
#######################################################
#                                                     #
#                        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  159 (  159),  selected  159 , name T0332TS393_1
# Molecule2: number of CA atoms  159 ( 1235),  selected  159 , name T0332.pdb
# PARAMETERS: T0332TS393_1.T0332.pdb  -4  -ie  -o1  -sia  -d:55A/  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       1      L       1           #
LGA    G       2      G       2          3.192
LGA    K       3      K       3          4.923
LGA    S       4      S       4          1.036
LGA    I       5      I       5          3.750
LGA    S       6      S       6          2.822
LGA    R       7      R       7          1.873
LGA    L       8      L       8          0.613
LGA    I       9      I       9          1.293
LGA    V      10      V      10          1.716
LGA    V      11      V      11          2.081
LGA    A      12      A      12          1.771
LGA    S      13      S      13          3.765
LGA    L      14      L      14          1.824
LGA    I      15      I      15          1.840
LGA    D      16      D      16          3.271
LGA    K      17      K      17          2.373
LGA    P      18      P      18          1.066
LGA    T      19      T      19          1.011
LGA    N      20      N      20          0.982
LGA    L      21      L      21          0.820
LGA    G      22      G      22          0.928
LGA    G      23      G      23          1.444
LGA    L      24      L      24          1.177
LGA    C      25      C      25          0.951
LGA    R      26      R      26          1.503
LGA    T      27      T      27          1.454
LGA    C      28      C      28          0.875
LGA    E      29      E      29          1.884
LGA    V      30      V      30          2.361
LGA    F      31      F      31          0.482
LGA    G      32      G      32          2.464
LGA    A      33      A      33          2.198
LGA    S      34      S      34          2.834
LGA    V      35      V      35          1.018
LGA    L      36      L      36          0.820
LGA    V      37      V      37          1.657
LGA    V      38      V      38          1.886
LGA    G      39      G      39          2.404
LGA    S      40      S      40          4.670
LGA    L      41      L      41           -
LGA    Q      42      -       -           -
LGA    C      43      Q      42           #
LGA    I      44      C      43          3.007
LGA    S      45      I      44           #
LGA    D      46      S      45          2.409
LGA    K      47      D      46          1.960
LGA    Q      48      K      47          3.728
LGA    -       -      Q      48           -
LGA    F      49      F      49          3.214
LGA    Q      50      Q      50          4.197
LGA    -       -      H      51           -
LGA    H      51      L      52          6.376
LGA    L      52      S      53          2.828
LGA    S      53      -       -           -
LGA    V      54      V      54           #
LGA    S      55      S      55          1.251
LGA    A      56      A      56          1.518
LGA    E      57      E      57          2.449
LGA    Q      58      Q      58          1.590
LGA    W      59      W      59          2.320
LGA    L      60      L      60          1.941
LGA    P      61      P      61          0.897
LGA    L      62      L      62          0.497
LGA    V      63      V      63          2.596
LGA    E      64      E      64          2.217
LGA    V      65      V      65          1.154
LGA    K      66      K      66          1.127
LGA    P      67      P      67          3.926
LGA    P      68      P      68          3.673
LGA    Q      69      Q      69          4.191
LGA    L      70      L      70          1.550
LGA    I      71      I      71          0.358
LGA    D      72      D      72          1.206
LGA    Y      73      Y      73          2.095
LGA    L      74      L      74          1.659
LGA    Q      75      Q      75          2.035
LGA    Q      76      Q      76          3.152
LGA    K      77      K      77          3.681
LGA    K      78      K      78          3.857
LGA    T      79      T      79          4.228
LGA    E      80      E      80          2.721
LGA    G      81      G      81          2.777
LGA    Y      82      Y      82          1.637
LGA    T      83      T      83           #
LGA    I      84      I      84          3.688
LGA    I      85      I      85           #
LGA    G      86      G      86          5.446
LGA    V      87      V      87          1.920
LGA    E      88      E      88          2.342
LGA    Q      89      Q      89          5.121
LGA    T      90      T      90           #
LGA    A      91      A      91           -
LGA    K      92      K      92           -
LGA    S      93      S      93          3.429
LGA    L      94      L      94          1.381
LGA    D      95      D      95          1.732
LGA    L      96      L      96          0.529
LGA    T      97      T      97          3.006
LGA    Q      98      Q      98          2.253
LGA    Y      99      Y      99          1.338
LGA    C     100      C     100          1.320
LGA    F     101      F     101          1.471
LGA    P     102      P     102          3.193
LGA    E     103      E     103          3.313
LGA    K     104      K     104          0.611
LGA    S     105      S     105          0.296
LGA    L     106      L     106          3.447
LGA    L     107      L     107          4.810
LGA    L     108      L     108          2.691
LGA    L     109      L     109          2.144
LGA    G     110      G     110          1.515
LGA    N     111      N     111          1.840
LGA    E     112      E     112          1.272
LGA    R     113      R     113          0.397
LGA    E     114      E     114          2.341
LGA    G     115      G     115          0.545
LGA    I     116      I     116          0.774
LGA    P     117      P     117          1.011
LGA    A     118      A     118          2.502
LGA    N     119      N     119          1.875
LGA    L     120      L     120          1.346
LGA    I     121      I     121          2.133
LGA    Q     122      Q     122          1.717
LGA    Q     123      Q     123          0.431
LGA    L     124      L     124          1.751
LGA    D     125      D     125          0.399
LGA    V     126      V     126          0.355
LGA    C     127      C     127          1.171
LGA    V     128      V     128          0.970
LGA    E     129      E     129          3.353
LGA    I     130      I     130           #
LGA    P     131      P     131           #
LGA    Q     132      Q     132          2.981
LGA    Q     133      Q     133          2.171
LGA    G     134      G     134          2.556
LGA    I     135      I     135          2.292
LGA    I     136      I     136          1.912
LGA    R     137      R     137          2.840
LGA    S     138      S     138          2.212
LGA    L     139      L     139          1.781
LGA    N     140      N     140          1.552
LGA    V     141      V     141          0.388
LGA    H     142      H     142          0.727
LGA    V     143      V     143          0.652
LGA    S     144      S     144          0.459
LGA    G     145      G     145          0.954
LGA    A     146      A     146          1.112
LGA    L     147      L     147          0.836
LGA    L     148      L     148          0.859
LGA    I     149      I     149          1.649
LGA    W     150      W     150          1.683
LGA    E     151      E     151          0.891
LGA    Y     152      Y     152          1.435
LGA    T     153      T     153          2.220
LGA    R     154      R     154          1.834
LGA    Q     155      Q     155          0.772
LGA    Q     156      Q     156          2.016
LGA    L     157      L     157          2.442
LGA    L     158      L     158          1.751
LGA    S     159      S     159          3.512

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  159  159    5.0    145    2.35    95.86     59.913     5.919

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.811006 * X  +   0.186552 * Y  +   0.554498 * Z  +  27.292082
  Y_new =  -0.105455 * X  +   0.978888 * Y  +  -0.175093 * Z  +  42.916546
  Z_new =  -0.575455 * X  +   0.083527 * Y  +   0.813557 * Z  +  30.787731 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.102310   -3.039283  [ DEG:     5.8619   -174.1381 ]
  Theta =   0.613161    2.528432  [ DEG:    35.1315    144.8685 ]
  Phi   =  -0.129305    3.012288  [ DEG:    -7.4086    172.5914 ]
 
# 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: T0332TS393_1                                  
REMARK     2: T0332.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0332TS393_1.T0332.pdb -4 -ie -o1 -sia -d:55A/ 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  159  159   5.0  145   2.35   95.86  59.913
REMARK  ---------------------------------------------------------- 
MOLECULE T0332TS393_1
PFRMAT TS
TARGET T0332
MODEL 1
PARENT N/A
ATOM      1  CA  LEU     1       7.921  37.510  43.147  1.00 25.00           C
ATOM      2  CA  GLY     2       9.228  34.007  43.835  1.00 25.00           C
ATOM      3  CA  LYS     3      11.937  31.834  45.517  1.00 25.00           C
ATOM      4  CA  SER     4      14.373  33.836  43.333  1.00 25.00           C
ATOM      5  CA  ILE     5      18.087  34.077  42.886  1.00 25.00           C
ATOM      6  CA  SER     6      19.474  37.651  42.559  1.00 25.00           C
ATOM      7  CA  ARG     7      22.897  39.066  41.700  1.00 25.00           C
ATOM      8  CA  LEU     8      23.328  38.813  37.928  1.00 25.00           C
ATOM      9  CA  ILE     9      24.662  41.610  35.822  1.00 25.00           C
ATOM     10  CA  VAL    10      25.142  42.561  32.189  1.00 25.00           C
ATOM     11  CA  VAL    11      27.910  45.154  31.651  1.00 25.00           C
ATOM     12  CA  ALA    12      29.551  48.061  29.791  1.00 25.00           C
ATOM     13  CA  SER    13      32.991  49.719  30.364  1.00 25.00           C
ATOM     14  CA  LEU    14      32.019  52.220  27.655  1.00 25.00           C
ATOM     15  CA  ILE    15      29.285  52.247  25.007  1.00 25.00           C
ATOM     16  CA  ASP    16      28.431  52.859  21.373  1.00 25.00           C
ATOM     17  CA  LYS    17      26.289  55.964  20.772  1.00 25.00           C
ATOM     18  CA  PRO    18      23.940  54.501  23.361  1.00 25.00           C
ATOM     19  CA  THR    19      22.742  51.929  20.790  1.00 25.00           C
ATOM     20  CA  ASN    20      24.956  49.251  22.399  1.00 25.00           C
ATOM     21  CA  LEU    21      23.542  50.121  25.851  1.00 25.00           C
ATOM     22  CA  GLY    22      19.975  49.864  24.480  1.00 25.00           C
ATOM     23  CA  GLY    23      20.785  46.450  22.943  1.00 25.00           C
ATOM     24  CA  LEU    24      22.228  45.261  26.286  1.00 25.00           C
ATOM     25  CA  CYS    25      19.073  46.455  28.101  1.00 25.00           C
ATOM     26  CA  ARG    26      16.883  44.598  25.567  1.00 25.00           C
ATOM     27  CA  THR    27      18.953  41.417  26.070  1.00 25.00           C
ATOM     28  CA  CYS    28      18.581  41.746  29.868  1.00 25.00           C
ATOM     29  CA  GLU    29      14.796  42.181  29.484  1.00 25.00           C
ATOM     30  CA  VAL    30      14.639  39.069  27.258  1.00 25.00           C
ATOM     31  CA  PHE    31      15.649  37.766  30.706  1.00 25.00           C
ATOM     32  CA  GLY    32      16.785  37.379  34.365  1.00 25.00           C
ATOM     33  CA  ALA    33      20.056  39.330  33.888  1.00 25.00           C
ATOM     34  CA  SER    34      18.281  42.093  35.827  1.00 25.00           C
ATOM     35  CA  VAL    35      20.889  44.780  36.689  1.00 25.00           C
ATOM     36  CA  LEU    36      22.850  46.654  34.021  1.00 25.00           C
ATOM     37  CA  VAL    37      26.144  48.130  35.245  1.00 25.00           C
ATOM     38  CA  VAL    38      25.674  50.451  32.304  1.00 25.00           C
ATOM     39  CA  GLY    39      28.686  52.637  31.749  1.00 25.00           C
ATOM     40  CA  SER    40      30.243  56.076  31.407  1.00 25.00           C
ATOM     41  CA  LEU    41      33.097  57.061  29.148  1.00 25.00           C
ATOM     42  CA  GLN    42      30.295  58.598  27.011  1.00 25.00           C
ATOM     43  CA  CYS    43      26.462  58.778  26.978  1.00 25.00           C
ATOM     44  CA  ILE    44      23.538  59.486  29.307  1.00 25.00           C
ATOM     45  CA  SER    45      22.152  61.313  26.236  1.00 25.00           C
ATOM     46  CA  ASP    46      18.435  61.572  25.439  1.00 25.00           C
ATOM     47  CA  LYS    47      17.404  59.660  22.350  1.00 25.00           C
ATOM     48  CA  GLN    48      18.213  55.924  22.130  1.00 25.00           C
ATOM     49  CA  PHE    49      18.720  55.786  25.924  1.00 25.00           C
ATOM     50  CA  GLN    50      15.363  57.547  26.463  1.00 25.00           C
ATOM     51  CA  HIS    51      13.649  55.051  24.118  1.00 25.00           C
ATOM     52  CA  LEU    52      15.230  52.133  26.030  1.00 25.00           C
ATOM     53  CA  SER    53      14.023  53.619  29.347  1.00 25.00           C
ATOM     54  CA  VAL    54      10.201  53.706  29.828  1.00 25.00           C
ATOM     55  CA  SER    55      10.219  51.927  26.473  1.00 25.00           C
ATOM     56  CA  ALA    56      11.798  48.761  27.882  1.00 25.00           C
ATOM     57  CA  GLU    57      14.402  48.824  30.689  1.00 25.00           C
ATOM     58  CA  GLN    58      11.800  50.264  33.103  1.00 25.00           C
ATOM     59  CA  TRP    59      13.131  47.686  35.641  1.00 25.00           C
ATOM     60  CA  LEU    60      16.835  47.212  34.886  1.00 25.00           C
ATOM     61  CA  PRO    61      17.225  49.697  37.717  1.00 25.00           C
ATOM     62  CA  LEU    62      20.131  50.978  35.649  1.00 25.00           C
ATOM     63  CA  VAL    63      22.493  49.883  38.406  1.00 25.00           C
ATOM     64  CA  GLU    64      24.519  52.892  37.338  1.00 25.00           C
ATOM     65  CA  VAL    65      28.248  53.392  36.716  1.00 25.00           C
ATOM     66  CA  LYS    66      30.811  56.162  36.575  1.00 25.00           C
ATOM     67  CA  PRO    67      34.471  57.312  36.929  1.00 25.00           C
ATOM     68  CA  PRO    68      36.072  56.677  40.305  1.00 25.00           C
ATOM     69  CA  GLN    69      38.570  54.522  38.338  1.00 25.00           C
ATOM     70  CA  LEU    70      35.800  51.952  37.621  1.00 25.00           C
ATOM     71  CA  ILE    71      37.773  49.693  40.002  1.00 25.00           C
ATOM     72  CA  ASP    72      36.497  51.700  43.004  1.00 25.00           C
ATOM     73  CA  TYR    73      32.902  51.379  41.721  1.00 25.00           C
ATOM     74  CA  LEU    74      33.362  47.600  41.308  1.00 25.00           C
ATOM     75  CA  GLN    75      34.732  47.351  44.875  1.00 25.00           C
ATOM     76  CA  GLN    76      31.731  49.333  46.192  1.00 25.00           C
ATOM     77  CA  LYS    77      29.339  47.011  44.307  1.00 25.00           C
ATOM     78  CA  LYS    78      31.105  43.951  45.787  1.00 25.00           C
ATOM     79  CA  THR    79      30.819  45.453  49.298  1.00 25.00           C
ATOM     80  CA  GLU    80      28.475  42.599  50.062  1.00 25.00           C
ATOM     81  CA  GLY    81      28.857  39.660  47.634  1.00 25.00           C
ATOM     82  CA  TYR    82      29.552  39.527  43.931  1.00 25.00           C
ATOM     83  CA  THR    83      28.292  41.235  40.794  1.00 25.00           C
ATOM     84  CA  ILE    84      31.567  42.265  39.117  1.00 25.00           C
ATOM     85  CA  ILE    85      29.970  42.902  35.689  1.00 25.00           C
ATOM     86  CA  GLY    86      29.972  40.643  32.597  1.00 25.00           C
ATOM     87  CA  VAL    87      32.245  39.409  29.802  1.00 25.00           C
ATOM     88  CA  GLU    88      35.312  40.457  27.781  1.00 25.00           C
ATOM     89  CA  GLN    89      33.922  39.188  24.411  1.00 25.00           C
ATOM     90  CA  THR    90      33.437  35.534  23.406  1.00 25.00           C
ATOM     91  CA  ALA    91      33.560  32.492  21.094  1.00 25.00           C
ATOM     92  CA  LYS    92      36.818  31.409  22.735  1.00 25.00           C
ATOM     93  CA  SER    93      39.317  31.564  25.598  1.00 25.00           C
ATOM     94  CA  LEU    94      37.461  29.589  28.224  1.00 25.00           C
ATOM     95  CA  ASP    95      34.780  27.729  26.356  1.00 25.00           C
ATOM     96  CA  LEU    96      31.978  30.173  27.361  1.00 25.00           C
ATOM     97  CA  THR    97      29.184  27.589  27.791  1.00 25.00           C
ATOM     98  CA  GLN    98      31.383  25.575  30.194  1.00 25.00           C
ATOM     99  CA  TYR    99      31.852  28.543  32.456  1.00 25.00           C
ATOM    100  CA  CYS   100      29.546  27.937  35.415  1.00 25.00           C
ATOM    101  CA  PHE   101      27.236  30.869  36.224  1.00 25.00           C
ATOM    102  CA  PRO   102      25.295  30.706  39.412  1.00 25.00           C
ATOM    103  CA  GLU   103      28.373  32.089  41.114  1.00 25.00           C
ATOM    104  CA  LYS   104      26.844  35.458  41.899  1.00 25.00           C
ATOM    105  CA  SER   105      27.803  36.624  38.374  1.00 25.00           C
ATOM    106  CA  LEU   106      30.910  37.458  36.364  1.00 25.00           C
ATOM    107  CA  LEU   107      33.833  39.620  35.249  1.00 25.00           C
ATOM    108  CA  LEU   108      34.365  42.705  33.185  1.00 25.00           C
ATOM    109  CA  LEU   109      33.004  44.366  30.102  1.00 25.00           C
ATOM    110  CA  GLY   110      32.718  45.810  26.598  1.00 25.00           C
ATOM    111  CA  ASN   111      32.623  48.583  23.999  1.00 25.00           C
ATOM    112  CA  GLU   112      33.905  47.984  20.457  1.00 25.00           C
ATOM    113  CA  ARG   113      36.953  50.018  19.670  1.00 25.00           C
ATOM    114  CA  GLU   114      39.765  48.013  21.244  1.00 25.00           C
ATOM    115  CA  GLY   115      37.438  46.582  23.945  1.00 25.00           C
ATOM    116  CA  ILE   116      37.728  46.363  27.775  1.00 25.00           C
ATOM    117  CA  PRO   117      40.256  48.728  29.349  1.00 25.00           C
ATOM    118  CA  ALA   118      42.329  45.639  30.129  1.00 25.00           C
ATOM    119  CA  ASN   119      42.658  47.104  33.652  1.00 25.00           C
ATOM    120  CA  LEU   120      39.034  46.135  34.420  1.00 25.00           C
ATOM    121  CA  ILE   121      39.693  42.578  33.164  1.00 25.00           C
ATOM    122  CA  GLN   122      42.818  42.353  35.367  1.00 25.00           C
ATOM    123  CA  GLN   123      40.803  43.560  38.391  1.00 25.00           C
ATOM    124  CA  LEU   124      37.859  41.249  37.895  1.00 25.00           C
ATOM    125  CA  ASP   125      38.310  37.504  38.310  1.00 25.00           C
ATOM    126  CA  VAL   126      38.235  35.229  35.265  1.00 25.00           C
ATOM    127  CA  CYS   127      37.007  36.836  32.059  1.00 25.00           C
ATOM    128  CA  VAL   128      35.316  35.422  28.971  1.00 25.00           C
ATOM    129  CA  GLU   129      37.740  36.383  26.142  1.00 25.00           C
ATOM    130  CA  ILE   130      38.313  36.536  22.386  1.00 25.00           C
ATOM    131  CA  PRO   131      37.766  35.212  18.851  1.00 25.00           C
ATOM    132  CA  GLN   132      35.414  34.707  15.929  1.00 25.00           C
ATOM    133  CA  GLN   133      35.905  31.874  13.396  1.00 25.00           C
ATOM    134  CA  GLY   134      36.925  32.619   9.809  1.00 25.00           C
ATOM    135  CA  ILE   135      38.144  35.961  11.127  1.00 25.00           C
ATOM    136  CA  ILE   136      34.818  37.184   9.925  1.00 25.00           C
ATOM    137  CA  ARG   137      34.988  39.842  12.621  1.00 25.00           C
ATOM    138  CA  SER   138      32.819  39.211  15.635  1.00 25.00           C
ATOM    139  CA  LEU   139      30.900  41.813  17.755  1.00 25.00           C
ATOM    140  CA  ASN   140      28.578  44.727  18.342  1.00 25.00           C
ATOM    141  CA  VAL   141      28.763  43.947  22.004  1.00 25.00           C
ATOM    142  CA  HIS   142      24.946  43.659  22.117  1.00 25.00           C
ATOM    143  CA  VAL   143      25.117  40.316  20.256  1.00 25.00           C
ATOM    144  CA  SER   144      27.753  39.047  22.727  1.00 25.00           C
ATOM    145  CA  GLY   145      25.545  40.114  25.668  1.00 25.00           C
ATOM    146  CA  ALA   146      22.554  38.295  24.115  1.00 25.00           C
ATOM    147  CA  LEU   147      24.680  35.144  23.651  1.00 25.00           C
ATOM    148  CA  LEU   148      25.811  35.340  27.305  1.00 25.00           C
ATOM    149  CA  ILE   149      22.171  35.706  28.437  1.00 25.00           C
ATOM    150  CA  TRP   150      21.183  32.666  26.329  1.00 25.00           C
ATOM    151  CA  GLU   151      24.045  30.638  27.867  1.00 25.00           C
ATOM    152  CA  TYR   152      22.918  31.666  31.380  1.00 25.00           C
ATOM    153  CA  THR   153      19.326  30.619  30.560  1.00 25.00           C
ATOM    154  CA  ARG   154      20.580  27.239  29.270  1.00 25.00           C
ATOM    155  CA  GLN   155      22.615  26.742  32.476  1.00 25.00           C
ATOM    156  CA  GLN   156      19.533  27.578  34.592  1.00 25.00           C
ATOM    157  CA  LEU   157      16.798  25.530  32.820  1.00 25.00           C
ATOM    158  CA  LEU   158      18.132  22.088  33.795  1.00 25.00           C
ATOM    159  CA  SER   159      21.277  21.616  35.798  1.00 25.00           C
TER
END
