           C
ATOM     47  CA  VAL    47       8.984  -0.320  -0.883  1.00 25.00           C
ATOM     48  CA  HIS    48      12.547  -1.695  -0.588  1.00 25.00           C
ATOM     49  CA  LEU    49      11.194  -5.277  -0.632  1.00 25.00           C
ATOM     50  CA  ALA    50       9.115  -4.481  -3.748  1.00 25.00           C
ATOM     51  CA  VAL    51      12.203  -2.997  -5.460  1.00 25.00           C
ATOM     52  CA  LEU    52      14.224  -6.131  -4.587  1.00 25.00           C
ATOM     53  CA  LEU    53      11.448  -8.348  -6.016  1.00 25.00           C
ATOM     54  CA  GLU    54      11.405  -6.266  -9.229  1.00 25.00           C
ATOM     55  CA  ALA    55      15.210  -6.594  -9.521  1.00 25.00           C
ATOM     56  CA  ASP    56      14.945 -10.385  -9.043  1.00 25.00           C
ATOM     57  CA  LEU    57      12.246 -10.563 -11.754  1.00 25.00           C
ATOM     58  CA  ARG    58      14.462  -8.532 -14.128  1.00 25.00           C
ATOM     59  CA  ILE    59      17.404 -10.881 -13.430  1.00 25.00           C
ATOM     60  CA  ALA    60      15.180 -13.918 -14.135  1.00 25.00           C
ATOM     61  CA  THR    61      15.268 -12.971 -17.825  1.00 25.00           C
ATOM     62  CA  GLY    62      11.912 -13.916 -19.406  1.00 25.00           C
ATOM     63  CA  ALA    63      10.548 -11.919 -16.476  1.00 25.00           C
ATOM     64  CA  THR    64       7.947 -10.576 -18.963  1.00 25.00           C
ATOM     65  CA  ALA    65       5.117 -12.476 -17.243  1.00 25.00           C
ATOM     66  CA  ASP    66       5.661 -15.887 -15.590  1.00 25.00           C
ATOM     67  CA  GLU    67       7.855 -14.264 -12.904  1.00 25.00           C
ATOM     68  CA  MET    68       5.157 -11.622 -12.263  1.00 25.00           C
ATOM     69  CA  ALA    69       2.508 -14.369 -11.944  1.00 25.00           C
ATOM     70  CA  GLN    70       4.735 -16.263  -9.469  1.00 25.00           C
ATOM     71  CA  PHE    71       5.219 -13.065  -7.419  1.00 25.00           C
ATOM     72  CA  TYR    72       2.357 -13.344  -4.934  1.00 25.00           C
ATOM     73  CA  ALA    73       0.574 -16.358  -6.297  1.00 25.00           C
ATOM     74  CA  VAL    74      -1.564 -13.810  -8.066  1.00 25.00           C
ATOM     75  CA  PRO    75      -4.316 -15.658  -9.936  1.00 25.00           C
ATOM     76  CA  VAL    76      -6.774 -12.756 -10.035  1.00 25.00           C
ATOM     77  CA  LEU    77      -6.126  -9.085 -10.494  1.00 25.00           C
ATOM     78  CA  PRO    78      -2.503 -10.057 -11.343  1.00 25.00           C
ATOM     79  CA  GLU    79      -2.580  -7.491 -14.185  1.00 25.00           C
ATOM     80  CA  GLN    80      -3.057  -4.661 -11.649  1.00 25.00           C
ATOM     81  CA  LEU    81      -0.101  -5.969  -9.596  1.00 25.00           C
ATOM     82  CA  VAL    82       2.064  -6.103 -12.752  1.00 25.00           C
ATOM     83  CA  ASP    83       1.069  -2.507 -13.617  1.00 25.00           C
ATOM     84  CA  ARG    84       1.964  -1.381 -10.068  1.00 25.00           C
ATOM     85  CA  LEU    85       5.361  -3.127 -10.343  1.00 25.00           C
ATOM     86  CA  ASP    86       6.001  -1.405 -13.704  1.00 25.00           C
ATOM     87  CA  GLN    87       5.095   1.984 -12.169  1.00 25.00           C
ATOM     88  CA  SER    88       7.484   1.327  -9.248  1.00 25.00           C
ATOM     89  CA  TRP    89      10.274   0.408 -11.705  1.00 25.00           C
ATOM     90  CA  GLN    90       9.630   3.625 -13.680  1.00 25.00           C
ATOM     91  CA  TYR    91       9.777   5.669 -10.445  1.00 25.00           C
ATOM     92  CA  TYR    92      13.084   3.983  -9.501  1.00 25.00           C
ATOM     93  CA  GLN    93      14.501   4.766 -12.971  1.00 25.00           C
ATOM     94  CA  ASP    94      13.416   8.421 -12.617  1.00 25.00           C
ATOM     95  CA  ARG    95      15.089   8.611  -9.177  1.00 25.00           C
ATOM     96  CA  LEU    96      18.307   7.131 -10.634  1.00 25.00           C
ATOM     97  CA  MET    97      18.230   9.698 -13.475  1.00 25.00           C
ATOM     98  CA  ALA    98      17.753  12.527 -10.939  1.00 25.00           C
ATOM     99  CA  ASP    99      20.709  11.220  -8.886  1.00 25.00           C
ATOM    100  CA  PHE   100      19.404  13.321  -5.962  1.00 25.00           C
ATOM    101  CA  SER   101      21.447  16.298  -7.290  1.00 25.00           C
ATOM    102  CA  THR   102      24.262  18.722  -6.609  1.00 25.00           C
ATOM    103  CA  GLU   103      21.374  21.254  -6.234  1.00 25.00           C
ATOM    104  CA  THR   104      19.112  23.770  -4.425  1.00 25.00           C
ATOM    105  CA  THR   105      19.715  26.754  -6.610  1.00 25.00           C
ATOM    106  CA  TYR   106      18.494  25.823 -10.138  1.00 25.00           C
ATOM    107  CA  TRP   107      16.166  26.658 -13.027  1.00 25.00           C
ATOM    108  CA  GLY   108      12.402  26.224 -13.371  1.00 25.00           C
ATOM    109  CA  VAL   109      11.321  22.966 -11.869  1.00 25.00           C
ATOM    110  CA  THR   110      12.430  19.483 -12.852  1.00 25.00           C
ATOM    111  CA  ASP   111       9.816  18.592 -15.507  1.00 25.00           C
ATOM    112  CA  SER   112       8.299  15.114 -15.051  1.00 25.00           C
ATOM    113  CA  THR   113       8.661  15.491 -11.226  1.00 25.00           C
ATOM    114  CA  THR   114       7.969  15.487  -7.458  1.00 25.00           C
ATOM    115  CA  GLY   115       4.331  14.476  -8.104  1.00 25.00           C
ATOM    116  CA  TRP   116       5.501  11.636 -10.392  1.00 25.00           C
ATOM    117  CA  LEU   117       7.945  10.439  -7.698  1.00 25.00           C
ATOM    118  CA  LEU   118       5.140  10.500  -5.091  1.00 25.00           C
ATOM    119  CA  GLU   119       2.884   8.482  -7.436  1.00 25.00           C
ATOM    120  CA  ALA   120       5.686   5.927  -7.973  1.00 25.00           C
ATOM    121  CA  ALA   121       6.183   5.638  -4.187  1.00 25.00           C
ATOM    122  CA  VAL   122       2.422   5.098  -3.710  1.00 25.00           C
ATOM    123  CA  HIS   123       2.445   2.381  -6.408  1.00 25.00           C
ATOM    124  CA  LEU   124       5.412   0.670  -4.693  1.00 25.00           C
ATOM    125  CA  TYR   125       3.571   0.788  -1.336  1.00 25.00           C
ATOM    126  CA  HIS   126       0.457  -0.738  -2.962  1.00 25.00           C
ATOM    127  CA  HIS   127       2.593  -3.520  -4.500  1.00 25.00           C
ATOM    128  CA  ARG   128       4.180  -4.223  -1.085  1.00 25.00           C
ATOM    129  CA  SER   129       0.707  -4.391   0.521  1.00 25.00           C
ATOM    130  CA  GLN   130      -0.461  -6.824  -2.196  1.00 25.00           C
ATOM    131  CA  LEU   131       2.631  -9.006  -1.605  1.00 25.00           C
ATOM    132  CA  LEU   132       1.938  -9.009   2.162  1.00 25.00           C
ATOM    133  CA  ASP   133      -1.698 -10.021   1.516  1.00 25.00           C
ATOM    134  CA  TYR   134      -0.529 -12.861  -0.772  1.00 25.00           C
ATOM    135  CA  LEU   135       1.916 -14.057   1.923  1.00 25.00           C
ATOM    136  CA  ASN   136      -0.890 -13.997   4.530  1.00 25.00           C
ATOM    137  CA  LEU   137      -3.146 -16.015   2.184  1.00 25.00           C
ATOM    138  CA  LEU   138      -0.343 -18.570   1.647  1.00 25.00           C
ATOM    139  CA  GLY   139       1.651 -18.480   4.895  1.00 25.00           C
ATOM    140  CA  TYR   140      -0.768 -17.926   7.780  1.00 25.00           C
ATOM    141  CA  ASP   141      -0.560 -18.892  11.432  1.00 25.00           C
ATOM    142  CA  ILE   142       2.003 -21.426  12.695  1.00 25.00           C
ATOM    143  CA  LYS   143       3.147 -18.553  14.884  1.00 25.00           C
ATOM    144  CA  LEU   144       4.260 -14.898  14.790  1.00 25.00           C
ATOM    145  CA  ASP   145       7.058 -15.807  17.275  1.00 25.00           C
ATOM    146  CA  LEU   146      10.384 -16.193  15.396  1.00 25.00           C
ATOM    147  CA  PHE   147      11.005 -16.880  11.696  1.00 25.00           C
ATOM    148  CA  GLU   148      11.512 -13.074  11.535  1.00 25.00           C
TER
END
