
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0352TS599_1
# Molecule2: number of CA atoms  109 ( 1766),  selected  109 , name T0352.pdb
# PARAMETERS: T0352TS599_1.T0352.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    T       3      T       3           -
LGA    H       4      H       4           -
LGA    D       5      D       5           -
LGA    R       6      R       6           -
LGA    V       7      V       7           -
LGA    R       8      R       8           -
LGA    L       9      L       9           -
LGA    Q      10      Q      10           -
LGA    L      11      L      11           -
LGA    -       -      Q      12           -
LGA    -       -      A      13           -
LGA    -       -      L      14           -
LGA    -       -      E      15           -
LGA    -       -      A      16           -
LGA    -       -      L      17           -
LGA    -       -      L      18           -
LGA    Q      12      R      19           #
LGA    -       -      E      20           -
LGA    -       -      H      21           -
LGA    -       -      Q      22           -
LGA    -       -      H      23           -
LGA    -       -      W      24           -
LGA    -       -      R      25           -
LGA    -       -      N      26           -
LGA    -       -      D      27           -
LGA    -       -      E      28           -
LGA    -       -      P      29           -
LGA    -       -      Q      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      Q      33           -
LGA    -       -      F      34           -
LGA    -       -      N      35           -
LGA    -       -      S      36           -
LGA    -       -      T      37           -
LGA    A      13      Q      38           #
LGA    L      14      P      39          4.012
LGA    E      15      F      40          4.834
LGA    A      16      F      41           #
LGA    -       -      M      42           -
LGA    -       -      D      43           -
LGA    -       -      T      44           -
LGA    -       -      M      45           -
LGA    -       -      E      46           -
LGA    -       -      P      47           -
LGA    -       -      L      48           -
LGA    -       -      E      49           -
LGA    -       -      W      50           -
LGA    -       -      L      51           -
LGA    -       -      Q      52           -
LGA    -       -      W      53           -
LGA    L      17      V      54           #
LGA    L      18      L      55           #
LGA    R      19      I      56          4.516
LGA    E      20      P      57          0.715
LGA    H      21      R      58          3.908
LGA    Q      22      M      59          2.480
LGA    H      23      H      60          1.003
LGA    W      24      D      61          2.704
LGA    R      25      L      62          2.267
LGA    N      26      L      63          1.684
LGA    D      27      D      64          1.558
LGA    E      28      N      65          1.674
LGA    P      29      -       -           -
LGA    Q      30      -       -           -
LGA    P      31      -       -           -
LGA    H      32      -       -           -
LGA    Q      33      -       -           -
LGA    F      34      -       -           -
LGA    N      35      -       -           -
LGA    S      36      -       -           -
LGA    T      37      -       -           -
LGA    Q      38      -       -           -
LGA    P      39      -       -           -
LGA    F      40      -       -           -
LGA    F      41      -       -           -
LGA    M      42      -       -           -
LGA    D      43      K      66          2.287
LGA    T      44      Q      67          3.218
LGA    M      45      P      68          3.615
LGA    E      46      L      69           #
LGA    P      47      -       -           -
LGA    L      48      -       -           -
LGA    E      49      P      70          4.874
LGA    W      50      G      71          2.621
LGA    L      51      A      72          1.569
LGA    Q      52      F      73          2.248
LGA    W      53      -       -           -
LGA    V      54      -       -           -
LGA    L      55      -       -           -
LGA    I      56      A      74          2.195
LGA    P      57      V      75          2.983
LGA    R      58      -       -           -
LGA    M      59      A      76          1.296
LGA    H      60      P      77          3.959
LGA    D      61      Y      78          4.271
LGA    L      62      Y      79          2.204
LGA    L      63      E      80          0.438
LGA    D      64      -       -           -
LGA    N      65      -       -           -
LGA    K      66      M      81          2.485
LGA    Q      67      A      82          1.803
LGA    P      68      L      83          4.096
LGA    L      69      A      84           #
LGA    -       -      T      85           -
LGA    -       -      D      86           -
LGA    -       -      H      87           -
LGA    P      70      P      88          5.081
LGA    G      71      Q      89          2.536
LGA    A      72      R      90           #
LGA    F      73      A      91           #
LGA    A      74      L      92          2.925
LGA    V      75      I      93          2.844
LGA    A      76      L      94          2.287
LGA    P      77      A      95          1.270
LGA    Y      78      E      96          0.965
LGA    Y      79      L      97          2.360
LGA    E      80      E      98          3.076
LGA    M      81      K      99          2.221
LGA    A      82      L     100          1.616
LGA    L      83      D     101          2.658
LGA    -       -      A     102           -
LGA    A      84      L     103          1.123
LGA    T      85      F     104          3.483
LGA    D      86      A     105          4.263
LGA    H      87      D     106          3.282
LGA    P      88      D     107           -
LGA    Q      89      A     108           -
LGA    R      90      S     109           -
LGA    A      91      -       -           -
LGA    L      92      -       -           -
LGA    I      93      -       -           -
LGA    L      94      -       -           -
LGA    A      95      -       -           -
LGA    E      96      -       -           -
LGA    L      97      -       -           -
LGA    E      98      -       -           -
LGA    K      99      -       -           -
LGA    L     100      -       -           -
LGA    D     101      -       -           -
LGA    A     102      -       -           -
LGA    L     103      -       -           -
LGA    F     104      -       -           -
LGA    A     105      -       -           -
LGA    D     106      -       -           -
LGA    D     107      -       -           -
LGA    A     108      -       -           -
LGA    S     109      -       -           -
LGA    L     110      -       -           -
LGA    E     111      -       -           -
LGA    H     112      -       -           -
LGA    H     113      -       -           -
LGA    H     114      -       -           -
LGA    H     115      -       -           -
LGA    H     116      -       -           -
LGA    H     117      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     45    2.90     8.89     25.301     1.498

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.685916 * X  +   0.724463 * Y  +   0.068363 * Z  +  -5.255082
  Y_new =  -0.107402 * X  +  -0.007872 * Y  +  -0.994184 * Z  +   2.681617
  Z_new =  -0.719711 * X  +  -0.689269 * Y  +   0.083209 * Z  +   3.734338 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.450657    1.690935  [ DEG:   -83.1165     96.8835 ]
  Theta =   0.803386    2.338206  [ DEG:    46.0306    133.9694 ]
  Phi   =  -2.986271    0.155321  [ DEG:  -171.1007      8.8993 ]
 
# 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: T0352TS599_1                                  
REMARK     2: T0352.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0352TS599_1.T0352.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   45   2.90    8.89  25.301
REMARK  ---------------------------------------------------------- 
MOLECULE T0352TS599_1
PFRMAT TS                                                                       
TARGET T0352                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -28.843  11.631   7.622  1.00  0.00              
ATOM      2  CA  THR     2     -28.795  14.196   4.747  1.00  0.00              
ATOM      3  CA  THR     3     -29.133  17.178   2.104  1.00  0.00              
ATOM      4  CA  HIS     4     -27.752  16.956  -1.761  1.00  0.00              
ATOM      5  CA  ASP     5     -24.924  19.255  -0.847  1.00  0.00              
ATOM      6  CA  ARG     6     -23.975  17.396   2.293  1.00  0.00              
ATOM      7  CA  VAL     7     -23.962  14.055   0.413  1.00  0.00              
ATOM      8  CA  ARG     8     -21.799  15.498  -2.321  1.00  0.00              
ATOM      9  CA  LEU     9     -19.314  16.947   0.186  1.00  0.00              
ATOM     10  CA  GLN    10     -19.011  13.601   1.961  1.00  0.00              
ATOM     11  CA  LEU    11     -18.470  11.765  -1.270  1.00  0.00              
ATOM     12  CA  GLN    12     -15.697  14.200  -2.310  1.00  0.00              
ATOM     13  CA  ALA    13     -14.056  13.686   1.079  1.00  0.00              
ATOM     14  CA  LEU    14     -14.302   9.877   0.602  1.00  0.00              
ATOM     15  CA  GLU    15     -12.786  10.001  -2.879  1.00  0.00              
ATOM     16  CA  ALA    16      -9.852  12.131  -1.608  1.00  0.00              
ATOM     17  CA  LEU    17      -9.227   9.754   1.264  1.00  0.00              
ATOM     18  CA  LEU    18      -9.368   6.718  -0.989  1.00  0.00              
ATOM     19  CA  ARG    19      -6.818   8.391  -3.356  1.00  0.00              
ATOM     20  CA  GLU    20      -4.448   9.236  -0.471  1.00  0.00              
ATOM     21  CA  HIS    21      -4.696   5.617   0.745  1.00  0.00              
ATOM     22  CA  GLN    22      -3.951   4.294  -2.796  1.00  0.00              
ATOM     23  CA  HIS    23      -0.681   6.249  -2.601  1.00  0.00              
ATOM     24  CA  TRP    24       0.908   4.796   0.607  1.00  0.00              
ATOM     25  CA  ARG    25       0.563   1.155  -0.254  1.00  0.00              
ATOM     26  CA  ASN    26       2.383   1.774  -3.540  1.00  0.00              
ATOM     27  CA  ASP    27       5.311   3.999  -2.701  1.00  0.00              
ATOM     28  CA  GLU    28       8.636   2.330  -2.611  1.00  0.00              
ATOM     29  CA  PRO    29      11.491   4.638  -3.223  1.00  0.00              
ATOM     30  CA  GLN    30      13.722   3.128  -5.843  1.00  0.00              
ATOM     31  CA  PRO    31      16.875   1.370  -4.576  1.00  0.00              
ATOM     32  CA  HIS    32      19.100   3.711  -6.457  1.00  0.00              
ATOM     33  CA  GLN    33      17.393   6.808  -5.079  1.00  0.00              
ATOM     34  CA  PHE    34      17.611   5.540  -1.460  1.00  0.00              
ATOM     35  CA  ASN    35      21.306   4.758  -1.863  1.00  0.00              
ATOM     36  CA  SER    36      22.145   8.154  -3.307  1.00  0.00              
ATOM     37  CA  THR    37      20.906  10.403  -0.568  1.00  0.00              
ATOM     38  CA  GLN    38      17.622  11.837  -1.954  1.00  0.00              
ATOM     39  CA  PRO    39      14.674  10.925   0.208  1.00  0.00              
ATOM     40  CA  PHE    40      12.719   7.803  -0.820  1.00  0.00              
ATOM     41  CA  PHE    41       9.604   6.963   1.081  1.00  0.00              
ATOM     42  CA  MET    42       8.524   3.543   2.095  1.00  0.00              
ATOM     43  CA  ASP    43       4.799   3.117   2.160  1.00  0.00              
ATOM     44  CA  THR    44       4.334   0.032   4.191  1.00  0.00              
ATOM     45  CA  MET    45       0.756   0.356   5.279  1.00  0.00              
ATOM     46  CA  GLU    46       0.116   0.118   9.073  1.00  0.00              
ATOM     47  CA  PRO    47      -2.670  -2.163  10.172  1.00  0.00              
ATOM     48  CA  LEU    48      -4.947   0.612  11.515  1.00  0.00              
ATOM     49  CA  GLU    49      -4.569   2.634   8.373  1.00  0.00              
ATOM     50  CA  TRP    50      -5.381  -0.415   6.281  1.00  0.00              
ATOM     51  CA  LEU    51      -8.543  -1.166   8.308  1.00  0.00              
ATOM     52  CA  GLN    52      -9.727   2.456   7.916  1.00  0.00              
ATOM     53  CA  TRP    53      -9.021   2.164   4.223  1.00  0.00              
ATOM     54  CA  VAL    54     -10.960  -1.086   3.683  1.00  0.00              
ATOM     55  CA  LEU    55     -13.930   0.446   5.467  1.00  0.00              
ATOM     56  CA  ILE    56     -14.103   4.104   4.443  1.00  0.00              
ATOM     57  CA  PRO    57     -15.214   5.824   7.609  1.00  0.00              
ATOM     58  CA  ARG    58     -17.616   8.363   6.122  1.00  0.00              
ATOM     59  CA  MET    59     -19.317   5.601   4.127  1.00  0.00              
ATOM     60  CA  HIS    60     -19.611   3.455   7.287  1.00  0.00              
ATOM     61  CA  ASP    61     -21.172   6.379   9.190  1.00  0.00              
ATOM     62  CA  LEU    62     -23.704   7.084   6.401  1.00  0.00              
ATOM     63  CA  LEU    63     -24.783   3.442   6.193  1.00  0.00              
ATOM     64  CA  ASP    64     -25.027   3.163   9.982  1.00  0.00              
ATOM     65  CA  ASN    65     -27.131   6.345  10.311  1.00  0.00              
ATOM     66  CA  LYS    66     -29.808   4.949   7.999  1.00  0.00              
ATOM     67  CA  GLN    67     -29.763   7.760   5.524  1.00  0.00              
ATOM     68  CA  PRO    68     -30.714   6.415   2.145  1.00  0.00              
ATOM     69  CA  LEU    69     -28.028   6.962  -0.441  1.00  0.00              
ATOM     70  CA  PRO    70     -28.447  10.187  -2.444  1.00  0.00              
ATOM     71  CA  GLY    71     -28.584   9.652  -6.150  1.00  0.00              
ATOM     72  CA  ALA    72     -25.201  11.354  -6.793  1.00  0.00              
ATOM     73  CA  PHE    73     -23.223   9.408  -4.134  1.00  0.00              
ATOM     74  CA  ALA    74     -23.702   5.765  -3.541  1.00  0.00              
ATOM     75  CA  VAL    75     -21.115   4.920  -0.957  1.00  0.00              
ATOM     76  CA  ALA    76     -22.062   1.264  -0.189  1.00  0.00              
ATOM     77  CA  PRO    77     -20.877  -0.081  -3.509  1.00  0.00              
ATOM     78  CA  TYR    78     -17.435   1.644  -3.238  1.00  0.00              
ATOM     79  CA  TYR    79     -16.801   0.459   0.250  1.00  0.00              
ATOM     80  CA  GLU    80     -17.772  -3.104  -0.410  1.00  0.00              
ATOM     81  CA  MET    81     -15.594  -3.256  -3.455  1.00  0.00              
ATOM     82  CA  ALA    82     -12.480  -1.874  -1.882  1.00  0.00              
ATOM     83  CA  LEU    83     -12.606  -4.071   1.211  1.00  0.00              
ATOM     84  CA  ALA    84     -13.211  -7.225  -0.809  1.00  0.00              
ATOM     85  CA  THR    85     -10.360  -6.600  -3.188  1.00  0.00              
ATOM     86  CA  ASP    86      -7.723  -5.874  -0.638  1.00  0.00              
ATOM     87  CA  HIS    87      -8.073  -8.862   1.694  1.00  0.00              
ATOM     88  CA  PRO    88      -4.588 -10.049   0.848  1.00  0.00              
ATOM     89  CA  GLN    89      -2.876  -6.681   1.501  1.00  0.00              
ATOM     90  CA  ARG    90      -4.567  -6.381   4.896  1.00  0.00              
ATOM     91  CA  ALA    91      -3.521  -9.943   5.844  1.00  0.00              
ATOM     92  CA  LEU    92       0.051  -9.448   4.713  1.00  0.00              
ATOM     93  CA  ILE    93       0.431  -6.309   6.745  1.00  0.00              
ATOM     94  CA  LEU    94      -0.976  -8.003   9.847  1.00  0.00              
ATOM     95  CA  ALA    95       1.370 -11.004   9.473  1.00  0.00              
ATOM     96  CA  GLU    96       4.387  -8.736   9.047  1.00  0.00              
ATOM     97  CA  LEU    97       3.384  -6.709  12.149  1.00  0.00              
ATOM     98  CA  GLU    98       3.040  -9.911  14.138  1.00  0.00              
ATOM     99  CA  LYS    99       6.479 -11.093  12.989  1.00  0.00              
ATOM    100  CA  LEU   100       8.064  -7.805  13.901  1.00  0.00              
ATOM    101  CA  ASP   101       6.438  -7.887  17.380  1.00  0.00              
ATOM    102  CA  ALA   102       7.913 -11.334  18.039  1.00  0.00              
ATOM    103  CA  LEU   103      11.338 -10.052  16.945  1.00  0.00              
ATOM    104  CA  PHE   104      10.998  -7.002  19.218  1.00  0.00              
ATOM    105  CA  ALA   105      10.117  -9.249  22.156  1.00  0.00              
ATOM    106  CA  ASP   106      13.143 -11.490  21.446  1.00  0.00              
ATOM    107  CA  ASP   107      15.465  -8.484  21.383  1.00  0.00              
ATOM    108  CA  ALA   108      16.712  -8.973  17.889  1.00  0.00              
ATOM    109  CA  SER   109      16.207  -5.606  16.115  1.00  0.00              
ATOM    110  CA  LEU   110      14.059  -6.238  13.061  1.00  0.00              
ATOM    111  CA  GLU   111      12.302  -2.888  12.567  1.00  0.00              
ATOM    112  CA  HIS   112      13.012  -2.221   8.881  1.00  0.00              
ATOM    113  CA  HIS   113      13.465   1.510   8.622  1.00  0.00              
ATOM    114  CA  HIS   114      12.074   5.084   8.528  1.00  0.00              
ATOM    115  CA  HIS   115      12.776   6.067   5.136  1.00  0.00              
ATOM    116  CA  HIS   116      12.950  10.236   4.778  1.00  0.00              
ATOM    117  CA  HIS   117      16.872  11.428   3.780  1.00  0.00              
TER                                                                             
END
