
#######################################################
#                                                     #
#                        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  165 (  165),  selected  165 , name T0308TS393_1
# Molecule2: number of CA atoms  165 ( 1274),  selected  165 , name T0308
# PARAMETERS: T0308TS393_1.T0308  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E       1      E       1          1.989
LGA    V       2      V       2          2.679
LGA    H       3      H       3          1.753
LGA    V       4      V       4          2.204
LGA    L       5      L       5          1.299
LGA    C       6      C       6          0.740
LGA    L       7      L       7          0.716
LGA    G       8      G       8          0.665
LGA    L       9      L       9          1.695
LGA    D      10      D      10          1.198
LGA    N      11      N      11          0.669
LGA    S      12      S      12          0.895
LGA    G      13      G      13          0.858
LGA    K      14      K      14          0.213
LGA    T      15      T      15          0.697
LGA    T      16      T      16          0.784
LGA    I      17      I      17          0.641
LGA    I      18      I      18          0.892
LGA    N      19      N      19          1.298
LGA    K      20      K      20          1.276
LGA    L      21      L      21          1.096
LGA    K      22      K      22          1.289
LGA    P      23      P      23          1.875
LGA    S      24      S      24          5.544
LGA    -       -      N      25           -
LGA    N      25      A      26          2.518
LGA    A      26      Q      27          3.250
LGA    Q      27      S      28          2.403
LGA    S      28      Q      29          1.536
LGA    Q      29      N      30          2.372
LGA    N      30      I      31          3.272
LGA    I      31      L      32          3.548
LGA    L      32      -       -           -
LGA    P      33      P      33          0.920
LGA    T      34      T      34          1.893
LGA    I      35      I      35          1.491
LGA    G      36      G      36          2.899
LGA    F      37      F      37          1.865
LGA    S      38      S      38          1.866
LGA    I      39      I      39          0.757
LGA    E      40      E      40          1.461
LGA    K      41      K      41          1.683
LGA    F      42      F      42          1.974
LGA    K      43      K      43          1.794
LGA    S      44      S      44          2.788
LGA    S      45      S      45          5.192
LGA    S      46      S      46          4.352
LGA    L      47      L      47          3.958
LGA    S      48      S      48          2.764
LGA    F      49      F      49          1.546
LGA    T      50      T      50          2.518
LGA    V      51      V      51          1.896
LGA    F      52      F      52          1.986
LGA    D      53      D      53          1.576
LGA    M      54      M      54          1.838
LGA    S      55      S      55          1.544
LGA    G      56      G      56          2.836
LGA    Q      57      Q      57          4.333
LGA    G      58      G      58          5.033
LGA    R      59      R      59          5.766
LGA    Y      60      Y      60          2.839
LGA    R      61      R      61          2.228
LGA    N      62      N      62          2.647
LGA    L      63      L      63          2.568
LGA    W      64      W      64          2.635
LGA    E      65      E      65          1.619
LGA    H      66      H      66          0.542
LGA    Y      67      Y      67          1.357
LGA    Y      68      Y      68          1.691
LGA    K      69      K      69          0.981
LGA    E      70      E      70          2.142
LGA    G      71      G      71          2.290
LGA    Q      72      Q      72          1.983
LGA    A      73      A      73          0.617
LGA    I      74      I      74          1.414
LGA    I      75      I      75          2.744
LGA    F      76      F      76          1.387
LGA    V      77      V      77          0.331
LGA    I      78      I      78          1.222
LGA    D      79      D      79          1.459
LGA    S      80      S      80          1.142
LGA    S      81      S      81          1.515
LGA    D      82      D      82          1.716
LGA    R      83      R      83          2.386
LGA    L      84      L      84          2.621
LGA    R      85      R      85          0.761
LGA    M      86      M      86          0.563
LGA    V      87      V      87          0.997
LGA    V      88      V      88          0.616
LGA    A      89      A      89          0.731
LGA    K      90      K      90          1.366
LGA    E      91      E      91          1.352
LGA    E      92      E      92          0.813
LGA    L      93      L      93          1.236
LGA    D      94      D      94          1.539
LGA    T      95      T      95          1.170
LGA    L      96      L      96          1.057
LGA    L      97      L      97          1.292
LGA    N      98      N      98          1.408
LGA    H      99      H      99          1.041
LGA    P     100      P     100          1.784
LGA    D     101      D     101          3.414
LGA    I     102      I     102          2.322
LGA    K     103      K     103           #
LGA    H     104      H     104          2.968
LGA    R     105      R     105          2.218
LGA    R     106      R     106          2.016
LGA    I     107      I     107          0.864
LGA    P     108      P     108          0.940
LGA    I     109      I     109          1.358
LGA    L     110      L     110          1.249
LGA    F     111      F     111          0.658
LGA    F     112      F     112          1.555
LGA    A     113      A     113          1.688
LGA    N     114      N     114          0.747
LGA    K     115      K     115          1.519
LGA    M     116      M     116          1.300
LGA    D     117      D     117          0.977
LGA    L     118      L     118          1.045
LGA    R     119      R     119          0.340
LGA    D     120      D     120          3.320
LGA    A     121      A     121          2.317
LGA    V     122      V     122          1.065
LGA    T     123      T     123          1.121
LGA    S     124      S     124          2.386
LGA    V     125      V     125          1.712
LGA    K     126      K     126          1.290
LGA    V     127      V     127          1.478
LGA    S     128      S     128          1.158
LGA    Q     129      Q     129          0.686
LGA    L     130      L     130          0.639
LGA    L     131      L     131          1.160
LGA    C     132      C     132          1.068
LGA    L     133      L     133          0.603
LGA    E     134      E     134          0.656
LGA    N     135      N     135          2.210
LGA    I     136      I     136          1.744
LGA    K     137      K     137          2.115
LGA    D     138      D     138          2.393
LGA    K     139      K     139          2.102
LGA    P     140      P     140          1.487
LGA    W     141      W     141          1.977
LGA    H     142      H     142          1.563
LGA    I     143      I     143          1.736
LGA    C     144      C     144          1.047
LGA    A     145      A     145          0.596
LGA    S     146      S     146          0.554
LGA    D     147      D     147          1.951
LGA    A     148      A     148          1.613
LGA    I     149      I     149          2.578
LGA    K     150      K     150          2.184
LGA    G     151      G     151          1.694
LGA    E     152      E     152          0.659
LGA    G     153      G     153          1.907
LGA    L     154      L     154          1.557
LGA    Q     155      Q     155          1.608
LGA    E     156      E     156          1.368
LGA    G     157      G     157          1.046
LGA    V     158      V     158          1.347
LGA    D     159      D     159          1.687
LGA    W     160      W     160          1.303
LGA    L     161      L     161          1.255
LGA    Q     162      Q     162          1.633
LGA    D     163      D     163          1.455
LGA    Q     164      Q     164          0.940
LGA    I     165      I     165          2.190

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  165  165    5.0    163    1.97    95.71     76.873     7.861

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.085144 * X  +  -0.120286 * Y  +   0.989081 * Z  +   4.247912
  Y_new =   0.907501 * X  +  -0.400447 * Y  +  -0.126822 * Z  +  31.663521
  Z_new =   0.411330 * X  +   0.908390 * Y  +   0.075064 * Z  +  18.040926 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.488349   -1.653243  [ DEG:    85.2761    -94.7239 ]
  Theta =  -0.423913   -2.717680  [ DEG:   -24.2884   -155.7116 ]
  Phi   =   1.477247   -1.664345  [ DEG:    84.6400    -95.3600 ]
 
# 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: T0308TS393_1                                  
REMARK     2: T0308                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0308TS393_1.T0308 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  165  165   5.0  163   1.97   95.71  76.873
REMARK  ---------------------------------------------------------- 
MOLECULE T0308TS393_1
PFRMAT TS
TARGET T0308
MODEL 1
PARENT N/A
ATOM      1  CA  GLU     1      -3.824  18.299  27.714  1.00 25.00           C
ATOM      2  CA  VAL     2      -2.306  21.740  27.192  1.00 25.00           C
ATOM      3  CA  HIS     3       0.070  23.762  25.102  1.00 25.00           C
ATOM      4  CA  VAL     4       0.697  25.907  21.972  1.00 25.00           C
ATOM      5  CA  LEU     5       3.428  28.100  23.520  1.00 25.00           C
ATOM      6  CA  CYS     6       3.694  31.699  22.185  1.00 25.00           C
ATOM      7  CA  LEU     7       6.801  33.841  22.334  1.00 25.00           C
ATOM      8  CA  GLY     8       8.330  36.485  19.975  1.00 25.00           C
ATOM      9  CA  LEU     9       6.947  40.015  20.558  1.00 25.00           C
ATOM     10  CA  ASP    10       5.316  43.282  21.400  1.00 25.00           C
ATOM     11  CA  ASN    11       4.551  44.020  17.702  1.00 25.00           C
ATOM     12  CA  SER    12       4.635  40.876  15.566  1.00 25.00           C
ATOM     13  CA  GLY    13       1.450  38.813  15.843  1.00 25.00           C
ATOM     14  CA  LYS    14       0.935  36.731  18.915  1.00 25.00           C
ATOM     15  CA  THR    15      -2.230  38.274  20.421  1.00 25.00           C
ATOM     16  CA  THR    16      -3.575  39.005  16.910  1.00 25.00           C
ATOM     17  CA  ILE    17      -2.861  35.393  15.858  1.00 25.00           C
ATOM     18  CA  ILE    18      -4.682  34.100  18.970  1.00 25.00           C
ATOM     19  CA  ASN    19      -7.682  36.346  18.176  1.00 25.00           C
ATOM     20  CA  LYS    20      -7.737  35.043  14.575  1.00 25.00           C
ATOM     21  CA  LEU    21      -7.637  31.434  15.854  1.00 25.00           C
ATOM     22  CA  LYS    22     -10.535  32.175  18.245  1.00 25.00           C
ATOM     23  CA  PRO    23     -13.385  29.688  18.394  1.00 25.00           C
ATOM     24  CA  SER    24     -14.683  31.894  21.245  1.00 25.00           C
ATOM     25  CA  ASN    25     -14.355  35.332  19.610  1.00 25.00           C
ATOM     26  CA  ALA    26     -14.004  38.089  16.930  1.00 25.00           C
ATOM     27  CA  GLN    27     -11.505  40.404  18.642  1.00 25.00           C
ATOM     28  CA  SER    28     -12.564  43.714  20.191  1.00 25.00           C
ATOM     29  CA  GLN    29      -9.715  45.093  18.118  1.00 25.00           C
ATOM     30  CA  ASN    30      -7.407  46.761  20.662  1.00 25.00           C
ATOM     31  CA  ILE    31      -5.041  48.974  22.628  1.00 25.00           C
ATOM     32  CA  LEU    32      -3.865  46.127  24.889  1.00 25.00           C
ATOM     33  CA  PRO    33      -0.646  44.031  24.617  1.00 25.00           C
ATOM     34  CA  THR    34      -0.987  42.640  28.180  1.00 25.00           C
ATOM     35  CA  ILE    35       0.521  42.838  31.676  1.00 25.00           C
ATOM     36  CA  GLY    36       0.092  39.086  32.389  1.00 25.00           C
ATOM     37  CA  PHE    37      -0.907  37.592  29.036  1.00 25.00           C
ATOM     38  CA  SER    38      -3.754  35.364  27.829  1.00 25.00           C
ATOM     39  CA  ILE    39      -3.988  31.711  28.753  1.00 25.00           C
ATOM     40  CA  GLU    40      -6.991  30.233  27.033  1.00 25.00           C
ATOM     41  CA  LYS    41      -9.743  27.875  25.924  1.00 25.00           C
ATOM     42  CA  PHE    42     -10.769  27.102  22.378  1.00 25.00           C
ATOM     43  CA  LYS    43     -10.215  23.520  21.098  1.00 25.00           C
ATOM     44  CA  SER    44     -10.812  21.337  17.998  1.00 25.00           C
ATOM     45  CA  SER    45     -12.809  18.189  18.758  1.00 25.00           C
ATOM     46  CA  SER    46     -10.832  16.619  21.640  1.00 25.00           C
ATOM     47  CA  LEU    47      -8.556  18.937  23.634  1.00 25.00           C
ATOM     48  CA  SER    48      -6.754  22.021  24.856  1.00 25.00           C
ATOM     49  CA  PHE    49      -4.570  24.265  22.610  1.00 25.00           C
ATOM     50  CA  THR    50      -3.591  27.301  24.672  1.00 25.00           C
ATOM     51  CA  VAL    51      -0.953  30.020  25.055  1.00 25.00           C
ATOM     52  CA  PHE    52       1.141  32.378  27.272  1.00 25.00           C
ATOM     53  CA  ASP    53       0.692  35.023  24.566  1.00 25.00           C
ATOM     54  CA  MET    54       3.599  37.216  25.608  1.00 25.00           C
ATOM     55  CA  SER    55       4.562  40.539  27.155  1.00 25.00           C
ATOM     56  CA  GLY    56       8.244  40.983  26.370  1.00 25.00           C
ATOM     57  CA  GLN    57      11.488  42.197  27.887  1.00 25.00           C
ATOM     58  CA  GLY    58      11.108  41.589  31.633  1.00 25.00           C
ATOM     59  CA  ARG    59       8.755  40.394  34.408  1.00 25.00           C
ATOM     60  CA  TYR    60       6.239  39.185  31.786  1.00 25.00           C
ATOM     61  CA  ARG    61       9.023  37.306  29.945  1.00 25.00           C
ATOM     62  CA  ASN    62      10.128  35.677  33.230  1.00 25.00           C
ATOM     63  CA  LEU    63       6.517  34.628  33.954  1.00 25.00           C
ATOM     64  CA  TRP    64       6.222  33.129  30.441  1.00 25.00           C
ATOM     65  CA  GLU    65       9.492  31.205  30.961  1.00 25.00           C
ATOM     66  CA  HIS    66       8.207  29.879  34.316  1.00 25.00           C
ATOM     67  CA  TYR    67       4.940  28.771  32.656  1.00 25.00           C
ATOM     68  CA  TYR    68       6.915  26.989  29.900  1.00 25.00           C
ATOM     69  CA  LYS    69       8.264  23.825  31.460  1.00 25.00           C
ATOM     70  CA  GLU    70       5.361  21.544  30.361  1.00 25.00           C
ATOM     71  CA  GLY    71       4.833  21.732  26.613  1.00 25.00           C
ATOM     72  CA  GLN    72       3.518  19.355  23.896  1.00 25.00           C
ATOM     73  CA  ALA    73       4.433  22.325  21.632  1.00 25.00           C
ATOM     74  CA  ILE    74       6.556  25.344  20.858  1.00 25.00           C
ATOM     75  CA  ILE    75       6.767  28.617  18.876  1.00 25.00           C
ATOM     76  CA  PHE    76       7.954  32.000  17.710  1.00 25.00           C
ATOM     77  CA  VAL    77       5.849  34.632  15.982  1.00 25.00           C
ATOM     78  CA  ILE    78       8.468  37.118  14.733  1.00 25.00           C
ATOM     79  CA  ASP    79       7.430  38.959  11.532  1.00 25.00           C
ATOM     80  CA  SER    80       8.553  39.910   7.996  1.00 25.00           C
ATOM     81  CA  SER    81       9.147  43.585   8.795  1.00 25.00           C
ATOM     82  CA  ASP    82      12.208  44.755  10.760  1.00 25.00           C
ATOM     83  CA  ARG    83      15.922  43.704  10.848  1.00 25.00           C
ATOM     84  CA  LEU    84      17.267  44.213  14.396  1.00 25.00           C
ATOM     85  CA  ARG    85      13.857  43.255  15.853  1.00 25.00           C
ATOM     86  CA  MET    86      13.787  40.103  13.678  1.00 25.00           C
ATOM     87  CA  VAL    87      17.312  39.181  14.858  1.00 25.00           C
ATOM     88  CA  VAL    88      16.249  39.677  18.503  1.00 25.00           C
ATOM     89  CA  ALA    89      13.183  37.451  17.938  1.00 25.00           C
ATOM     90  CA  LYS    90      15.402  34.752  16.369  1.00 25.00           C
ATOM     91  CA  GLU    91      17.787  34.940  19.359  1.00 25.00           C
ATOM     92  CA  GLU    92      14.831  34.598  21.770  1.00 25.00           C
ATOM     93  CA  LEU    93      13.563  31.554  19.823  1.00 25.00           C
ATOM     94  CA  ASP    94      17.050  29.978  19.968  1.00 25.00           C
ATOM     95  CA  THR    95      17.197  30.593  23.746  1.00 25.00           C
ATOM     96  CA  LEU    96      13.750  28.981  24.168  1.00 25.00           C
ATOM     97  CA  LEU    97      14.890  25.949  22.125  1.00 25.00           C
ATOM     98  CA  ASN    98      18.122  25.284  24.049  1.00 25.00           C
ATOM     99  CA  HIS    99      17.907  27.037  27.439  1.00 25.00           C
ATOM    100  CA  PRO   100      16.490  23.838  28.931  1.00 25.00           C
ATOM    101  CA  ASP   101      13.149  25.438  28.071  1.00 25.00           C
ATOM    102  CA  ILE   102      11.364  23.244  25.573  1.00 25.00           C
ATOM    103  CA  LYS   103      10.939  20.869  28.456  1.00 25.00           C
ATOM    104  CA  HIS   104      13.941  18.521  27.898  1.00 25.00           C
ATOM    105  CA  ARG   105      13.808  18.959  24.164  1.00 25.00           C
ATOM    106  CA  ARG   106      10.464  17.351  23.347  1.00 25.00           C
ATOM    107  CA  ILE   107       9.007  20.090  21.121  1.00 25.00           C
ATOM    108  CA  PRO   108       7.638  21.230  17.837  1.00 25.00           C
ATOM    109  CA  ILE   109       8.060  24.535  16.054  1.00 25.00           C
ATOM    110  CA  LEU   110       5.600  26.214  13.724  1.00 25.00           C
ATOM    111  CA  PHE   111       6.912  29.778  13.191  1.00 25.00           C
ATOM    112  CA  PHE   112       3.533  30.726  11.755  1.00 25.00           C
ATOM    113  CA  ALA   113       5.249  34.030  10.976  1.00 25.00           C
ATOM    114  CA  ASN   114       3.087  37.093  10.974  1.00 25.00           C
ATOM    115  CA  LYS   115       2.247  39.039   7.873  1.00 25.00           C
ATOM    116  CA  MET   116       2.715  38.967   4.101  1.00 25.00           C
ATOM    117  CA  ASP   117       0.741  42.215   4.023  1.00 25.00           C
ATOM    118  CA  LEU   118       2.853  45.228   5.028  1.00 25.00           C
ATOM    119  CA  ARG   119       5.025  45.796   2.027  1.00 25.00           C
ATOM    120  CA  ASP   120       8.008  44.069   0.441  1.00 25.00           C
ATOM    121  CA  ALA   121       9.301  42.395   3.648  1.00 25.00           C
ATOM    122  CA  VAL   122      10.759  38.837   3.521  1.00 25.00           C
ATOM    123  CA  THR   123       8.909  35.897   1.974  1.00 25.00           C
ATOM    124  CA  SER   124       8.876  32.201   2.860  1.00 25.00           C
ATOM    125  CA  VAL   125      12.269  30.756   1.828  1.00 25.00           C
ATOM    126  CA  LYS   126      13.957  34.107   2.598  1.00 25.00           C
ATOM    127  CA  VAL   127      12.265  34.199   6.032  1.00 25.00           C
ATOM    128  CA  SER   128      13.452  30.627   6.739  1.00 25.00           C
ATOM    129  CA  GLN   129      17.020  31.585   5.729  1.00 25.00           C
ATOM    130  CA  LEU   130      16.882  34.634   8.042  1.00 25.00           C
ATOM    131  CA  LEU   131      15.650  32.427  10.919  1.00 25.00           C
ATOM    132  CA  CYS   132      18.539  30.052  11.434  1.00 25.00           C
ATOM    133  CA  LEU   133      15.911  27.339  11.803  1.00 25.00           C
ATOM    134  CA  GLU   134      17.628  24.864   9.482  1.00 25.00           C
ATOM    135  CA  ASN   135      20.521  22.795  10.794  1.00 25.00           C
ATOM    136  CA  ILE   136      18.333  22.550  13.884  1.00 25.00           C
ATOM    137  CA  LYS   137      17.089  19.263  12.319  1.00 25.00           C
ATOM    138  CA  ASP   138      16.309  16.959  15.243  1.00 25.00           C
ATOM    139  CA  LYS   139      12.874  18.605  15.435  1.00 25.00           C
ATOM    140  CA  PRO   140       9.730  19.033  13.372  1.00 25.00           C
ATOM    141  CA  TRP   141      10.070  22.427  11.627  1.00 25.00           C
ATOM    142  CA  HIS   142       7.542  23.782   9.128  1.00 25.00           C
ATOM    143  CA  ILE   143       7.323  27.265   7.640  1.00 25.00           C
ATOM    144  CA  CYS   144       3.844  28.528   7.100  1.00 25.00           C
ATOM    145  CA  ALA   145       3.515  32.197   6.209  1.00 25.00           C
ATOM    146  CA  SER   146       0.681  34.288   7.549  1.00 25.00           C
ATOM    147  CA  ASP   147      -1.970  36.360   9.453  1.00 25.00           C
ATOM    148  CA  ALA   148      -4.638  38.338  11.240  1.00 25.00           C
ATOM    149  CA  ILE   149      -5.919  39.909   8.087  1.00 25.00           C
ATOM    150  CA  LYS   150      -7.735  37.623   5.579  1.00 25.00           C
ATOM    151  CA  GLY   151      -7.706  34.556   7.854  1.00 25.00           C
ATOM    152  CA  GLU   152      -4.852  33.457   5.522  1.00 25.00           C
ATOM    153  CA  GLY   153      -3.691  30.706   7.809  1.00 25.00           C
ATOM    154  CA  LEU   154      -1.942  29.325  10.835  1.00 25.00           C
ATOM    155  CA  GLN   155      -4.690  26.659  10.747  1.00 25.00           C
ATOM    156  CA  GLU   156      -2.337  24.259   8.910  1.00 25.00           C
ATOM    157  CA  GLY   157       0.391  24.895  11.522  1.00 25.00           C
ATOM    158  CA  VAL   158      -2.112  24.209  14.339  1.00 25.00           C
ATOM    159  CA  ASP   159      -3.172  20.948  12.635  1.00 25.00           C
ATOM    160  CA  TRP   160       0.497  19.903  12.297  1.00 25.00           C
ATOM    161  CA  LEU   161       1.080  20.663  16.004  1.00 25.00           C
ATOM    162  CA  GLN   162      -1.994  18.581  16.942  1.00 25.00           C
ATOM    163  CA  ASP   163      -0.713  15.679  14.795  1.00 25.00           C
ATOM    164  CA  GLN   164       2.714  15.906  16.490  1.00 25.00           C
ATOM    165  CA  ILE   165       1.664  16.286  20.113  1.00 25.00           C
TER
END
