
#######################################################
#                                                     #
#                        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   24 (  118),  selected   24 , name T0342TS239_3_3
# Molecule2: number of CA atoms  169 ( 1343),  selected  169 , name T0342.pdb
# PARAMETERS: T0342TS239_3_3.T0342.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V       9      E      14           -
LGA    T      10      E      15           -
LGA    G      11      S      16           -
LGA    P      12      F      17           -
LGA    D      13      L      18           -
LGA    E      14      Y      19           -
LGA    E      15      F      20           -
LGA    -       -      A      21           -
LGA    -       -      Y      22           -
LGA    -       -      G      23           -
LGA    -       -      S      24           -
LGA    -       -      N      25           -
LGA    -       -      L      26           -
LGA    -       -      L      27           -
LGA    -       -      T      28           -
LGA    -       -      E      29           -
LGA    -       -      R      30           -
LGA    -       -      I      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      R      34           -
LGA    -       -      N      35           -
LGA    -       -      P      36           -
LGA    -       -      S      37           -
LGA    -       -      A      38           -
LGA    -       -      A      39           -
LGA    -       -      F      40           -
LGA    -       -      F      41           -
LGA    -       -      C      42           -
LGA    -       -      V      43           -
LGA    -       -      A      44           -
LGA    -       -      R      45           -
LGA    -       -      L      46           -
LGA    -       -      Q      47           -
LGA    -       -      D      48           -
LGA    -       -      F      49           -
LGA    -       -      K      50           -
LGA    -       -      L      51           -
LGA    -       -      D      52           -
LGA    -       -      F      53           -
LGA    -       -      G      54           -
LGA    -       -      N      55           -
LGA    -       -      S      56           -
LGA    -       -      Q      57           -
LGA    -       -      G      58           -
LGA    -       -      K      59           -
LGA    -       -      T      60           -
LGA    -       -      S      61           -
LGA    -       -      Q      62           -
LGA    -       -      T      63           -
LGA    -       -      W      64           -
LGA    E     155      H      65          4.571
LGA    Y     156      G      66          2.410
LGA    -       -      G      67           -
LGA    -       -      I      68           -
LGA    -       -      A      69           -
LGA    -       -      T      70           -
LGA    -       -      I      71           -
LGA    -       -      F      72           -
LGA    -       -      Q      73           -
LGA    -       -      S      74           -
LGA    -       -      P      75           -
LGA    -       -      G      76           -
LGA    -       -      D      77           -
LGA    -       -      E      78           -
LGA    -       -      V      79           -
LGA    -       -      W      80           -
LGA    -       -      G      81           -
LGA    -       -      V      82           -
LGA    -       -      V      83           -
LGA    -       -      W      84           -
LGA    -       -      K      85           -
LGA    -       -      M      86           -
LGA    -       -      N      87           -
LGA    -       -      K      88           -
LGA    -       -      S      89           -
LGA    -       -      N      90           -
LGA    -       -      L      91           -
LGA    -       -      N      92           -
LGA    -       -      S      93           -
LGA    -       -      L      94           -
LGA    -       -      D      95           -
LGA    -       -      E      96           -
LGA    -       -      Q      97           -
LGA    -       -      E      98           -
LGA    -       -      G      99           -
LGA    -       -      V     100           -
LGA    -       -      K     101           -
LGA    -       -      S     102           -
LGA    -       -      G     103           -
LGA    -       -      M     104           -
LGA    -       -      Y     105           -
LGA    -       -      V     106           -
LGA    -       -      V     107           -
LGA    -       -      I     108           -
LGA    -       -      E     109           -
LGA    -       -      V     110           -
LGA    -       -      K     111           -
LGA    -       -      V     112           -
LGA    -       -      A     113           -
LGA    -       -      T     114           -
LGA    -       -      Q     115           -
LGA    -       -      E     116           -
LGA    -       -      G     117           -
LGA    -       -      K     118           -
LGA    -       -      E     119           -
LGA    -       -      I     120           -
LGA    -       -      T     121           -
LGA    -       -      C     122           -
LGA    -       -      R     123           -
LGA    -       -      S     124           -
LGA    -       -      Y     125           -
LGA    -       -      L     126           -
LGA    -       -      M     127           -
LGA    -       -      T     128           -
LGA    -       -      N     129           -
LGA    -       -      Y     130           -
LGA    -       -      E     131           -
LGA    -       -      S     132           -
LGA    -       -      A     133           -
LGA    -       -      P     134           -
LGA    Q     157      P     135          2.508
LGA    E     158      S     136          1.297
LGA    K     159      P     137          3.159
LGA    -       -      Q     138           -
LGA    L     160      Y     139          0.390
LGA    K     161      K     140          1.090
LGA    A     162      K     141          1.698
LGA    I     163      I     142          1.300
LGA    E     164      I     143          1.559
LGA    P     165      C     144          1.699
LGA    G     170      M     145          1.227
LGA    K     171      G     146          1.207
LGA    V     172      A     147          1.144
LGA    -       -      K     148           -
LGA    -       -      E     149           -
LGA    -       -      N     150           -
LGA    -       -      G     151           -
LGA    -       -      L     152           -
LGA    -       -      P     153           -
LGA    -       -      L     154           -
LGA    -       -      E     155           -
LGA    -       -      Y     156           -
LGA    S     173      Q     157          2.718
LGA    E     174      E     158           #
LGA    -       -      K     159           -
LGA    -       -      L     160           -
LGA    E     175      K     161          2.342
LGA    -       -      A     162           -
LGA    -       -      I     163           -
LGA    -       -      E     164           -
LGA    -       -      P     165           -
LGA    -       -      N     166           -
LGA    -       -      D     167           -
LGA    -       -      Y     168           -
LGA    -       -      T     169           -
LGA    -       -      G     170           -
LGA    -       -      K     171           -
LGA    -       -      V     172           -
LGA    -       -      S     173           -
LGA    -       -      E     174           -
LGA    -       -      E     175           -
LGA    -       -      I     176           -
LGA    -       -      E     177           -
LGA    -       -      D     178           -
LGA    -       -      I     179           -
LGA    -       -      I     180           -
LGA    -       -      K     181           -
LGA    -       -      K     182           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   24  169    5.0     16    2.14    12.50      8.076     0.715

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.825406 * X  +   0.312015 * Y  +   0.470479 * Z  + -12.543235
  Y_new =  -0.549632 * X  +   0.634400 * Y  +   0.543546 * Z  + 104.398972
  Z_new =  -0.128877 * X  +  -0.707237 * Y  +   0.695131 * Z  +  23.356487 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.794030    2.347562  [ DEG:   -45.4946    134.5054 ]
  Theta =   0.129237    3.012356  [ DEG:     7.4047    172.5953 ]
  Phi   =  -0.587466    2.554126  [ DEG:   -33.6593    146.3407 ]
 
# 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: T0342TS239_3_3                                
REMARK     2: T0342.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0342TS239_3_3.T0342.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   24  169   5.0   16   2.14   12.50   8.076
REMARK  ---------------------------------------------------------- 
MOLECULE T0342TS239_3_3
REMARK PARENT number 3
PFRMAT TS
TARGET T0342
PARENT 2g0q_A
ATOM      1  N   VAL     9     -32.101  95.158  29.147  1.00  9.99
ATOM      2  CA  VAL     9     -33.189  96.111  29.209  1.00  9.99
ATOM      3  C   VAL     9     -34.285  95.634  30.156  1.00  9.99
ATOM      4  O   VAL     9     -34.795  94.516  30.034  1.00  9.99
ATOM      5  CB  VAL     9     -33.771  96.336  27.826  1.00  9.99
ATOM      6  N   THR    10     -34.595  96.452  31.120  1.00  9.99
ATOM      7  CA  THR    10     -35.673  96.205  32.055  1.00  9.99
ATOM      8  C   THR    10     -36.305  97.546  32.443  1.00  9.99
ATOM      9  O   THR    10     -37.029  97.660  33.431  1.00  9.99
ATOM     10  CB  THR    10     -35.133  95.463  33.280  1.00  9.99
ATOM     11  N   GLY    11     -36.041  98.542  31.616  1.00  9.99
ATOM     12  CA  GLY    11     -36.527  99.884  31.815  1.00  9.99
ATOM     13  C   GLY    11     -37.941 100.056  31.265  1.00  9.99
ATOM     14  O   GLY    11     -38.610 101.048  31.568  1.00  9.99
ATOM     15  N   PRO    12     -38.386  99.067  30.466  1.00  9.99
ATOM     16  CA  PRO    12     -39.722  99.059  29.842  1.00  9.99
ATOM     17  C   PRO    12     -39.843 100.209  28.844  1.00  9.99
ATOM     18  O   PRO    12     -40.214 101.330  29.195  1.00  9.99
ATOM     19  CB  PRO    12     -40.844  99.105  30.920  1.00  9.99
ATOM     20  N   ASP    13     -39.469  99.954  27.613  1.00  9.99
ATOM     21  CA  ASP    13     -39.523 100.974  26.610  1.00  9.99
ATOM     22  C   ASP    13     -40.654 100.787  25.609  1.00  9.99
ATOM     23  O   ASP    13     -40.463 100.303  24.495  1.00  9.99
ATOM     24  CB  ASP    13     -38.150 101.232  25.953  1.00  9.99
ATOM     25  N   GLU    14     -41.843 101.076  26.071  1.00  9.99
ATOM     26  CA  GLU    14     -43.009 101.070  25.281  1.00  9.99
ATOM     27  C   GLU    14     -43.491 102.467  25.093  1.00  9.99
ATOM     28  O   GLU    14     -43.504 103.002  23.989  1.00  9.99
ATOM     29  CB  GLU    14     -44.071 100.222  25.914  1.00  9.99
ATOM     30  N   GLU    15     -43.854 103.061  26.185  1.00  9.99
ATOM     31  CA  GLU    15     -44.253 104.464  26.219  1.00  9.99
ATOM     32  C   GLU    15     -43.066 105.311  26.631  1.00  9.99
ATOM     33  O   GLU    15     -43.073 106.537  26.550  1.00  9.99
ATOM     34  CB  GLU    15     -45.486 104.694  27.102  1.00  9.99
ATOM    637  N   GLU   155      -3.657  96.013  20.437  1.00  9.99
ATOM    638  CA  GLU   155      -4.137  95.087  21.450  1.00  9.99
ATOM    639  C   GLU   155      -4.401  93.710  20.832  1.00  9.99
ATOM    640  O   GLU   155      -4.139  92.678  21.458  1.00  9.99
ATOM    641  CB  GLU   155      -5.394  95.632  22.139  1.00  9.99
ATOM    642  N   TYR   156      -4.907  93.714  19.601  1.00  9.99
ATOM    643  CA  TYR   156      -5.118  92.488  18.835  1.00  9.99
ATOM    644  C   TYR   156      -3.792  92.007  18.300  1.00  9.99
ATOM    645  O   TYR   156      -3.506  90.819  18.278  1.00  9.99
ATOM    646  CB  TYR   156      -6.059  92.725  17.646  1.00  9.99
ATOM    647  N   GLN   157      -2.982  92.954  17.876  1.00  9.99
ATOM    648  CA  GLN   157      -1.681  92.671  17.300  1.00  9.99
ATOM    649  C   GLN   157      -0.789  91.936  18.301  1.00  9.99
ATOM    650  O   GLN   157      -0.020  91.109  17.914  1.00  9.99
ATOM    651  CB  GLN   157      -0.982  93.962  16.757  1.00  9.99
ATOM    652  N   GLU   158      -0.942  92.231  19.589  1.00  9.99
ATOM    653  CA  GLU   158      -0.182  91.559  20.665  1.00  9.99
ATOM    654  C   GLU   158      -0.245  90.024  20.586  1.00  9.99
ATOM    655  O   GLU   158       0.767  89.352  20.808  1.00  9.99
ATOM    656  CB  GLU   158      -0.661  92.030  22.033  1.00  9.99
ATOM    657  N   LYS   159      -1.405  89.470  20.244  1.00  9.99
ATOM    658  CA  LYS   159      -1.512  88.028  20.152  1.00  9.99
ATOM    659  C   LYS   159      -0.816  87.543  18.868  1.00  9.99
ATOM    660  O   LYS   159      -0.301  86.431  18.814  1.00  9.99
ATOM    661  CB  LYS   159      -2.989  87.514  20.218  1.00  9.99
ATOM    662  N   LEU   160      -0.801  88.399  17.850  1.00  9.99
ATOM    663  CA  LEU   160      -0.115  88.109  16.607  1.00  9.99
ATOM    664  C   LEU   160       1.351  88.266  16.727  1.00  9.99
ATOM    665  O   LEU   160       2.084  87.518  16.131  1.00  9.99
ATOM    666  CB  LEU   160      -0.633  88.922  15.432  1.00  9.99
ATOM    667  N   LYS   161       1.770  89.233  17.521  1.00  9.99
ATOM    668  CA  LYS   161       3.167  89.521  17.737  1.00  9.99
ATOM    669  C   LYS   161       3.928  88.312  18.222  1.00  9.99
ATOM    670  O   LYS   161       5.122  88.168  17.933  1.00  9.99
ATOM    671  CB  LYS   161       3.349  90.702  18.690  1.00  9.99
ATOM    672  N   ALA   162       3.263  87.429  18.965  1.00  9.99
ATOM    673  CA  ALA   162       3.954  86.241  19.389  1.00  9.99
ATOM    674  C   ALA   162       4.089  85.273  18.209  1.00  9.99
ATOM    675  O   ALA   162       5.098  84.628  18.062  1.00  9.99
ATOM    676  CB  ALA   162       3.323  85.546  20.610  1.00  9.99
ATOM    677  N   ILE   163       3.069  85.260  17.341  1.00  9.99
ATOM    678  CA  ILE   163       2.959  84.351  16.183  1.00  9.99
ATOM    679  C   ILE   163       4.183  84.430  15.237  1.00  9.99
ATOM    680  O   ILE   163       4.559  83.424  14.599  1.00  9.99
ATOM    681  CB  ILE   163       1.567  84.512  15.428  1.00  9.99
ATOM    682  N   GLU   164       4.829  85.606  15.172  1.00  9.99
ATOM    683  CA  GLU   164       6.049  85.787  14.356  1.00  9.99
ATOM    684  C   GLU   164       7.148  84.766  14.704  1.00  9.99
ATOM    685  O   GLU   164       7.991  84.457  13.857  1.00  9.99
ATOM    686  CB  GLU   164       6.646  87.216  14.435  1.00  9.99
ATOM    687  N   PRO   165       7.139  84.249  15.944  1.00  9.99
ATOM    688  CA  PRO   165       8.136  83.256  16.393  1.00  9.99
ATOM    689  C   PRO   165       8.128  82.026  15.485  1.00  9.99
ATOM    690  O   PRO   165       9.175  81.496  15.128  1.00  9.99
ATOM    691  CB  PRO   165       7.887  82.833  17.859  1.00  9.99
ATOM    692  N   GLY   170       6.935  81.600  15.105  1.00  9.99
ATOM    693  CA  GLY   170       6.746  80.447  14.256  1.00  9.99
ATOM    694  C   GLY   170       7.186  80.772  12.842  1.00  9.99
ATOM    695  O   GLY   170       7.702  79.923  12.118  1.00  9.99
ATOM    696  N   LYS   171       7.014  82.021  12.480  1.00  9.99
ATOM    697  CA  LYS   171       7.289  82.473  11.144  1.00  9.99
ATOM    698  C   LYS   171       8.782  82.606  10.904  1.00  9.99
ATOM    699  O   LYS   171       9.283  82.170   9.866  1.00  9.99
ATOM    700  CB  LYS   171       6.589  83.806  10.883  1.00  9.99
ATOM    701  N   VAL   172       9.503  83.191  11.864  1.00  9.99
ATOM    702  CA  VAL   172      10.941  83.396  11.703  1.00  9.99
ATOM    703  C   VAL   172      11.583  84.028  12.933  1.00  9.99
ATOM    704  O   VAL   172      12.671  83.618  13.362  1.00  9.99
ATOM    705  CB  VAL   172      11.212  84.298  10.476  1.00  9.99
ATOM    706  N   SER   173      10.926  85.002  13.511  1.00  9.99
ATOM    707  CA  SER   173      11.545  85.780  14.563  1.00  9.99
ATOM    708  C   SER   173      10.558  86.095  15.678  1.00  9.99
ATOM    709  O   SER   173       9.565  86.776  15.445  1.00  9.99
ATOM    710  CB  SER   173      12.074  87.069  13.936  1.00  9.99
ATOM    711  N   GLU   174      10.810  85.585  16.896  1.00  9.99
ATOM    712  CA  GLU   174       9.963  85.860  18.064  1.00  9.99
ATOM    713  C   GLU   174      10.001  87.338  18.430  1.00  9.99
ATOM    714  O   GLU   174      11.081  87.931  18.551  1.00  9.99
ATOM    715  CB  GLU   174      10.601  85.022  19.189  1.00  9.99
ATOM    716  N   GLU   175       8.845  87.936  18.606  1.00  9.99
ATOM    717  CA  GLU   175       8.769  89.353  18.911  1.00  9.99
ATOM    718  C   GLU   175       7.878  89.607  20.122  1.00  9.99
ATOM    719  O   GLU   175       8.344  90.110  21.154  1.00  9.99
ATOM    720  CB  GLU   175       8.250  90.159  17.699  1.00  9.99
TER
END
