
#######################################################
#                                                     #
#                        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  147 (  147),  selected  147 , name T0373TS168_2
# Molecule2: number of CA atoms  140 ( 1047),  selected  140 , name T0373.pdb
# PARAMETERS: T0373TS168_2.T0373.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    P       2      -       -           -
LGA    T       3      P       2          0.811
LGA    N       4      T       3          3.867
LGA    -       -      N       4           -
LGA    Q       5      Q       5          4.820
LGA    D       6      D       6          4.734
LGA    L       7      L       7          4.059
LGA    Q       8      Q       8          3.448
LGA    -       -      L       9           -
LGA    L       9      A      10          2.206
LGA    A      10      A      11           #
LGA    A      11      H      12          4.877
LGA    H      12      L      13          2.311
LGA    L      13      R      14          2.003
LGA    R      14      S      15          3.962
LGA    S      15      Q      16          4.613
LGA    Q      16      V      17          3.168
LGA    V      17      T      18          0.774
LGA    T      18      T      19          3.854
LGA    T      19      L      20          5.042
LGA    L      20      T      21          3.405
LGA    T      21      R      22          1.889
LGA    R      22      R      23           #
LGA    R      23      L      24           #
LGA    L      24      R      25          3.707
LGA    R      25      R      26          4.263
LGA    R      26      -       -           -
LGA    E      27      E      27          4.566
LGA    A      28      A      28           -
LGA    Q      29      -       -           -
LGA    A      30      -       -           -
LGA    D      31      Q      29           #
LGA    P      32      A      30          4.227
LGA    V      33      D      31           #
LGA    -       -      P      32           -
LGA    -       -      V      33           -
LGA    Q      34      Q      34          2.347
LGA    F      35      F      35          0.739
LGA    -       -      S      36           -
LGA    S      36      Q      37           #
LGA    Q      37      L      38           #
LGA    L      38      -       -           -
LGA    V      39      V      39          3.454
LGA    V      40      V      40           #
LGA    L      41      L      41           -
LGA    G      42      G      42           -
LGA    A      43      A      43           #
LGA    I      44      I      44           -
LGA    D      45      D      45           -
LGA    R      46      -       -           -
LGA    L      47      -       -           -
LGA    G      48      -       -           -
LGA    G      49      -       -           -
LGA    D      50      -       -           -
LGA    V      51      -       -           -
LGA    T      52      -       -           -
LGA    P      53      R      46           #
LGA    S      54      L      47           #
LGA    E      55      G      48           -
LGA    L      56      -       -           -
LGA    A      57      G      49           #
LGA    -       -      D      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      P      53           -
LGA    -       -      S      54           -
LGA    -       -      E      55           -
LGA    A      58      L      56          3.861
LGA    A      59      A      57          4.943
LGA    -       -      A      58           -
LGA    -       -      A      59           -
LGA    E      60      E      60          3.221
LGA    -       -      R      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    -       -      S      64           -
LGA    -       -      S      65           -
LGA    -       -      N      66           -
LGA    R      61      L      67          3.953
LGA    -       -      A      68           -
LGA    -       -      A      69           -
LGA    M      62      L      70          4.756
LGA    R      63      L      71          4.056
LGA    -       -      R      72           -
LGA    -       -      E      73           -
LGA    -       -      L      74           -
LGA    -       -      E      75           -
LGA    -       -      R      76           -
LGA    -       -      G      77           -
LGA    -       -      G      78           -
LGA    -       -      L      79           -
LGA    -       -      I      80           -
LGA    -       -      V      81           -
LGA    -       -      R      82           -
LGA    -       -      H      83           -
LGA    -       -      A      84           -
LGA    -       -      D      85           -
LGA    -       -      P      86           -
LGA    -       -      R      91           -
LGA    -       -      T      92           -
LGA    -       -      R      93           -
LGA    S      64      V      94           #
LGA    S      65      -       -           -
LGA    N      66      S      95           #
LGA    L      67      -       -           -
LGA    A      68      -       -           -
LGA    A      69      -       -           -
LGA    L      70      L      96           #
LGA    L      71      S      97           -
LGA    R      72      -       -           -
LGA    E      73      -       -           -
LGA    L      74      S      98           #
LGA    E      75      -       -           -
LGA    R      76      -       -           -
LGA    G      77      -       -           -
LGA    G      78      -       -           -
LGA    L      79      -       -           -
LGA    I      80      -       -           -
LGA    V      81      -       -           -
LGA    R      82      -       -           -
LGA    H      83      -       -           -
LGA    A      84      -       -           -
LGA    D      85      -       -           -
LGA    P      86      -       -           -
LGA    Q      87      -       -           -
LGA    D      88      -       -           -
LGA    G      89      -       -           -
LGA    R      90      -       -           -
LGA    R      91      -       -           -
LGA    T      92      -       -           -
LGA    R      93      -       -           -
LGA    V      94      -       -           -
LGA    S      95      -       -           -
LGA    L      96      -       -           -
LGA    S      97      E      99           #
LGA    -       -      G     100           -
LGA    -       -      R     101           -
LGA    S      98      R     102          3.171
LGA    E      99      N     103          0.801
LGA    G     100      L     104          1.820
LGA    R     101      Y     105          1.738
LGA    R     102      G     106          1.436
LGA    N     103      N     107          1.147
LGA    L     104      R     108          0.856
LGA    Y     105      A     109          1.875
LGA    G     106      K     110          2.098
LGA    N     107      R     111          1.248
LGA    R     108      E     112          1.552
LGA    A     109      E     113          2.556
LGA    K     110      W     114          2.179
LGA    R     111      L     115          1.631
LGA    E     112      V     116          1.976
LGA    E     113      R     117          2.533
LGA    W     114      A     118          2.415
LGA    L     115      M     119          2.222
LGA    V     116      H     120          2.654
LGA    R     117      A     121          3.074
LGA    A     118      C     122          3.887
LGA    M     119      L     123           #
LGA    H     120      D     124           #
LGA    A     121      -       -           -
LGA    C     122      -       -           -
LGA    L     123      E     125           #
LGA    D     124      S     126          4.844
LGA    E     125      E     127          1.195
LGA    -       -      R     128           -
LGA    -       -      A     129           -
LGA    S     126      L     130          2.680
LGA    E     127      L     131          2.241
LGA    R     128      A     132          3.375
LGA    A     129      A     133          2.842
LGA    L     130      A     134          3.474
LGA    L     131      G     135          4.977
LGA    A     132      P     136           #
LGA    A     133      L     137           #
LGA    -       -      L     138           -
LGA    A     134      T     139           #
LGA    G     135      R     140           -
LGA    P     136      L     141           -
LGA    L     137      A     142           -
LGA    L     138      Q     143           -
LGA    T     139      F     144           -
LGA    R     140      E     145           -
LGA    L     141      -       -           -
LGA    A     142      -       -           -
LGA    Q     143      -       -           -
LGA    F     144      -       -           -
LGA    E     145      -       -           -
LGA    E     146      -       -           -
LGA    P     147      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  147  140    5.0     60    3.21    25.00     27.713     1.815

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.808029 * X  +  -0.491083 * Y  +   0.325463 * Z  +  51.738415
  Y_new =  -0.463554 * X  +   0.870906 * Y  +   0.163219 * Z  +   2.869870
  Z_new =  -0.363602 * X  +  -0.018984 * Y  +  -0.931361 * Z  +  54.913261 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.121212    0.020380  [ DEG:  -178.8323      1.1677 ]
  Theta =   0.372132    2.769461  [ DEG:    21.3216    158.6784 ]
  Phi   =  -2.620747    0.520846  [ DEG:  -150.1577     29.8423 ]
 
# 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: T0373TS168_2                                  
REMARK     2: T0373.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0373TS168_2.T0373.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  147  140   5.0   60   3.21   25.00  27.713
REMARK  ---------------------------------------------------------- 
MOLECULE T0373TS168_2
PFRMAT TS
TARGET T0373
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      80.017  -4.075  63.225  1.00 25.00           C
ATOM      2  CA  PRO     2      77.170  -6.572  63.506  1.00 25.00           C
ATOM      3  CA  THR     3      75.512  -4.872  66.480  1.00 25.00           C
ATOM      4  CA  ASN     4      73.228  -2.065  65.303  1.00 25.00           C
ATOM      5  CA  GLN     5      72.557  -0.171  62.043  1.00 25.00           C
ATOM      6  CA  ASP     6      69.295  -2.117  61.555  1.00 25.00           C
ATOM      7  CA  LEU     7      68.237  -1.291  65.143  1.00 25.00           C
ATOM      8  CA  GLN     8      69.004   2.412  64.542  1.00 25.00           C
ATOM      9  CA  LEU     9      66.933   2.344  61.322  1.00 25.00           C
ATOM     10  CA  ALA    10      64.023   0.708  63.197  1.00 25.00           C
ATOM     11  CA  ALA    11      64.241   3.389  65.924  1.00 25.00           C
ATOM     12  CA  HIS    12      64.213   6.138  63.258  1.00 25.00           C
ATOM     13  CA  LEU    13      61.142   4.546  61.614  1.00 25.00           C
ATOM     14  CA  ARG    14      59.374   4.394  65.009  1.00 25.00           C
ATOM     15  CA  SER    15      60.197   8.082  65.631  1.00 25.00           C
ATOM     16  CA  GLN    16      58.816   8.998  62.178  1.00 25.00           C
ATOM     17  CA  VAL    17      55.610   7.036  62.912  1.00 25.00           C
ATOM     18  CA  THR    18      55.242   8.845  66.267  1.00 25.00           C
ATOM     19  CA  THR    19      55.713  12.223  64.525  1.00 25.00           C
ATOM     20  CA  LEU    20      53.055  11.284  61.933  1.00 25.00           C
ATOM     21  CA  THR    21      50.645  10.276  64.733  1.00 25.00           C
ATOM     22  CA  ARG    22      51.277  13.610  66.510  1.00 25.00           C
ATOM     23  CA  ARG    23      50.605  15.504  63.250  1.00 25.00           C
ATOM     24  CA  LEU    24      47.343  13.557  62.763  1.00 25.00           C
ATOM     25  CA  ARG    25      46.285  14.383  66.350  1.00 25.00           C
ATOM     26  CA  ARG    26      47.052  18.087  65.748  1.00 25.00           C
ATOM     27  CA  GLU    27      44.981  18.019  62.527  1.00 25.00           C
ATOM     28  CA  ALA    28      42.193  20.020  64.053  1.00 25.00           C
ATOM     29  CA  GLN    29      39.173  20.454  66.394  1.00 25.00           C
ATOM     30  CA  ALA    30      37.249  18.196  63.971  1.00 25.00           C
ATOM     31  CA  ASP    31      35.696  14.677  63.873  1.00 25.00           C
ATOM     32  CA  PRO    32      37.130  12.284  61.328  1.00 25.00           C
ATOM     33  CA  VAL    33      40.217  10.032  60.790  1.00 25.00           C
ATOM     34  CA  GLN    34      38.880   7.221  63.033  1.00 25.00           C
ATOM     35  CA  PHE    35      42.272   6.143  64.210  1.00 25.00           C
ATOM     36  CA  SER    36      42.350   4.260  60.875  1.00 25.00           C
ATOM     37  CA  GLN    37      46.059   5.115  60.453  1.00 25.00           C
ATOM     38  CA  LEU    38      46.778   3.865  64.001  1.00 25.00           C
ATOM     39  CA  VAL    39      44.904   0.608  63.258  1.00 25.00           C
ATOM     40  CA  VAL    40      46.922   0.152  60.036  1.00 25.00           C
ATOM     41  CA  LEU    41      50.180   0.731  61.964  1.00 25.00           C
ATOM     42  CA  GLY    42      49.116  -1.851  64.585  1.00 25.00           C
ATOM     43  CA  ALA    43      48.312  -4.369  61.813  1.00 25.00           C
ATOM     44  CA  ILE    44      51.740  -3.749  60.223  1.00 25.00           C
ATOM     45  CA  ASP    45      53.438  -4.282  63.614  1.00 25.00           C
ATOM     46  CA  ARG    46      51.505  -7.554  64.094  1.00 25.00           C
ATOM     47  CA  LEU    47      49.867  -7.024  67.535  1.00 25.00           C
ATOM     48  CA  GLY    48      49.700 -10.802  67.933  1.00 25.00           C
ATOM     49  CA  GLY    49      52.580 -12.349  65.987  1.00 25.00           C
ATOM     50  CA  ASP    50      54.260 -13.263  62.766  1.00 25.00           C
ATOM     51  CA  VAL    51      52.582 -10.938  60.294  1.00 25.00           C
ATOM     52  CA  THR    52      52.387 -10.209  56.538  1.00 25.00           C
ATOM     53  CA  PRO    53      48.664 -10.500  55.724  1.00 25.00           C
ATOM     54  CA  SER    54      45.871 -12.735  57.093  1.00 25.00           C
ATOM     55  CA  GLU    55      47.572 -12.800  60.525  1.00 25.00           C
ATOM     56  CA  LEU    56      47.866  -8.982  60.479  1.00 25.00           C
ATOM     57  CA  ALA    57      44.157  -8.681  59.577  1.00 25.00           C
ATOM     58  CA  ALA    58      43.243 -11.043  62.451  1.00 25.00           C
ATOM     59  CA  ALA    59      45.363  -8.963  64.868  1.00 25.00           C
ATOM     60  CA  GLU    60      43.633  -5.763  63.670  1.00 25.00           C
ATOM     61  CA  ARG    61      41.212  -5.993  66.669  1.00 25.00           C
ATOM     62  CA  MET    62      39.448  -3.022  65.058  1.00 25.00           C
ATOM     63  CA  ARG    63      36.461  -4.707  63.405  1.00 25.00           C
ATOM     64  CA  SER    64      38.742  -7.409  62.060  1.00 25.00           C
ATOM     65  CA  SER    65      37.644  -9.015  58.760  1.00 25.00           C
ATOM     66  CA  ASN    66      36.242  -5.657  57.565  1.00 25.00           C
ATOM     67  CA  LEU    67      39.533  -3.928  58.483  1.00 25.00           C
ATOM     68  CA  ALA    68      41.499  -6.596  56.564  1.00 25.00           C
ATOM     69  CA  ALA    69      39.233  -6.108  53.516  1.00 25.00           C
ATOM     70  CA  LEU    70      39.760  -2.319  53.698  1.00 25.00           C
ATOM     71  CA  LEU    71      43.551  -2.832  53.887  1.00 25.00           C
ATOM     72  CA  ARG    72      43.414  -5.153  50.843  1.00 25.00           C
ATOM     73  CA  GLU    73      41.379  -2.543  48.915  1.00 25.00           C
ATOM     74  CA  LEU    74      43.930   0.161  49.833  1.00 25.00           C
ATOM     75  CA  GLU    75      46.787  -2.097  48.646  1.00 25.00           C
ATOM     76  CA  ARG    76      44.951  -2.727  45.345  1.00 25.00           C
ATOM     77  CA  GLY    77      45.297   1.023  44.712  1.00 25.00           C
ATOM     78  CA  GLY    78      46.888   3.214  47.364  1.00 25.00           C
ATOM     79  CA  LEU    79      48.256   2.611  50.880  1.00 25.00           C
ATOM     80  CA  ILE    80      48.139  -0.110  53.604  1.00 25.00           C
ATOM     81  CA  VAL    81      50.007  -3.294  52.548  1.00 25.00           C
ATOM     82  CA  ARG    82      51.965  -5.461  55.001  1.00 25.00           C
ATOM     83  CA  HIS    83      53.032  -7.549  51.957  1.00 25.00           C
ATOM     84  CA  ALA    84      56.095  -9.801  51.807  1.00 25.00           C
ATOM     85  CA  ASP    85      58.609 -12.479  50.794  1.00 25.00           C
ATOM     86  CA  PRO    86      61.593 -14.671  50.052  1.00 25.00           C
ATOM     87  CA  GLN    87      64.551 -12.345  50.079  1.00 25.00           C
ATOM     88  CA  ASP    88      62.684  -9.327  51.410  1.00 25.00           C
ATOM     89  CA  GLY    89      60.230  -7.173  53.294  1.00 25.00           C
ATOM     90  CA  ARG    90      58.124  -4.133  54.342  1.00 25.00           C
ATOM     91  CA  ARG    91      55.424  -1.537  55.180  1.00 25.00           C
ATOM     92  CA  THR    92      52.846   0.692  56.871  1.00 25.00           C
ATOM     93  CA  ARG    93      50.369   3.584  57.296  1.00 25.00           C
ATOM     94  CA  VAL    94      47.012   3.891  55.519  1.00 25.00           C
ATOM     95  CA  SER    95      43.708   2.174  54.894  1.00 25.00           C
ATOM     96  CA  LEU    96      40.476   1.257  56.781  1.00 25.00           C
ATOM     97  CA  SER    97      37.474   1.647  54.488  1.00 25.00           C
ATOM     98  CA  SER    98      35.757   3.841  51.891  1.00 25.00           C
ATOM     99  CA  GLU    99      36.263   6.796  54.275  1.00 25.00           C
ATOM    100  CA  GLY   100      39.738   5.482  55.204  1.00 25.00           C
ATOM    101  CA  ARG   101      40.627   5.136  51.495  1.00 25.00           C
ATOM    102  CA  ARG   102      39.443   8.720  50.851  1.00 25.00           C
ATOM    103  CA  ASN   103      41.567   9.974  53.782  1.00 25.00           C
ATOM    104  CA  LEU   104      44.613   8.105  52.405  1.00 25.00           C
ATOM    105  CA  TYR   105      44.032   9.652  48.951  1.00 25.00           C
ATOM    106  CA  GLY   106      43.789  13.135  50.524  1.00 25.00           C
ATOM    107  CA  ASN   107      47.054  12.529  52.430  1.00 25.00           C
ATOM    108  CA  ARG   108      48.765  11.408  49.192  1.00 25.00           C
ATOM    109  CA  ALA   109      47.505  14.554  47.408  1.00 25.00           C
ATOM    110  CA  LYS   110      48.833  16.735  50.264  1.00 25.00           C
ATOM    111  CA  ARG   111      52.232  14.983  50.053  1.00 25.00           C
ATOM    112  CA  GLU   112      52.325  15.562  46.268  1.00 25.00           C
ATOM    113  CA  GLU   113      51.494  19.264  46.791  1.00 25.00           C
ATOM    114  CA  TRP   114      54.291  19.550  49.392  1.00 25.00           C
ATOM    115  CA  LEU   115      56.751  17.900  46.964  1.00 25.00           C
ATOM    116  CA  VAL   116      55.700  20.338  44.204  1.00 25.00           C
ATOM    117  CA  ARG   117      56.206  23.293  46.587  1.00 25.00           C
ATOM    118  CA  ALA   118      59.682  21.980  47.517  1.00 25.00           C
ATOM    119  CA  MET   119      60.570  21.633  43.808  1.00 25.00           C
ATOM    120  CA  HIS   120      59.387  25.218  43.165  1.00 25.00           C
ATOM    121  CA  ALA   121      61.510  26.471  46.095  1.00 25.00           C
ATOM    122  CA  CYS   122      64.420  24.172  47.147  1.00 25.00           C
ATOM    123  CA  LEU   123      64.531  20.368  46.947  1.00 25.00           C
ATOM    124  CA  ASP   124      65.853  17.210  48.565  1.00 25.00           C
ATOM    125  CA  GLU   125      64.793  13.935  46.980  1.00 25.00           C
ATOM    126  CA  SER   126      64.927  10.901  49.313  1.00 25.00           C
ATOM    127  CA  GLU   127      61.126  11.049  49.764  1.00 25.00           C
ATOM    128  CA  ARG   128      60.657  11.213  45.968  1.00 25.00           C
ATOM    129  CA  ALA   129      62.964   8.188  45.527  1.00 25.00           C
ATOM    130  CA  LEU   130      60.977   6.257  48.170  1.00 25.00           C
ATOM    131  CA  LEU   131      57.705   7.133  46.384  1.00 25.00           C
ATOM    132  CA  ALA   132      59.172   5.942  43.054  1.00 25.00           C
ATOM    133  CA  ALA   133      60.279   2.660  44.689  1.00 25.00           C
ATOM    134  CA  ALA   134      56.771   2.171  46.144  1.00 25.00           C
ATOM    135  CA  GLY   135      55.226   2.804  42.696  1.00 25.00           C
ATOM    136  CA  PRO   136      57.616   0.254  41.131  1.00 25.00           C
ATOM    137  CA  LEU   137      56.675  -2.312  43.814  1.00 25.00           C
ATOM    138  CA  LEU   138      52.957  -1.689  43.141  1.00 25.00           C
ATOM    139  CA  THR   139      53.533  -2.159  39.384  1.00 25.00           C
ATOM    140  CA  ARG   140      55.396  -5.438  40.056  1.00 25.00           C
ATOM    141  CA  LEU   141      52.516  -6.648  42.271  1.00 25.00           C
ATOM    142  CA  ALA   142      49.998  -5.768  39.523  1.00 25.00           C
ATOM    143  CA  GLN   143      52.097  -7.682  36.954  1.00 25.00           C
ATOM    144  CA  PHE   144      52.765  -6.791  33.330  1.00 25.00           C
ATOM    145  CA  GLU   145      54.812  -7.329  30.195  1.00 25.00           C
ATOM    146  CA  GLU   146      57.871  -5.485  28.862  1.00 25.00           C
ATOM    147  CA  PRO   147      59.863  -4.834  31.999  1.00 25.00           C
TER
END
