
#######################################################
#                                                     #
#                        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   23 (  114),  selected   23 , name T0361TS239_3_2-D1
# Molecule2: number of CA atoms  158 ( 1268),  selected  158 , name T0361_D1.pdb
# PARAMETERS: T0361TS239_3_2-D1.T0361_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T       3           -
LGA    -       -      L       4           -
LGA    -       -      T       5           -
LGA    -       -      E       6           -
LGA    -       -      D       7           -
LGA    -       -      D       8           -
LGA    -       -      V       9           -
LGA    -       -      L      10           -
LGA    -       -      E      11           -
LGA    -       -      Q      12           -
LGA    -       -      L      13           -
LGA    -       -      D      14           -
LGA    -       -      A      15           -
LGA    -       -      Q      16           -
LGA    -       -      D      17           -
LGA    E     145      N      18          2.003
LGA    A     146      L      19          1.679
LGA    R     147      F      20          0.625
LGA    F     148      S      21          1.545
LGA    S     149      F      22          1.357
LGA    G     150      M      23          0.504
LGA    M     151      K      24          1.639
LGA    V     152      T      25          1.567
LGA    K     153      A      26          0.813
LGA    T     154      H      27          1.259
LGA    A     155      S      28          1.598
LGA    L     156      I      29          0.817
LGA    T     157      L      30          1.911
LGA    L     158      L      31          2.491
LGA    A     159      Q      32          1.476
LGA    V     160      G      33          2.588
LGA    T     161      I      34          3.577
LGA    -       -      R      35           -
LGA    -       -      Q      36           -
LGA    -       -      F      37           -
LGA    T     162      L      38          4.796
LGA    T     163      P      39           -
LGA    -       -      S      40           -
LGA    -       -      L      41           -
LGA    -       -      F      42           -
LGA    -       -      V      43           -
LGA    -       -      D      44           -
LGA    -       -      N      45           -
LGA    -       -      D      46           -
LGA    -       -      E      47           -
LGA    -       -      E      48           -
LGA    -       -      I      49           -
LGA    -       -      V      50           -
LGA    -       -      E      51           -
LGA    -       -      Y      52           -
LGA    -       -      A      53           -
LGA    -       -      V      54           -
LGA    -       -      K      55           -
LGA    -       -      P      56           -
LGA    -       -      L      57           -
LGA    -       -      L      58           -
LGA    -       -      A      59           -
LGA    -       -      Q      60           -
LGA    -       -      S      61           -
LGA    -       -      G      62           -
LGA    -       -      P      63           -
LGA    -       -      L      64           -
LGA    L     164      D      65          5.196
LGA    K     165      D      66          4.121
LGA    L     167      I      67          2.839
LGA    T     168      D      68          2.332
LGA    -       -      V      69           -
LGA    -       -      A      70           -
LGA    -       -      L      71           -
LGA    -       -      R      72           -
LGA    -       -      L      73           -
LGA    -       -      I      74           -
LGA    -       -      Y      75           -
LGA    -       -      A      76           -
LGA    -       -      L      77           -
LGA    -       -      G      78           -
LGA    -       -      K      79           -
LGA    -       -      M      80           -
LGA    -       -      D      81           -
LGA    -       -      K      82           -
LGA    -       -      W      83           -
LGA    -       -      L      84           -
LGA    -       -      Y      85           -
LGA    -       -      A      86           -
LGA    -       -      D      87           -
LGA    -       -      I      88           -
LGA    -       -      T      89           -
LGA    -       -      H      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      Q      93           -
LGA    -       -      Y      94           -
LGA    -       -      W      95           -
LGA    -       -      H      96           -
LGA    -       -      Y      97           -
LGA    -       -      L      98           -
LGA    -       -      N      99           -
LGA    -       -      E     100           -
LGA    -       -      Q     101           -
LGA    -       -      D     102           -
LGA    -       -      E     103           -
LGA    -       -      T     104           -
LGA    -       -      P     105           -
LGA    -       -      G     106           -
LGA    -       -      F     107           -
LGA    -       -      A     108           -
LGA    -       -      D     109           -
LGA    -       -      D     110           -
LGA    -       -      I     111           -
LGA    -       -      T     112           -
LGA    -       -      W     113           -
LGA    -       -      D     114           -
LGA    -       -      F     115           -
LGA    -       -      I     116           -
LGA    -       -      S     117           -
LGA    -       -      N     118           -
LGA    -       -      V     119           -
LGA    -       -      N     120           -
LGA    -       -      S     121           -
LGA    -       -      I     122           -
LGA    -       -      T     123           -
LGA    -       -      R     124           -
LGA    -       -      N     125           -
LGA    -       -      A     126           -
LGA    -       -      T     127           -
LGA    -       -      L     128           -
LGA    -       -      Y     129           -
LGA    -       -      D     130           -
LGA    -       -      A     131           -
LGA    -       -      L     132           -
LGA    -       -      K     133           -
LGA    -       -      A     134           -
LGA    -       -      M     135           -
LGA    -       -      K     136           -
LGA    -       -      E     145           -
LGA    -       -      A     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      S     149           -
LGA    -       -      G     150           -
LGA    -       -      M     151           -
LGA    -       -      V     152           -
LGA    -       -      K     153           -
LGA    -       -      T     154           -
LGA    -       -      A     155           -
LGA    -       -      L     156           -
LGA    -       -      T     157           -
LGA    -       -      L     158           -
LGA    -       -      A     159           -
LGA    -       -      V     160           -
LGA    -       -      T     161           -
LGA    -       -      T     162           -
LGA    -       -      T     163           -
LGA    -       -      L     164           -
LGA    -       -      K     165           -
LGA    -       -      E     166           -
LGA    -       -      L     167           -
LGA    -       -      T     168           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   23  158    5.0     22    2.47     4.55     11.309     0.856

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.800672 * X  +   0.561970 * Y  +   0.207637 * Z  +  -0.419766
  Y_new =  -0.547173 * X  +  -0.544805 * Y  +  -0.635445 * Z  +  63.683388
  Z_new =  -0.243979 * X  +  -0.622396 * Y  +   0.743705 * Z  +  63.472534 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.696832    2.444761  [ DEG:   -39.9255    140.0745 ]
  Theta =   0.246467    2.895126  [ DEG:    14.1215    165.8785 ]
  Phi   =  -2.542101    0.599492  [ DEG:  -145.6516     34.3484 ]
 
# 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: T0361TS239_3_2-D1                             
REMARK     2: T0361_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0361TS239_3_2-D1.T0361_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   23  158   5.0   22   2.47    4.55  11.309
REMARK  ---------------------------------------------------------- 
MOLECULE T0361TS239_3_2-D1
REMARK PARENT number 2
PFRMAT TS
TARGET T0361
PARENT 1f5q_B
ATOM    712  N   GLU   145      -2.656  -4.809  30.960  1.00  9.99
ATOM    713  CA  GLU   145      -1.368  -4.548  31.595  1.00  9.99
ATOM    714  C   GLU   145      -0.243  -4.721  30.599  1.00  9.99
ATOM    715  O   GLU   145       0.689  -3.923  30.564  1.00  9.99
ATOM    716  CB  GLU   145      -1.132  -5.494  32.775  1.00  9.99
ATOM    717  N   ALA   146      -0.344  -5.770  29.787  1.00  9.99
ATOM    718  CA  ALA   146       0.672  -6.094  28.794  1.00  9.99
ATOM    719  C   ALA   146       0.757  -5.059  27.693  1.00  9.99
ATOM    720  O   ALA   146       1.836  -4.572  27.364  1.00  9.99
ATOM    721  CB  ALA   146       0.417  -7.490  28.210  1.00  9.99
ATOM    722  N   ARG   147      -0.377  -4.709  27.120  1.00  9.99
ATOM    723  CA  ARG   147      -0.367  -3.701  26.082  1.00  9.99
ATOM    724  C   ARG   147       0.332  -2.447  26.595  1.00  9.99
ATOM    725  O   ARG   147       1.212  -1.896  25.934  1.00  9.99
ATOM    726  CB  ARG   147      -1.782  -3.340  25.685  1.00  9.99
ATOM    727  N   PHE   148      -0.059  -2.006  27.784  1.00  9.99
ATOM    728  CA  PHE   148       0.507  -0.806  28.354  1.00  9.99
ATOM    729  C   PHE   148       1.977  -0.850  28.687  1.00  9.99
ATOM    730  O   PHE   148       2.609   0.195  28.830  1.00  9.99
ATOM    731  CB  PHE   148      -0.282  -0.386  29.585  1.00  9.99
ATOM    732  N   SER   149       2.540  -2.039  28.832  1.00  9.99
ATOM    733  CA  SER   149       3.954  -2.098  29.131  1.00  9.99
ATOM    734  C   SER   149       4.732  -2.096  27.830  1.00  9.99
ATOM    735  O   SER   149       5.807  -1.500  27.732  1.00  9.99
ATOM    736  CB  SER   149       4.282  -3.341  29.953  1.00  9.99
ATOM    737  N   GLY   150       4.163  -2.739  26.819  1.00  9.99
ATOM    738  CA  GLY   150       4.804  -2.837  25.520  1.00  9.99
ATOM    739  C   GLY   150       4.786  -1.556  24.708  1.00  9.99
ATOM    740  O   GLY   150       5.743  -1.255  24.012  1.00  9.99
ATOM    741  N   MET   151       3.694  -0.806  24.791  1.00  9.99
ATOM    742  CA  MET   151       3.554   0.430  24.033  1.00  9.99
ATOM    743  C   MET   151       4.793   1.327  24.117  1.00  9.99
ATOM    744  O   MET   151       5.428   1.614  23.101  1.00  9.99
ATOM    745  CB  MET   151       2.321   1.213  24.511  1.00  9.99
ATOM    746  N   VAL   152       5.168   1.763  25.331  1.00  9.99
ATOM    747  CA  VAL   152       6.340   2.633  25.451  1.00  9.99
ATOM    748  C   VAL   152       7.625   2.107  24.825  1.00  9.99
ATOM    749  O   VAL   152       8.409   2.874  24.272  1.00  9.99
ATOM    750  CB  VAL   152       6.451   2.854  26.961  1.00  9.99
ATOM    751  N   LYS   153       7.849   0.804  24.912  1.00  9.99
ATOM    752  CA  LYS   153       9.053   0.212  24.340  1.00  9.99
ATOM    753  C   LYS   153       9.026   0.268  22.817  1.00  9.99
ATOM    754  O   LYS   153      10.049   0.530  22.186  1.00  9.99
ATOM    755  CB  LYS   153       9.195  -1.240  24.780  1.00  9.99
ATOM    756  N   THR   154       7.849   0.015  22.246  1.00  9.99
ATOM    757  CA  THR   154       7.654   0.015  20.801  1.00  9.99
ATOM    758  C   THR   154       7.871   1.394  20.188  1.00  9.99
ATOM    759  O   THR   154       8.445   1.520  19.114  1.00  9.99
ATOM    760  CB  THR   154       6.241  -0.454  20.445  1.00  9.99
ATOM    761  N   ALA   155       7.394   2.423  20.883  1.00  9.99
ATOM    762  CA  ALA   155       7.522   3.797  20.424  1.00  9.99
ATOM    763  C   ALA   155       8.979   4.199  20.378  1.00  9.99
ATOM    764  O   ALA   155       9.398   4.907  19.477  1.00  9.99
ATOM    765  CB  ALA   155       6.746   4.736  21.354  1.00  9.99
ATOM    766  N   LEU   156       9.744   3.751  21.364  1.00  9.99
ATOM    767  CA  LEU   156      11.161   4.056  21.421  1.00  9.99
ATOM    768  C   LEU   156      11.879   3.320  20.310  1.00  9.99
ATOM    769  O   LEU   156      12.820   3.841  19.714  1.00  9.99
ATOM    770  CB  LEU   156      11.753   3.626  22.761  1.00  9.99
ATOM    771  N   THR   157      11.423   2.103  20.036  1.00  9.99
ATOM    772  CA  THR   157      12.015   1.288  18.997  1.00  9.99
ATOM    773  C   THR   157      11.830   1.959  17.652  1.00  9.99
ATOM    774  O   THR   157      12.719   1.923  16.803  1.00  9.99
ATOM    775  CB  THR   157      11.378  -0.070  18.985  1.00  9.99
ATOM    776  N   LEU   158      10.672   2.582  17.472  1.00  9.99
ATOM    777  CA  LEU   158      10.343   3.260  16.231  1.00  9.99
ATOM    778  C   LEU   158      11.232   4.454  15.960  1.00  9.99
ATOM    779  O   LEU   158      11.542   4.752  14.818  1.00  9.99
ATOM    780  CB  LEU   158       8.864   3.663  16.241  1.00  9.99
ATOM    781  N   ALA   159      11.665   5.128  17.012  1.00  9.99
ATOM    782  CA  ALA   159      12.527   6.288  16.851  1.00  9.99
ATOM    783  C   ALA   159      13.981   5.905  16.661  1.00  9.99
ATOM    784  O   ALA   159      14.811   6.753  16.347  1.00  9.99
ATOM    785  CB  ALA   159      12.408   7.205  18.059  1.00  9.99
ATOM    786  N   VAL   160      14.301   4.634  16.877  1.00  9.99
ATOM    787  CA  VAL   160      15.672   4.180  16.695  1.00  9.99
ATOM    788  C   VAL   160      15.702   3.426  15.367  1.00  9.99
ATOM    789  O   VAL   160      15.011   2.432  15.198  1.00  9.99
ATOM    790  CB  VAL   160      16.095   3.257  17.843  1.00  9.99
ATOM    791  N   THR   161      16.485   3.922  14.418  1.00  9.99
ATOM    792  CA  THR   161      16.574   3.285  13.119  1.00  9.99
ATOM    793  C   THR   161      17.120   1.873  13.163  1.00  9.99
ATOM    794  O   THR   161      16.732   1.040  12.357  1.00  9.99
ATOM    795  CB  THR   161      17.438   4.169  12.203  1.00  9.99
ATOM    796  N   THR   162      18.021   1.600  14.101  1.00  9.99
ATOM    797  CA  THR   162      18.590   0.270  14.214  1.00  9.99
ATOM    798  C   THR   162      17.592  -0.749  14.732  1.00  9.99
ATOM    799  O   THR   162      17.840  -1.943  14.649  1.00  9.99
ATOM    800  CB  THR   162      19.833   0.286  15.106  1.00  9.99
ATOM    801  N   THR   163      16.464  -0.286  15.260  1.00  9.99
ATOM    802  CA  THR   163      15.439  -1.194  15.766  1.00  9.99
ATOM    803  C   THR   163      14.117  -1.022  15.037  1.00  9.99
ATOM    804  O   THR   163      13.269  -1.899  15.074  1.00  9.99
ATOM    805  CB  THR   163      15.222  -0.994  17.271  1.00  9.99
ATOM    806  N   LEU   164      13.954   0.106  14.367  1.00  9.99
ATOM    807  CA  LEU   164      12.734   0.380  13.645  1.00  9.99
ATOM    808  C   LEU   164      12.690  -0.287  12.273  1.00  9.99
ATOM    809  O   LEU   164      11.623  -0.382  11.665  1.00  9.99
ATOM    810  CB  LEU   164      12.548   1.880  13.502  1.00  9.99
ATOM    811  N   LYS   165      13.833  -0.748  11.777  1.00  9.99
ATOM    812  CA  LYS   165      13.857  -1.403  10.474  1.00  9.99
ATOM    813  C   LYS   165      13.616  -2.917  10.617  1.00  9.99
ATOM    814  O   LYS   165      13.553  -3.660   9.635  1.00  9.99
ATOM    815  CB  LYS   165      15.178  -1.111   9.747  1.00  9.99
ATOM    816  N   LEU   167      13.451  -3.361  11.857  1.00  9.99
ATOM    817  CA  LEU   167      13.192  -4.764  12.128  1.00  9.99
ATOM    818  C   LEU   167      11.725  -5.076  11.851  1.00  9.99
ATOM    819  O   LEU   167      10.873  -4.199  11.950  1.00  9.99
ATOM    820  CB  LEU   167      13.537  -5.083  13.585  1.00  9.99
ATOM    821  N   THR   168      11.438  -6.324  11.496  1.00  9.99
ATOM    822  CA  THR   168      10.070  -6.755  11.217  1.00  9.99
ATOM    823  C   THR   168       9.185  -6.397  12.405  1.00  9.99
ATOM    824  O   THR   168       9.646  -6.387  13.542  1.00  9.99
ATOM    825  CB  THR   168      10.017  -8.273  10.990  1.00  9.99
TER
END
