
#######################################################
#                                                     #
#                        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   41 (  204),  selected   41 , name T0289TS102_5-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS102_5-D2.T0289_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I     224      I     224           -
LGA    M     225      M     225           -
LGA    E     226      E     226           -
LGA    K     227      K     227           -
LGA    V     228      V     228           -
LGA    D     229      D     229           -
LGA    Y     230      Y     230           -
LGA    N     233      P     231           -
LGA    -       -      R     232           -
LGA    -       -      N     233           -
LGA    E     234      E     234          5.265
LGA    S     235      S     235          3.216
LGA    G     236      G     236          2.523
LGA    D     237      -       -           -
LGA    V     238      -       -           -
LGA    A     239      -       -           -
LGA    A     240      D     237          2.369
LGA    V     241      V     238          2.805
LGA    I     242      A     239          4.339
LGA    H     243      A     240          2.514
LGA    P     244      V     241          2.325
LGA    N     245      I     242          4.154
LGA    L     246      -       -           -
LGA    Q     247      H     243          1.665
LGA    D     248      P     244          4.074
LGA    Q     249      -       -           -
LGA    D     250      N     245          3.723
LGA    W     251      L     246          3.242
LGA    K     252      Q     247          1.998
LGA    S     263      -       -           -
LGA    L     264      -       -           -
LGA    D     265      D     248          5.197
LGA    L     271      Q     249          3.887
LGA    D     274      D     250          3.191
LGA    C     275      W     251          1.863
LGA    T     276      K     252          3.613
LGA    F     281      P     253          3.663
LGA    V     282      L     254          1.938
LGA    N     283      H     255          1.695
LGA    E     284      P     256          1.774
LGA    A     293      G     257          2.585
LGA    F     294      D     258          1.590
LGA    A     295      P     259          2.363
LGA    -       -      V     260           -
LGA    -       -      F     261           -
LGA    -       -      V     262           -
LGA    -       -      S     263           -
LGA    -       -      L     264           -
LGA    -       -      D     265           -
LGA    -       -      G     266           -
LGA    -       -      K     267           -
LGA    -       -      V     268           -
LGA    -       -      I     269           -
LGA    -       -      P     270           -
LGA    -       -      L     271           -
LGA    -       -      G     272           -
LGA    -       -      G     273           -
LGA    -       -      D     274           -
LGA    -       -      C     275           -
LGA    -       -      T     276           -
LGA    -       -      V     277           -
LGA    -       -      Y     278           -
LGA    -       -      P     279           -
LGA    -       -      V     280           -
LGA    -       -      F     281           -
LGA    -       -      V     282           -
LGA    -       -      N     283           -
LGA    -       -      E     284           -
LGA    -       -      A     285           -
LGA    -       -      A     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    -       -      E     289           -
LGA    -       -      K     290           -
LGA    -       -      K     291           -
LGA    -       -      E     292           -
LGA    -       -      A     293           -
LGA    -       -      F     294           -
LGA    -       -      A     295           -
LGA    -       -      K     296           -
LGA    -       -      T     297           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   41   74    5.0     26    3.16    23.08     20.801     0.797

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.870845 * X  +  -0.397166 * Y  +   0.289636 * Z  + -24.039326
  Y_new =   0.049582 * X  +  -0.515244 * Y  +  -0.855608 * Z  +  57.601620
  Z_new =   0.489052 * X  +   0.759462 * Y  +  -0.429005 * Z  +  15.304988 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.084992   -1.056601  [ DEG:   119.4612    -60.5388 ]
  Theta =  -0.511002   -2.630591  [ DEG:   -29.2783   -150.7217 ]
  Phi   =   0.056874   -3.084719  [ DEG:     3.2586   -176.7414 ]
 
# 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: T0289TS102_5-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS102_5-D2.T0289_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   41   74   5.0   26   3.16   23.08  20.801
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS102_5-D2
PFRMAT TS
TARGET T0289
MODEL 5
PARENT 1e32_A
ATOM    837  N   ILE   224      16.005  53.618  43.534  1.00  1.00
ATOM    838  CA  ILE   224      15.507  53.099  42.268  1.00  1.00
ATOM    839  C   ILE   224      14.056  52.675  42.441  1.00  1.00
ATOM    840  O   ILE   224      13.201  53.012  41.630  1.00  1.00
ATOM    841  CB  ILE   224      16.353  51.877  41.792  1.00  1.00
ATOM    842  N   MET   225      13.772  51.933  43.499  1.00  1.00
ATOM    843  CA  MET   225      12.402  51.513  43.741  1.00  1.00
ATOM    844  C   MET   225      11.533  52.753  43.919  1.00  1.00
ATOM    845  O   MET   225      10.498  52.893  43.268  1.00  1.00
ATOM    846  CB  MET   225      12.328  50.651  44.976  1.00  1.00
ATOM    847  N   GLU   226      11.968  53.669  44.782  1.00  1.00
ATOM    848  CA  GLU   226      11.196  54.880  45.033  1.00  1.00
ATOM    849  C   GLU   226      10.832  55.732  43.826  1.00  1.00
ATOM    850  O   GLU   226       9.762  56.329  43.818  1.00  1.00
ATOM    851  CB  GLU   226      11.881  55.774  46.060  1.00  1.00
ATOM    852  N   LYS   227      11.678  55.800  42.803  1.00  1.00
ATOM    853  CA  LYS   227      11.339  56.640  41.656  1.00  1.00
ATOM    854  C   LYS   227      10.594  55.987  40.495  1.00  1.00
ATOM    855  O   LYS   227      10.247  56.659  39.543  1.00  1.00
ATOM    856  CB  LYS   227      12.600  57.319  41.112  1.00  1.00
ATOM    857  N   VAL   228      10.324  54.692  40.571  1.00  1.00
ATOM    858  CA  VAL   228       9.663  53.973  39.473  1.00  1.00
ATOM    859  C   VAL   228       8.182  53.715  39.706  1.00  1.00
ATOM    860  O   VAL   228       7.668  52.623  39.459  1.00  1.00
ATOM    861  CB  VAL   228      10.367  52.637  39.230  1.00  1.00
ATOM    862  N   ASP   229       7.508  54.752  40.171  1.00  1.00
ATOM    863  CA  ASP   229       6.086  54.720  40.479  1.00  1.00
ATOM    864  C   ASP   229       5.176  53.684  39.801  1.00  1.00
ATOM    865  O   ASP   229       4.818  52.676  40.416  1.00  1.00
ATOM    866  CB  ASP   229       5.523  56.123  40.268  1.00  1.00
ATOM    867  N   TYR   230       4.794  53.922  38.551  1.00  1.00
ATOM    868  CA  TYR   230       3.892  52.994  37.888  1.00  1.00
ATOM    869  C   TYR   230       4.487  51.828  37.115  1.00  1.00
ATOM    870  O   TYR   230       3.837  51.294  36.218  1.00  1.00
ATOM    871  CB  TYR   230       3.083  53.822  36.874  1.00  1.00
ATOM    872  N   ASN   233       5.707  51.422  37.451  1.00  1.00
ATOM    873  CA  ASN   233       6.347  50.308  36.764  1.00  1.00
ATOM    874  C   ASN   233       5.784  48.972  37.212  1.00  1.00
ATOM    875  O   ASN   233       5.181  48.859  38.285  1.00  1.00
ATOM    876  CB  ASN   233       7.860  50.318  37.024  1.00  1.00
ATOM    877  N   GLU   234       5.975  47.966  36.364  1.00  1.00
ATOM    878  CA  GLU   234       5.553  46.596  36.650  1.00  1.00
ATOM    879  C   GLU   234       6.805  45.748  36.471  1.00  1.00
ATOM    880  O   GLU   234       7.761  46.178  35.819  1.00  1.00
ATOM    881  CB  GLU   234       4.467  46.091  35.669  1.00  1.00
ATOM    882  N   SER   235       6.799  44.555  37.052  1.00  1.00
ATOM    883  CA  SER   235       7.948  43.677  36.946  1.00  1.00
ATOM    884  C   SER   235       8.693  43.646  35.618  1.00  1.00
ATOM    885  O   SER   235       9.928  43.716  35.590  1.00  1.00
ATOM    886  CB  SER   235       7.436  42.248  37.201  1.00  1.00
ATOM    887  N   GLY   236       7.968  43.534  34.511  1.00  1.00
ATOM    888  CA  GLY   236       8.611  43.488  33.204  1.00  1.00
ATOM    889  C   GLY   236       9.470  44.732  33.002  1.00  1.00
ATOM    890  O   GLY   236      10.522  44.676  32.364  1.00  1.00
ATOM    891  N   ASP   237       9.006  45.850  33.559  1.00  1.00
ATOM    892  CA  ASP   237       9.705  47.133  33.487  1.00  1.00
ATOM    893  C   ASP   237      10.985  47.078  34.308  1.00  1.00
ATOM    894  O   ASP   237      12.084  47.334  33.801  1.00  1.00
ATOM    895  CB  ASP   237       8.819  48.255  34.036  1.00  1.00
ATOM    896  N   VAL   238      10.833  46.748  35.586  1.00  1.00
ATOM    897  CA  VAL   238      11.976  46.673  36.481  1.00  1.00
ATOM    898  C   VAL   238      13.041  45.709  35.964  1.00  1.00
ATOM    899  O   VAL   238      14.237  45.991  36.045  1.00  1.00
ATOM    900  CB  VAL   238      11.510  46.275  37.883  1.00  1.00
ATOM    901  N   ALA   239      12.618  44.580  35.412  1.00  1.00
ATOM    902  CA  ALA   239      13.573  43.601  34.892  1.00  1.00
ATOM    903  C   ALA   239      14.344  44.200  33.723  1.00  1.00
ATOM    904  O   ALA   239      15.556  44.009  33.585  1.00  1.00
ATOM    905  CB  ALA   239      12.844  42.342  34.447  1.00  1.00
ATOM    906  N   ALA   240      13.626  44.930  32.881  1.00  1.00
ATOM    907  CA  ALA   240      14.228  45.569  31.731  1.00  1.00
ATOM    908  C   ALA   240      15.208  46.633  32.212  1.00  1.00
ATOM    909  O   ALA   240      16.266  46.850  31.622  1.00  1.00
ATOM    910  CB  ALA   240      13.149  46.190  30.883  1.00  1.00
ATOM    911  N   VAL   241      14.842  47.297  33.298  1.00  1.00
ATOM    912  CA  VAL   241      15.666  48.342  33.880  1.00  1.00
ATOM    913  C   VAL   241      16.994  47.748  34.354  1.00  1.00
ATOM    914  O   VAL   241      18.052  48.339  34.148  1.00  1.00
ATOM    915  CB  VAL   241      14.905  48.967  35.050  1.00  1.00
ATOM    916  N   ILE   242      20.830  48.346  32.754  1.00  1.00
ATOM    917  CA  ILE   242      21.862  48.917  33.613  1.00  1.00
ATOM    918  C   ILE   242      23.110  48.052  33.582  1.00  1.00
ATOM    919  O   ILE   242      24.226  48.560  33.665  1.00  1.00
ATOM    920  CB  ILE   242      21.346  49.048  35.059  1.00  1.00
ATOM    921  N   HIS   243      22.908  46.741  33.466  1.00  1.00
ATOM    922  CA  HIS   243      24.007  45.792  33.411  1.00  1.00
ATOM    923  C   HIS   243      24.650  45.813  32.036  1.00  1.00
ATOM    924  O   HIS   243      25.868  45.770  31.920  1.00  1.00
ATOM    925  CB  HIS   243      23.506  44.418  33.718  1.00  1.00
ATOM    926  N   PRO   244      23.845  45.879  30.983  1.00  1.00
ATOM    927  CA  PRO   244      24.440  45.910  29.651  1.00  1.00
ATOM    928  C   PRO   244      25.218  47.214  29.468  1.00  1.00
ATOM    929  O   PRO   244      26.259  47.240  28.801  1.00  1.00
ATOM    930  CB  PRO   244      23.369  45.717  28.544  1.00  1.00
ATOM    931  N   ASN   245      24.719  48.287  30.086  1.00  1.00
ATOM    932  CA  ASN   245      25.368  49.589  30.015  1.00  1.00
ATOM    933  C   ASN   245      26.698  49.507  30.737  1.00  1.00
ATOM    934  O   ASN   245      27.698  50.064  30.292  1.00  1.00
ATOM    935  CB  ASN   245      24.500  50.652  30.678  1.00  1.00
ATOM    936  N   LEU   246      26.701  48.807  31.866  1.00  1.00
ATOM    937  CA  LEU   246      27.918  48.633  32.648  1.00  1.00
ATOM    938  C   LEU   246      28.924  47.824  31.843  1.00  1.00
ATOM    939  O   LEU   246      30.115  48.123  31.846  1.00  1.00
ATOM    940  CB  LEU   246      27.604  47.916  33.960  1.00  1.00
ATOM    941  N   GLN   247      28.427  46.795  31.158  1.00  1.00
ATOM    942  CA  GLN   247      29.259  45.921  30.340  1.00  1.00
ATOM    943  C   GLN   247      29.877  46.673  29.181  1.00  1.00
ATOM    944  O   GLN   247      30.992  46.368  28.770  1.00  1.00
ATOM    945  CB  GLN   247      28.438  44.724  29.797  1.00  1.00
ATOM    946  N   ASP   248      29.157  47.664  28.664  1.00  1.00
ATOM    947  CA  ASP   248      29.656  48.455  27.545  1.00  1.00
ATOM    948  C   ASP   248      30.742  49.471  27.917  1.00  1.00
ATOM    949  O   ASP   248      31.615  49.785  27.112  1.00  1.00
ATOM    950  CB  ASP   248      28.505  49.175  26.846  1.00  1.00
ATOM    951  N   GLN   249      30.702  49.998  29.127  1.00  1.00
ATOM    952  CA  GLN   249      31.722  50.956  29.494  1.00  1.00
ATOM    953  C   GLN   249      32.975  50.241  29.914  1.00  1.00
ATOM    954  O   GLN   249      34.041  50.442  29.343  1.00  1.00
ATOM    955  CB  GLN   249      31.265  51.837  30.648  1.00  1.00
ATOM    956  N   ASP   250      32.831  49.405  30.934  1.00  1.00
ATOM    957  CA  ASP   250      33.948  48.662  31.486  1.00  1.00
ATOM    958  C   ASP   250      34.465  47.631  30.503  1.00  1.00
ATOM    959  O   ASP   250      35.075  47.977  29.495  1.00  1.00
ATOM    960  CB  ASP   250      33.530  48.000  32.786  1.00  1.00
ATOM    961  N   TRP   251      34.220  46.363  30.804  1.00  1.00
ATOM    962  CA  TRP   251      34.665  45.274  29.943  1.00  1.00
ATOM    963  C   TRP   251      34.847  45.717  28.485  1.00  1.00
ATOM    964  O   TRP   251      35.966  45.734  27.964  1.00  1.00
ATOM    965  CB  TRP   251      33.659  44.114  30.015  1.00  1.00
ATOM    966  N   LYS   252      33.730  46.091  27.864  1.00  1.00
ATOM    967  CA  LYS   252      33.657  46.522  26.467  1.00  1.00
ATOM    968  C   LYS   252      34.838  47.317  25.923  1.00  1.00
ATOM    969  O   LYS   252      35.420  46.937  24.906  1.00  1.00
ATOM    970  CB  LYS   252      32.374  47.329  26.250  1.00  1.00
ATOM    971  N   SER   263      35.188  48.421  26.577  1.00  1.00
ATOM    972  CA  SER   263      36.297  49.242  26.101  1.00  1.00
ATOM    973  C   SER   263      37.665  48.578  26.304  1.00  1.00
ATOM    974  O   SER   263      38.558  48.728  25.465  1.00  1.00
ATOM    975  CB  SER   263      36.234  50.629  26.748  1.00  1.00
ATOM    976  N   LEU   264      37.833  47.845  27.406  1.00  1.00
ATOM    977  CA  LEU   264      39.080  47.122  27.643  1.00  1.00
ATOM    978  C   LEU   264      39.122  46.120  26.483  1.00  1.00
ATOM    979  O   LEU   264      40.170  45.842  25.901  1.00  1.00
ATOM    980  CB  LEU   264      39.020  46.392  28.972  1.00  1.00
ATOM    981  N   ASP   265      37.940  45.602  26.162  1.00  1.00
ATOM    982  CA  ASP   265      37.702  44.655  25.073  1.00  1.00
ATOM    983  C   ASP   265      38.205  43.224  25.242  1.00  1.00
ATOM    984  O   ASP   265      39.344  42.895  24.890  1.00  1.00
ATOM    985  CB  ASP   265      38.216  45.219  23.746  1.00  1.00
ATOM    986  N   LEU   271      37.316  42.382  25.769  1.00  1.00
ATOM    987  CA  LEU   271      37.572  40.962  26.004  1.00  1.00
ATOM    988  C   LEU   271      36.271  40.217  25.702  1.00  1.00
ATOM    989  O   LEU   271      35.808  39.388  26.492  1.00  1.00
ATOM    990  CB  LEU   271      37.989  40.728  27.459  1.00  1.00
ATOM    991  N   ASP   274      35.681  40.535  24.551  1.00  1.00
ATOM    992  CA  ASP   274      34.430  39.921  24.127  1.00  1.00
ATOM    993  C   ASP   274      34.577  39.161  22.816  1.00  1.00
ATOM    994  O   ASP   274      35.647  39.173  22.196  1.00  1.00
ATOM    995  CB  ASP   274      33.341  40.983  23.987  1.00  1.00
ATOM    996  N   CYS   275      33.490  38.508  22.403  1.00  1.00
ATOM    997  CA  CYS   275      33.459  37.705  21.180  1.00  1.00
ATOM    998  C   CYS   275      34.617  36.695  21.170  1.00  1.00
ATOM    999  O   CYS   275      35.621  36.885  20.478  1.00  1.00
ATOM   1000  CB  CYS   275      33.527  38.611  19.955  1.00  1.00
ATOM   1001  N   THR   276      34.463  35.626  21.953  1.00  1.00
ATOM   1002  CA  THR   276      35.475  34.575  22.063  1.00  1.00
ATOM   1003  C   THR   276      34.897  33.370  22.813  1.00  1.00
ATOM   1004  O   THR   276      34.503  32.365  22.215  1.00  1.00
ATOM   1005  CB  THR   276      36.710  35.117  22.804  1.00  1.00
ATOM   1006  N   PHE   281      34.858  33.508  24.135  1.00  1.00
ATOM   1007  CA  PHE   281      34.348  32.502  25.066  1.00  1.00
ATOM   1008  C   PHE   281      34.526  33.150  26.439  1.00  1.00
ATOM   1009  O   PHE   281      35.447  32.812  27.180  1.00  1.00
ATOM   1010  CB  PHE   281      35.168  31.219  24.966  1.00  1.00
ATOM   1011  N   VAL   282      33.641  34.098  26.744  1.00  1.00
ATOM   1012  CA  VAL   282      33.658  34.881  27.983  1.00  1.00
ATOM   1013  C   VAL   282      34.159  34.215  29.275  1.00  1.00
ATOM   1014  O   VAL   282      33.608  33.211  29.738  1.00  1.00
ATOM   1015  CB  VAL   282      32.263  35.491  28.239  1.00  1.00
ATOM   1016  N   ASN   283      35.196  34.818  29.856  1.00  1.00
ATOM   1017  CA  ASN   283      35.829  34.337  31.084  1.00  1.00
ATOM   1018  C   ASN   283      35.109  34.747  32.370  1.00  1.00
ATOM   1019  O   ASN   283      34.911  35.936  32.630  1.00  1.00
ATOM   1020  CB  ASN   283      37.258  34.851  31.156  1.00  1.00
ATOM   1021  N   GLU   284      34.753  33.754  33.182  1.00  1.00
ATOM   1022  CA  GLU   284      34.050  33.983  34.442  1.00  1.00
ATOM   1023  C   GLU   284      34.649  35.104  35.287  1.00  1.00
ATOM   1024  O   GLU   284      33.952  36.048  35.652  1.00  1.00
ATOM   1025  CB  GLU   284      34.009  32.694  35.256  1.00  1.00
ATOM   1026  N   ALA   293      35.937  34.996  35.594  1.00  1.00
ATOM   1027  CA  ALA   293      36.622  35.993  36.408  1.00  1.00
ATOM   1028  C   ALA   293      36.305  37.412  35.950  1.00  1.00
ATOM   1029  O   ALA   293      36.086  38.302  36.771  1.00  1.00
ATOM   1030  CB  ALA   293      38.127  35.752  36.373  1.00  1.00
ATOM   1031  N   PHE   294      36.275  37.615  34.637  1.00  1.00
ATOM   1032  CA  PHE   294      35.984  38.929  34.069  1.00  1.00
ATOM   1033  C   PHE   294      34.568  39.358  34.437  1.00  1.00
ATOM   1034  O   PHE   294      34.357  40.391  35.082  1.00  1.00
ATOM   1035  CB  PHE   294      36.107  38.912  32.529  1.00  1.00
ATOM   1036  N   ALA   295      33.598  38.552  34.021  1.00  1.00
ATOM   1037  CA  ALA   295      32.209  38.850  34.310  1.00  1.00
ATOM   1038  C   ALA   295      31.970  39.010  35.797  1.00  1.00
ATOM   1039  O   ALA   295      31.111  39.786  36.219  1.00  1.00
ATOM   1040  CB  ALA   295      31.300  37.748  33.772  1.00  1.00
TER
END
