
#######################################################
#                                                     #
#                        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  151 (  151),  selected  151 , name T0362TS168_3
# Molecule2: number of CA atoms  144 ( 1169),  selected  144 , name T0362.pdb
# PARAMETERS: T0362TS168_3.T0362.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    P       3      -       -           -
LGA    E       4      M       1           #
LGA    N       5      N       2          3.580
LGA    W       6      P       3          3.032
LGA    L       7      E       4          2.958
LGA    -       -      N       5           -
LGA    -       -      W       6           -
LGA    -       -      L       7           -
LGA    L       8      L       8          2.825
LGA    L       9      L       9          2.481
LGA    R      10      R      10          1.562
LGA    R      11      R      11          2.073
LGA    V      12      V      12          2.985
LGA    V      13      V      13          3.828
LGA    R      14      R      14           #
LGA    F      15      F      15           #
LGA    G      16      G      16          1.777
LGA    D      17      D      17          3.302
LGA    T      18      T      18          2.255
LGA    D      19      D      19          2.369
LGA    A      20      A      20           #
LGA    A      21      A      21           #
LGA    G      22      G      22           #
LGA    V      23      V      23          2.472
LGA    M      24      M      24          1.924
LGA    H      25      H      25          2.103
LGA    F      26      F      26          2.148
LGA    H      27      H      27          1.006
LGA    Q      28      Q      28          0.694
LGA    L      29      L      29          0.703
LGA    F      30      F      30          0.867
LGA    R      31      R      31          0.875
LGA    W      32      W      32          0.815
LGA    C      33      C      33          0.766
LGA    H      34      H      34          0.930
LGA    E      35      E      35          0.806
LGA    S      36      S      36          0.713
LGA    W      37      W      37          0.977
LGA    E      38      E      38          1.218
LGA    E      39      E      39          0.968
LGA    S      40      S      40          1.132
LGA    L      41      L      41          1.871
LGA    E      42      E      42          1.896
LGA    S      43      S      43          2.110
LGA    Y      44      Y      44          2.867
LGA    G      45      G      45          4.230
LGA    L      46      L      46           #
LGA    N      47      N      47          4.217
LGA    P      48      P      48          1.927
LGA    A      49      A      49          3.597
LGA    D      50      D      50           #
LGA    I      51      I      51           -
LGA    F      52      F      52           -
LGA    P      53      P      53           -
LGA    G      54      G      54           -
LGA    S      55      S      55           -
LGA    R      56      R      56           -
LGA    -       -      K      57           -
LGA    K      57      S      58           #
LGA    S      58      E      59          4.522
LGA    E      59      V      60          4.376
LGA    V      60      T      61           #
LGA    T      61      P      62           #
LGA    P      62      E      63          3.966
LGA    E      63      V      64          3.761
LGA    V      64      A      65          5.109
LGA    A      65      L      66          5.745
LGA    L      66      P      67          5.930
LGA    P      67      I      68          2.905
LGA    I      68      I      69          3.704
LGA    I      69      H      70          2.271
LGA    H      70      C      71          2.418
LGA    C      71      Q      72          2.626
LGA    Q      72      -       -           -
LGA    A      73      A      73          1.067
LGA    D      74      D      74          0.833
LGA    F      75      F      75          0.995
LGA    R      76      R      76          2.110
LGA    R      77      R      77          2.025
LGA    P      78      P      78          2.622
LGA    I      79      I      79          1.732
LGA    H      80      H      80          2.765
LGA    T      81      T      81          5.469
LGA    G      82      G      82          2.676
LGA    D      83      D      83          0.717
LGA    A      84      A      84          1.534
LGA    L      85      L      85          2.598
LGA    A      86      A      86          2.526
LGA    M      87      M      87          2.433
LGA    E      88      E      88          2.422
LGA    L      89      L      89          3.443
LGA    R      90      -       -           -
LGA    P      91      R      90          2.435
LGA    E      92      P      91          4.491
LGA    R      93      E      92          2.672
LGA    L      94      R      93          2.831
LGA    N      95      L      94          1.524
LGA    P      96      N      95          4.392
LGA    -       -      P      96           -
LGA    N      97      N      97          3.642
LGA    S      98      S      98          2.355
LGA    F      99      F      99          2.377
LGA    -       -      Q     100           -
LGA    Q     100      V     101          2.091
LGA    V     101      H     102          2.277
LGA    H     102      F     103          2.298
LGA    F     103      E     104          2.481
LGA    E     104      F     105          2.578
LGA    F     105      R     106          2.527
LGA    R     106      C     107          2.329
LGA    C     107      E     108          1.756
LGA    E     108      -       -           -
LGA    E     109      E     109          3.683
LGA    Q     110      Q     110          2.384
LGA    I     111      -       -           -
LGA    A     112      I     111          2.455
LGA    A     113      A     112          2.901
LGA    H     114      A     113          2.633
LGA    A     115      H     114          3.990
LGA    L     116      A     115          2.340
LGA    I     117      L     116          4.531
LGA    R     118      I     117          1.558
LGA    H     119      R     118          5.564
LGA    L     120      H     119          1.983
LGA    A     121      L     120           #
LGA    I     122      A     121          4.089
LGA    N     123      I     122          5.828
LGA    A     124      N     123          5.026
LGA    Q     125      A     124          5.053
LGA    T     126      Q     125           #
LGA    R     127      T     126          4.118
LGA    H     128      R     127          1.388
LGA    R     129      H     128          2.229
LGA    C     130      R     129          2.255
LGA    A     131      C     130          3.273
LGA    -       -      A     131           -
LGA    L     132      L     132          0.186
LGA    P     133      P     133          4.499
LGA    E     134      E     134          1.215
LGA    G     135      G     135          2.354
LGA    I     136      I     136          2.294
LGA    D     137      D     137          3.569
LGA    R     138      R     138          4.639
LGA    W     139      W     139          3.917
LGA    L     140      L     140          2.636
LGA    E     141      E     141          3.737
LGA    A     142      -       -           -
LGA    S     143      A     142          4.186
LGA    G     144      S     143           -
LGA    V     145      G     144           -
LGA    G     146      -       -           -
LGA    K     147      -       -           -
LGA    I     148      -       -           -
LGA    G     149      -       -           -
LGA    S     150      -       -           -
LGA    I     151      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  151  144    5.0    116    2.97    61.21     47.664     3.779

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.932194 * X  +  -0.359412 * Y  +   0.042853 * Z  +  39.306999
  Y_new =   0.123345 * X  +   0.204124 * Y  +  -0.971143 * Z  +  46.177940
  Z_new =   0.340293 * X  +   0.910580 * Y  +   0.234615 * Z  +  12.624116 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.318627   -1.822966  [ DEG:    75.5517   -104.4483 ]
  Theta =  -0.347229   -2.794364  [ DEG:   -19.8947   -160.1053 ]
  Phi   =   0.131552   -3.010041  [ DEG:     7.5374   -172.4626 ]
 
# 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: T0362TS168_3                                  
REMARK     2: T0362.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0362TS168_3.T0362.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  151  144   5.0  116   2.97   61.21  47.664
REMARK  ---------------------------------------------------------- 
MOLECULE T0362TS168_3
PFRMAT TS
TARGET T0362
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      39.006  49.279  37.079  1.00 25.00           C
ATOM      2  CA  ASN     2      39.243  51.491  34.023  1.00 25.00           C
ATOM      3  CA  PRO     3      42.422  49.912  32.757  1.00 25.00           C
ATOM      4  CA  GLU     4      42.825  47.507  29.859  1.00 25.00           C
ATOM      5  CA  ASN     5      39.510  47.893  28.093  1.00 25.00           C
ATOM      6  CA  TRP     6      38.681  47.390  24.379  1.00 25.00           C
ATOM      7  CA  LEU     7      39.311  51.144  23.742  1.00 25.00           C
ATOM      8  CA  LEU     8      42.111  50.418  21.211  1.00 25.00           C
ATOM      9  CA  LEU     9      44.167  50.857  18.006  1.00 25.00           C
ATOM     10  CA  ARG    10      46.073  54.125  17.993  1.00 25.00           C
ATOM     11  CA  ARG    11      47.824  54.701  14.658  1.00 25.00           C
ATOM     12  CA  VAL    12      49.965  57.211  12.716  1.00 25.00           C
ATOM     13  CA  VAL    13      48.014  57.290   9.457  1.00 25.00           C
ATOM     14  CA  ARG    14      51.374  57.117   7.605  1.00 25.00           C
ATOM     15  CA  PHE    15      51.416  56.089   3.929  1.00 25.00           C
ATOM     16  CA  GLY    16      53.096  59.430   3.250  1.00 25.00           C
ATOM     17  CA  ASP    17      51.496  62.525   4.655  1.00 25.00           C
ATOM     18  CA  THR    18      50.347  63.826   1.312  1.00 25.00           C
ATOM     19  CA  ASP    19      49.331  63.303  -2.318  1.00 25.00           C
ATOM     20  CA  ALA    20      46.691  62.871  -5.025  1.00 25.00           C
ATOM     21  CA  ALA    21      44.476  64.854  -2.730  1.00 25.00           C
ATOM     22  CA  GLY    22      42.993  65.536   0.753  1.00 25.00           C
ATOM     23  CA  VAL    23      45.063  64.316   3.735  1.00 25.00           C
ATOM     24  CA  MET    24      46.444  60.731   3.531  1.00 25.00           C
ATOM     25  CA  HIS    25      44.086  60.045   0.664  1.00 25.00           C
ATOM     26  CA  PHE    26      41.262  57.414   0.656  1.00 25.00           C
ATOM     27  CA  HIS    27      43.815  54.631   0.019  1.00 25.00           C
ATOM     28  CA  GLN    28      45.839  55.756   3.068  1.00 25.00           C
ATOM     29  CA  LEU    29      42.667  55.739   5.212  1.00 25.00           C
ATOM     30  CA  PHE    30      41.826  52.210   3.984  1.00 25.00           C
ATOM     31  CA  ARG    31      45.374  51.043   4.832  1.00 25.00           C
ATOM     32  CA  TRP    32      45.065  52.567   8.332  1.00 25.00           C
ATOM     33  CA  CYS    33      41.707  50.795   8.834  1.00 25.00           C
ATOM     34  CA  HIS    34      43.265  47.477   7.726  1.00 25.00           C
ATOM     35  CA  GLU    35      46.165  47.991  10.175  1.00 25.00           C
ATOM     36  CA  SER    36      43.683  48.722  12.998  1.00 25.00           C
ATOM     37  CA  TRP    37      41.728  45.544  12.135  1.00 25.00           C
ATOM     38  CA  GLU    38      44.972  43.508  12.177  1.00 25.00           C
ATOM     39  CA  GLU    39      45.882  44.983  15.592  1.00 25.00           C
ATOM     40  CA  SER    40      42.406  44.097  16.930  1.00 25.00           C
ATOM     41  CA  LEU    41      42.785  40.520  15.616  1.00 25.00           C
ATOM     42  CA  GLU    42      46.214  40.239  17.300  1.00 25.00           C
ATOM     43  CA  SER    43      44.726  41.504  20.594  1.00 25.00           C
ATOM     44  CA  TYR    44      41.897  38.935  20.332  1.00 25.00           C
ATOM     45  CA  GLY    45      43.366  35.478  19.556  1.00 25.00           C
ATOM     46  CA  LEU    46      42.250  34.117  16.248  1.00 25.00           C
ATOM     47  CA  ASN    47      45.455  32.065  15.685  1.00 25.00           C
ATOM     48  CA  PRO    48      47.138  35.438  15.184  1.00 25.00           C
ATOM     49  CA  ALA    49      50.800  34.888  16.163  1.00 25.00           C
ATOM     50  CA  ASP    50      49.709  32.699  19.109  1.00 25.00           C
ATOM     51  CA  ILE    51      47.271  31.874  21.912  1.00 25.00           C
ATOM     52  CA  PHE    52      43.815  30.581  21.266  1.00 25.00           C
ATOM     53  CA  PRO    53      45.153  27.829  19.038  1.00 25.00           C
ATOM     54  CA  GLY    54      42.399  25.650  20.571  1.00 25.00           C
ATOM     55  CA  SER    55      40.576  26.278  17.273  1.00 25.00           C
ATOM     56  CA  ARG    56      43.182  25.096  14.681  1.00 25.00           C
ATOM     57  CA  LYS    57      46.425  23.203  15.341  1.00 25.00           C
ATOM     58  CA  SER    58      48.252  25.480  12.898  1.00 25.00           C
ATOM     59  CA  GLU    59      46.287  25.063   9.693  1.00 25.00           C
ATOM     60  CA  VAL    60      42.847  23.410   9.586  1.00 25.00           C
ATOM     61  CA  THR    61      39.911  25.618   8.654  1.00 25.00           C
ATOM     62  CA  PRO    62      40.663  29.364   8.707  1.00 25.00           C
ATOM     63  CA  GLU    63      43.933  31.027   7.536  1.00 25.00           C
ATOM     64  CA  VAL    64      42.861  34.420   8.976  1.00 25.00           C
ATOM     65  CA  ALA    65      44.540  37.150   6.909  1.00 25.00           C
ATOM     66  CA  LEU    66      42.871  40.453   5.876  1.00 25.00           C
ATOM     67  CA  PRO    67      40.062  41.103   3.394  1.00 25.00           C
ATOM     68  CA  ILE    68      36.704  42.670   2.500  1.00 25.00           C
ATOM     69  CA  ILE    69      35.650  45.087  -0.201  1.00 25.00           C
ATOM     70  CA  HIS    70      32.926  46.763   1.781  1.00 25.00           C
ATOM     71  CA  CYS    71      33.871  49.941   3.618  1.00 25.00           C
ATOM     72  CA  GLN    72      31.807  52.890   4.738  1.00 25.00           C
ATOM     73  CA  ALA    73      34.997  55.034   4.697  1.00 25.00           C
ATOM     74  CA  ASP    74      32.977  58.295   4.781  1.00 25.00           C
ATOM     75  CA  PHE    75      35.961  60.639   5.056  1.00 25.00           C
ATOM     76  CA  ARG    76      34.195  62.594   7.839  1.00 25.00           C
ATOM     77  CA  ARG    77      35.375  66.204   7.530  1.00 25.00           C
ATOM     78  CA  PRO    78      38.912  67.073   8.524  1.00 25.00           C
ATOM     79  CA  ILE    79      41.983  64.902   9.359  1.00 25.00           C
ATOM     80  CA  HIS    80      44.685  67.571   9.351  1.00 25.00           C
ATOM     81  CA  THR    81      47.463  69.081  11.471  1.00 25.00           C
ATOM     82  CA  GLY    82      49.664  65.917  11.572  1.00 25.00           C
ATOM     83  CA  ASP    83      46.859  64.380  13.644  1.00 25.00           C
ATOM     84  CA  ALA    84      47.384  61.359  15.865  1.00 25.00           C
ATOM     85  CA  LEU    85      45.022  59.159  13.880  1.00 25.00           C
ATOM     86  CA  ALA    86      42.556  57.452  16.200  1.00 25.00           C
ATOM     87  CA  MET    87      41.631  54.009  14.941  1.00 25.00           C
ATOM     88  CA  GLU    88      39.105  52.238  17.183  1.00 25.00           C
ATOM     89  CA  LEU    89      39.096  48.463  17.294  1.00 25.00           C
ATOM     90  CA  ARG    90      35.997  46.179  17.153  1.00 25.00           C
ATOM     91  CA  PRO    91      32.217  45.956  16.991  1.00 25.00           C
ATOM     92  CA  GLU    92      28.926  47.179  15.429  1.00 25.00           C
ATOM     93  CA  ARG    93      27.079  44.269  13.727  1.00 25.00           C
ATOM     94  CA  LEU    94      27.097  41.080  11.713  1.00 25.00           C
ATOM     95  CA  ASN    95      25.698  37.970   9.962  1.00 25.00           C
ATOM     96  CA  PRO    96      26.526  38.253   6.294  1.00 25.00           C
ATOM     97  CA  ASN    97      29.685  36.175   6.087  1.00 25.00           C
ATOM     98  CA  SER    98      31.040  38.778   8.535  1.00 25.00           C
ATOM     99  CA  PHE    99      32.458  40.745  11.506  1.00 25.00           C
ATOM    100  CA  GLN   100      34.354  44.073  11.472  1.00 25.00           C
ATOM    101  CA  VAL   101      33.103  47.612  12.104  1.00 25.00           C
ATOM    102  CA  HIS   102      35.530  50.286  13.350  1.00 25.00           C
ATOM    103  CA  PHE   103      34.254  53.763  14.441  1.00 25.00           C
ATOM    104  CA  GLU   104      37.087  56.314  14.690  1.00 25.00           C
ATOM    105  CA  PHE   105      37.711  59.105  17.226  1.00 25.00           C
ATOM    106  CA  ARG   106      40.080  62.081  17.291  1.00 25.00           C
ATOM    107  CA  CYS   107      41.428  65.333  18.729  1.00 25.00           C
ATOM    108  CA  GLU   108      40.432  68.576  20.381  1.00 25.00           C
ATOM    109  CA  GLU   109      36.711  68.276  20.828  1.00 25.00           C
ATOM    110  CA  GLN   110      36.151  67.427  17.112  1.00 25.00           C
ATOM    111  CA  ILE   111      34.741  64.037  16.290  1.00 25.00           C
ATOM    112  CA  ALA   112      36.905  63.639  13.192  1.00 25.00           C
ATOM    113  CA  ALA   113      37.702  60.344  11.435  1.00 25.00           C
ATOM    114  CA  HIS   114      36.455  57.367   9.554  1.00 25.00           C
ATOM    115  CA  ALA   115      37.328  53.749  10.205  1.00 25.00           C
ATOM    116  CA  LEU   116      35.215  51.248   8.314  1.00 25.00           C
ATOM    117  CA  ILE   117      37.034  47.914   8.851  1.00 25.00           C
ATOM    118  CA  ARG   118      35.469  45.286   6.611  1.00 25.00           C
ATOM    119  CA  HIS   119      37.940  42.848   8.165  1.00 25.00           C
ATOM    120  CA  LEU   120      35.748  40.060   6.951  1.00 25.00           C
ATOM    121  CA  ALA   121      38.411  37.716   8.183  1.00 25.00           C
ATOM    122  CA  ILE   122      38.328  36.026   4.779  1.00 25.00           C
ATOM    123  CA  ASN   123      41.333  33.937   3.751  1.00 25.00           C
ATOM    124  CA  ALA   124      42.219  31.002   1.480  1.00 25.00           C
ATOM    125  CA  GLN   125      44.953  32.403  -0.665  1.00 25.00           C
ATOM    126  CA  THR   126      43.772  30.681  -3.834  1.00 25.00           C
ATOM    127  CA  ARG   127      40.232  29.202  -3.617  1.00 25.00           C
ATOM    128  CA  HIS   128      37.923  28.729  -0.577  1.00 25.00           C
ATOM    129  CA  ARG   129      34.618  28.459   1.284  1.00 25.00           C
ATOM    130  CA  CYS   130      33.010  30.988   3.622  1.00 25.00           C
ATOM    131  CA  ALA   131      33.671  30.750   7.330  1.00 25.00           C
ATOM    132  CA  LEU   132      34.422  31.868  10.879  1.00 25.00           C
ATOM    133  CA  PRO   133      33.396  29.956  14.001  1.00 25.00           C
ATOM    134  CA  GLU   134      35.926  29.874  16.821  1.00 25.00           C
ATOM    135  CA  GLY   135      37.054  33.496  16.880  1.00 25.00           C
ATOM    136  CA  ILE   136      36.041  37.053  15.816  1.00 25.00           C
ATOM    137  CA  ASP   137      32.381  36.614  14.780  1.00 25.00           C
ATOM    138  CA  ARG   138      32.040  33.627  17.152  1.00 25.00           C
ATOM    139  CA  TRP   139      33.560  35.686  20.002  1.00 25.00           C
ATOM    140  CA  LEU   140      31.113  38.541  19.277  1.00 25.00           C
ATOM    141  CA  GLU   141      28.184  36.074  19.316  1.00 25.00           C
ATOM    142  CA  ALA   142      29.389  34.659  22.664  1.00 25.00           C
ATOM    143  CA  SER   143      29.640  38.201  24.099  1.00 25.00           C
ATOM    144  CA  GLY   144      27.686  36.850  27.069  1.00 25.00           C
ATOM    145  CA  VAL   145      24.602  34.791  27.962  1.00 25.00           C
ATOM    146  CA  GLY   146      24.629  33.399  31.481  1.00 25.00           C
ATOM    147  CA  LYS   147      26.293  36.581  32.815  1.00 25.00           C
ATOM    148  CA  ILE   148      23.462  39.120  32.919  1.00 25.00           C
ATOM    149  CA  GLY   149      20.119  40.526  31.806  1.00 25.00           C
ATOM    150  CA  SER   150      20.054  43.885  30.160  1.00 25.00           C
ATOM    151  CA  ILE   151      22.456  46.728  30.964  1.00 25.00           C
TER
END
