
#######################################################
#                                                     #
#                        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  133 (  133),  selected  133 , name T0307TS599_1
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS599_1.T0307.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    G       2      G       2           -
LGA    -       -      L       3           -
LGA    -       -      G       4           -
LGA    -       -      R       5           -
LGA    -       -      Q       6           -
LGA    -       -      S       7           -
LGA    -       -      L       8           -
LGA    -       -      N       9           -
LGA    -       -      I      10           -
LGA    -       -      M      11           -
LGA    -       -      T      12           -
LGA    -       -      F      13           -
LGA    -       -      S      14           -
LGA    -       -      G      15           -
LGA    -       -      Q      16           -
LGA    -       -      E      17           -
LGA    -       -      L      18           -
LGA    -       -      T      19           -
LGA    -       -      A      20           -
LGA    -       -      I      21           -
LGA    -       -      I      22           -
LGA    -       -      K      23           -
LGA    -       -      M      24           -
LGA    -       -      A      25           -
LGA    -       -      K      26           -
LGA    -       -      S      27           -
LGA    -       -      M      28           -
LGA    L       3      V      29          2.870
LGA    G       4      M      30          3.225
LGA    -       -      A      31           -
LGA    -       -      D      32           -
LGA    R       5      G      33          5.151
LGA    Q       6      K      34           #
LGA    S       7      I      35          3.714
LGA    L       8      K      36           #
LGA    -       -      P      37           -
LGA    -       -      A      38           -
LGA    -       -      E      39           -
LGA    N       9      I      40          1.705
LGA    -       -      A      41           -
LGA    -       -      V      42           -
LGA    I      10      M      43          2.995
LGA    M      11      T      44          1.611
LGA    -       -      R      45           -
LGA    -       -      E      46           -
LGA    T      12      F      47          1.435
LGA    F      13      M      48          2.784
LGA    S      14      R      49          3.803
LGA    G      15      F      50          3.929
LGA    Q      16      G      51          3.898
LGA    E      17      I      52          4.276
LGA    L      18      L      53           #
LGA    T      19      Q      54          3.994
LGA    A      20      D      55           #
LGA    I      21      Q      56          4.330
LGA    I      22      V      57          3.297
LGA    K      23      D      58          4.870
LGA    M      24      L      59          2.967
LGA    A      25      L      60           -
LGA    K      26      -       -           -
LGA    S      27      -       -           -
LGA    M      28      -       -           -
LGA    V      29      -       -           -
LGA    M      30      -       -           -
LGA    A      31      -       -           -
LGA    D      32      -       -           -
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    I      35      -       -           -
LGA    K      36      -       -           -
LGA    P      37      -       -           -
LGA    A      38      -       -           -
LGA    E      39      -       -           -
LGA    I      40      -       -           -
LGA    A      41      -       -           -
LGA    V      42      -       -           -
LGA    M      43      -       -           -
LGA    T      44      -       -           -
LGA    R      45      -       -           -
LGA    E      46      -       -           -
LGA    F      47      -       -           -
LGA    M      48      -       -           -
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    V      57      -       -           -
LGA    D      58      -       -           -
LGA    L      59      -       -           -
LGA    L      60      -       -           -
LGA    L      61      L      61          3.360
LGA    K      62      K      62          5.139
LGA    A      63      A      63          1.661
LGA    S      64      S      64          3.662
LGA    D      65      D      65           #
LGA    -       -      S      66           -
LGA    S      66      I      67          5.563
LGA    I      67      E      68           -
LGA    E      68      A      69           -
LGA    -       -      S      70           -
LGA    -       -      Q      71           -
LGA    -       -      A      72           -
LGA    -       -      V      73           -
LGA    -       -      A      74           -
LGA    A      69      L      75           #
LGA    S      70      I      76          4.067
LGA    Q      71      -       -           -
LGA    A      72      A      77           #
LGA    V      73      R      78          4.678
LGA    A      74      M      79          1.154
LGA    L      75      D      80          3.735
LGA    I      76      E      81          2.722
LGA    A      77      -       -           -
LGA    R      78      E      82           #
LGA    M      79      R      83           #
LGA    D      80      K      84           #
LGA    E      81      -       -           -
LGA    E      82      -       -           -
LGA    R      83      K      85          4.720
LGA    K      84      -       -           -
LGA    K      85      -       -           -
LGA    Y      86      -       -           -
LGA    V      87      Y      86           #
LGA    A      88      V      87           -
LGA    S      89      A      88           -
LGA    Y      90      S      89           #
LGA    L      91      Y      90           -
LGA    G      92      L      91           -
LGA    V      93      -       -           -
LGA    I      94      -       -           -
LGA    M      95      -       -           -
LGA    A      96      G      92           #
LGA    -       -      V      93           -
LGA    -       -      I      94           -
LGA    S      97      M      95          3.705
LGA    D      98      A      96          2.551
LGA    G      99      S      97          3.380
LGA    -       -      D      98           -
LGA    -       -      G      99           -
LGA    D     100      D     100          2.309
LGA    I     101      I     101           #
LGA    D     102      D     102           -
LGA    D     103      D     103           -
LGA    N     104      N     104           -
LGA    E     105      E     105           -
LGA    -       -      L     106           -
LGA    -       -      A     107           -
LGA    -       -      L     108           -
LGA    -       -      W     109           -
LGA    -       -      T     110           -
LGA    -       -      L     111           -
LGA    -       -      I     112           -
LGA    -       -      S     113           -
LGA    -       -      T     114           -
LGA    -       -      L     115           -
LGA    -       -      C     116           -
LGA    -       -      G     117           -
LGA    -       -      L     118           -
LGA    -       -      P     119           -
LGA    -       -      T     120           -
LGA    -       -      M     121           -
LGA    -       -      T     122           -
LGA    L     106      V     123           #
LGA    A     107      M     124          2.349
LGA    L     108      E     125          1.917
LGA    W     109      A     126          2.077
LGA    T     110      I     127          2.267
LGA    L     111      N     128          2.040
LGA    I     112      N     129          2.461
LGA    S     113      M     130          3.332
LGA    T     114      K     131           #
LGA    L     115      -       -           -
LGA    C     116      N     132           #
LGA    G     117      -       -           -
LGA    L     118      -       -           -
LGA    P     119      -       -           -
LGA    T     120      -       -           -
LGA    M     121      -       -           -
LGA    T     122      -       -           -
LGA    V     123      -       -           -
LGA    M     124      -       -           -
LGA    E     125      -       -           -
LGA    A     126      -       -           -
LGA    I     127      -       -           -
LGA    N     128      -       -           -
LGA    N     129      -       -           -
LGA    M     130      -       -           -
LGA    K     131      -       -           -
LGA    N     132      -       -           -
LGA    L     133      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  133  132    5.0     40    3.43    12.50     17.448     1.134

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.608910 * X  +   0.711389 * Y  +  -0.350934 * Z  +  19.425884
  Y_new =   0.066154 * X  +   0.486406 * Y  +   0.871225 * Z  +  12.236176
  Z_new =   0.790476 * X  +   0.507282 * Y  +  -0.343239 * Z  +  25.929129 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.165660   -0.975932  [ DEG:   124.0832    -55.9168 ]
  Theta =  -0.911586   -2.230007  [ DEG:   -52.2300   -127.7700 ]
  Phi   =   3.033374   -0.108219  [ DEG:   173.7995     -6.2005 ]
 
# 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: T0307TS599_1                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS599_1.T0307.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  133  132   5.0   40   3.43   12.50  17.448
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS599_1
PFRMAT TS                                                                       
TARGET T0307                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      23.231   3.659  18.814  1.00  0.00              
ATOM      2  CA  GLY     2      23.181   6.568  16.179  1.00  0.00              
ATOM      3  CA  LEU     3      25.877   8.315  17.789  1.00  0.00              
ATOM      4  CA  GLY     4      29.592   7.425  17.185  1.00  0.00              
ATOM      5  CA  ARG     5      31.779   8.204  20.211  1.00  0.00              
ATOM      6  CA  GLN     6      33.616  11.054  18.520  1.00  0.00              
ATOM      7  CA  SER     7      30.277  12.593  17.419  1.00  0.00              
ATOM      8  CA  LEU     8      27.726  12.333  20.170  1.00  0.00              
ATOM      9  CA  ASN     9      24.687  14.540  19.958  1.00  0.00              
ATOM     10  CA  ILE    10      22.956  14.645  23.255  1.00  0.00              
ATOM     11  CA  MET    11      20.003  16.696  24.419  1.00  0.00              
ATOM     12  CA  THR    12      18.303  15.544  27.648  1.00  0.00              
ATOM     13  CA  PHE    13      15.328  17.515  28.951  1.00  0.00              
ATOM     14  CA  SER    14      14.650  17.084  32.666  1.00  0.00              
ATOM     15  CA  GLY    15      14.236  20.547  34.302  1.00  0.00              
ATOM     16  CA  GLN    16      17.573  20.454  36.152  1.00  0.00              
ATOM     17  CA  GLU    17      19.493  18.785  33.282  1.00  0.00              
ATOM     18  CA  LEU    18      18.764  20.990  30.243  1.00  0.00              
ATOM     19  CA  THR    19      19.576  24.059  32.282  1.00  0.00              
ATOM     20  CA  ALA    20      22.857  22.582  33.453  1.00  0.00              
ATOM     21  CA  ILE    21      23.781  21.558  29.870  1.00  0.00              
ATOM     22  CA  ILE    22      23.031  25.110  28.644  1.00  0.00              
ATOM     23  CA  LYS    23      25.296  26.678  31.284  1.00  0.00              
ATOM     24  CA  MET    24      28.118  24.284  30.339  1.00  0.00              
ATOM     25  CA  ALA    25      27.674  25.091  26.648  1.00  0.00              
ATOM     26  CA  LYS    26      27.833  28.810  27.099  1.00  0.00              
ATOM     27  CA  SER    27      31.034  28.694  29.170  1.00  0.00              
ATOM     28  CA  MET    28      32.524  26.453  26.422  1.00  0.00              
ATOM     29  CA  VAL    29      31.607  28.264  23.257  1.00  0.00              
ATOM     30  CA  MET    30      30.427  26.961  19.902  1.00  0.00              
ATOM     31  CA  ALA    31      31.557  29.094  16.987  1.00  0.00              
ATOM     32  CA  ASP    32      29.421  27.981  14.121  1.00  0.00              
ATOM     33  CA  GLY    33      26.177  28.216  16.001  1.00  0.00              
ATOM     34  CA  LYS    34      25.523  24.510  15.702  1.00  0.00              
ATOM     35  CA  ILE    35      24.113  23.875  19.151  1.00  0.00              
ATOM     36  CA  LYS    36      21.455  26.325  20.421  1.00  0.00              
ATOM     37  CA  PRO    37      21.486  26.948  24.134  1.00  0.00              
ATOM     38  CA  ALA    38      18.106  25.403  24.874  1.00  0.00              
ATOM     39  CA  GLU    39      18.701  22.191  22.997  1.00  0.00              
ATOM     40  CA  ILE    40      22.297  21.254  23.812  1.00  0.00              
ATOM     41  CA  ALA    41      24.254  19.062  21.360  1.00  0.00              
ATOM     42  CA  VAL    42      27.673  17.729  22.131  1.00  0.00              
ATOM     43  CA  MET    43      29.875  16.373  19.405  1.00  0.00              
ATOM     44  CA  THR    44      33.455  15.813  20.393  1.00  0.00              
ATOM     45  CA  ARG    45      35.478  16.441  17.201  1.00  0.00              
ATOM     46  CA  GLU    46      33.151  19.414  16.671  1.00  0.00              
ATOM     47  CA  PHE    47      34.058  20.957  20.072  1.00  0.00              
ATOM     48  CA  MET    48      37.834  20.828  20.051  1.00  0.00              
ATOM     49  CA  ARG    49      37.665  22.041  16.467  1.00  0.00              
ATOM     50  CA  PHE    50      35.291  24.987  17.097  1.00  0.00              
ATOM     51  CA  GLY    51      37.489  26.197  19.943  1.00  0.00              
ATOM     52  CA  ILE    52      35.294  26.074  23.011  1.00  0.00              
ATOM     53  CA  LEU    53      38.098  24.917  25.310  1.00  0.00              
ATOM     54  CA  GLN    54      38.545  21.335  24.284  1.00  0.00              
ATOM     55  CA  ASP    55      39.645  20.068  27.744  1.00  0.00              
ATOM     56  CA  GLN    56      36.763  22.089  29.273  1.00  0.00              
ATOM     57  CA  VAL    57      34.287  20.293  26.973  1.00  0.00              
ATOM     58  CA  ASP    58      35.629  16.841  28.072  1.00  0.00              
ATOM     59  CA  LEU    59      35.032  17.856  31.707  1.00  0.00              
ATOM     60  CA  LEU    60      31.495  19.168  30.963  1.00  0.00              
ATOM     61  CA  LEU    61      30.613  15.968  29.080  1.00  0.00              
ATOM     62  CA  LYS    62      31.812  13.624  31.848  1.00  0.00              
ATOM     63  CA  ALA    63      29.888  15.501  34.530  1.00  0.00              
ATOM     64  CA  SER    64      26.654  15.529  32.504  1.00  0.00              
ATOM     65  CA  ASP    65      26.592  11.761  31.943  1.00  0.00              
ATOM     66  CA  SER    66      27.076  10.991  35.653  1.00  0.00              
ATOM     67  CA  ILE    67      24.326  13.245  36.996  1.00  0.00              
ATOM     68  CA  GLU    68      21.830  12.177  34.330  1.00  0.00              
ATOM     69  CA  ALA    69      22.317   8.429  34.843  1.00  0.00              
ATOM     70  CA  SER    70      21.901   8.640  38.603  1.00  0.00              
ATOM     71  CA  GLN    71      18.645  10.643  38.361  1.00  0.00              
ATOM     72  CA  ALA    72      17.186   8.190  35.856  1.00  0.00              
ATOM     73  CA  VAL    73      17.778   4.867  37.557  1.00  0.00              
ATOM     74  CA  ALA    74      16.458   6.230  40.828  1.00  0.00              
ATOM     75  CA  LEU    75      13.342   7.663  39.266  1.00  0.00              
ATOM     76  CA  ILE    76      12.522   4.454  37.338  1.00  0.00              
ATOM     77  CA  ALA    77      13.026   2.241  40.403  1.00  0.00              
ATOM     78  CA  ARG    78      10.931   4.470  42.665  1.00  0.00              
ATOM     79  CA  MET    79       8.054   4.585  40.108  1.00  0.00              
ATOM     80  CA  ASP    80       7.823   0.937  39.362  1.00  0.00              
ATOM     81  CA  GLU    81       4.267  -0.012  38.299  1.00  0.00              
ATOM     82  CA  GLU    82       3.793   3.097  36.224  1.00  0.00              
ATOM     83  CA  ARG    83       7.142   2.700  34.563  1.00  0.00              
ATOM     84  CA  LYS    84       6.545  -0.981  33.660  1.00  0.00              
ATOM     85  CA  LYS    85       3.161  -0.121  32.122  1.00  0.00              
ATOM     86  CA  TYR    86       4.675   2.748  30.070  1.00  0.00              
ATOM     87  CA  VAL    87       7.451   0.518  28.813  1.00  0.00              
ATOM     88  CA  ALA    88       4.962  -2.226  27.782  1.00  0.00              
ATOM     89  CA  SER    89       2.813   0.248  25.869  1.00  0.00              
ATOM     90  CA  TYR    90       5.863   1.638  24.022  1.00  0.00              
ATOM     91  CA  LEU    91       7.089  -1.874  23.169  1.00  0.00              
ATOM     92  CA  GLY    92       3.572  -3.050  22.113  1.00  0.00              
ATOM     93  CA  VAL    93       3.605  -0.104  19.657  1.00  0.00              
ATOM     94  CA  ILE    94       7.177  -0.430  18.329  1.00  0.00              
ATOM     95  CA  MET    95       8.730   3.063  18.069  1.00  0.00              
ATOM     96  CA  ALA    96      12.088   3.207  16.373  1.00  0.00              
ATOM     97  CA  SER    97      14.793   5.719  17.182  1.00  0.00              
ATOM     98  CA  ASP    98      14.749   7.514  13.877  1.00  0.00              
ATOM     99  CA  GLY    99      10.962   8.088  13.813  1.00  0.00              
ATOM    100  CA  ASP   100      10.065   5.344  11.349  1.00  0.00              
ATOM    101  CA  ILE   101       7.146   3.803  13.171  1.00  0.00              
ATOM    102  CA  ASP   102       4.170   3.102  11.000  1.00  0.00              
ATOM    103  CA  ASP   103       0.783   4.207  12.221  1.00  0.00              
ATOM    104  CA  ASN   104      -0.153   0.667  13.215  1.00  0.00              
ATOM    105  CA  GLU   105       2.788   0.295  15.601  1.00  0.00              
ATOM    106  CA  LEU   106       2.860   3.509  17.638  1.00  0.00              
ATOM    107  CA  ALA   107       4.120   4.111  21.100  1.00  0.00              
ATOM    108  CA  LEU   108       3.921   5.917  24.290  1.00  0.00              
ATOM    109  CA  TRP   109       7.465   6.276  25.640  1.00  0.00              
ATOM    110  CA  THR   110       8.454   7.283  22.075  1.00  0.00              
ATOM    111  CA  LEU   111       5.955  10.160  22.234  1.00  0.00              
ATOM    112  CA  ILE   112       7.226  11.354  25.623  1.00  0.00              
ATOM    113  CA  SER   113      10.864  11.048  24.648  1.00  0.00              
ATOM    114  CA  THR   114      10.158  13.234  21.568  1.00  0.00              
ATOM    115  CA  LEU   115       8.338  15.876  23.630  1.00  0.00              
ATOM    116  CA  CYS   116      11.124  16.034  26.271  1.00  0.00              
ATOM    117  CA  GLY   117      13.880  16.307  23.694  1.00  0.00              
ATOM    118  CA  LEU   118      15.632  13.100  24.555  1.00  0.00              
ATOM    119  CA  PRO   119      16.851  11.088  21.613  1.00  0.00              
ATOM    120  CA  THR   120      14.554   8.092  20.962  1.00  0.00              
ATOM    121  CA  MET   121      17.282   5.413  20.946  1.00  0.00              
ATOM    122  CA  THR   122      18.970   6.902  24.048  1.00  0.00              
ATOM    123  CA  VAL   123      15.830   7.169  26.184  1.00  0.00              
ATOM    124  CA  MET   124      14.599   3.643  25.416  1.00  0.00              
ATOM    125  CA  GLU   125      17.953   2.159  26.227  1.00  0.00              
ATOM    126  CA  ALA   126      18.140   4.000  29.498  1.00  0.00              
ATOM    127  CA  ILE   127      14.656   2.962  30.602  1.00  0.00              
ATOM    128  CA  ASN   128      15.433  -0.701  29.805  1.00  0.00              
ATOM    129  CA  ASN   129      18.679  -0.573  31.713  1.00  0.00              
ATOM    130  CA  MET   130      17.206   0.938  34.812  1.00  0.00              
ATOM    131  CA  LYS   131      14.328  -1.183  35.153  1.00  0.00              
ATOM    132  CA  ASN   132      17.401  -2.813  36.009  1.00  0.00              
ATOM    133  CA  LEU   133      19.875  -0.975  38.130  1.00  0.00              
TER                                                                             
END
