
#######################################################
#                                                     #
#                        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   21 (  158),  selected   21 , name T0347TS389_4-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS389_4-D2.T0347_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I     154      -       -           -
LGA    P     155      D     134          4.029
LGA    F     156      P     135          2.740
LGA    -       -      F     136           -
LGA    -       -      R     137           -
LGA    S     157      S     138          4.204
LGA    L     174      L     139           #
LGA    -       -      A     140           -
LGA    -       -      G     141           -
LGA    -       -      A     142           -
LGA    -       -      L     143           -
LGA    -       -      R     144           -
LGA    -       -      M     145           -
LGA    -       -      A     146           -
LGA    -       -      G     147           -
LGA    -       -      G     148           -
LGA    -       -      Y     149           -
LGA    -       -      A     150           -
LGA    -       -      K     151           -
LGA    -       -      V     152           -
LGA    -       -      I     153           -
LGA    -       -      I     154           -
LGA    -       -      P     155           -
LGA    -       -      F     156           -
LGA    -       -      S     157           -
LGA    -       -      E     158           -
LGA    -       -      F     159           -
LGA    -       -      G     160           -
LGA    -       -      W     161           -
LGA    -       -      A     162           -
LGA    -       -      D     163           -
LGA    -       -      F     164           -
LGA    -       -      L     165           -
LGA    -       -      R     166           -
LGA    -       -      R     167           -
LGA    -       -      R     168           -
LGA    S     175      I     169          1.683
LGA    -       -      D     170           -
LGA    -       -      R     171           -
LGA    -       -      D     172           -
LGA    -       -      L     173           -
LGA    -       -      L     174           -
LGA    -       -      S     175           -
LGA    -       -      D     176           -
LGA    -       -      S     177           -
LGA    -       -      F     178           -
LGA    -       -      D     179           -
LGA    D     176      D     180           #
LGA    S     177      A     181          1.713
LGA    F     178      L     182          0.965
LGA    D     179      A     183          1.023
LGA    D     180      E     184          1.563
LGA    A     181      A     185          0.909
LGA    L     182      M     186          1.317
LGA    A     183      K     187          1.166
LGA    E     184      L     188          1.499
LGA    A     185      A     189          1.227
LGA    M     186      K     190          1.151
LGA    K     187      S     191          2.141
LGA    L     188      R     192          2.779
LGA    -       -      E     193           -
LGA    -       -      A     194           -
LGA    -       -      R     195           -
LGA    -       -      H     196           -
LGA    -       -      L     197           -
LGA    -       -      P     198           -
LGA    -       -      G     199           -
LGA    -       -      W     200           -
LGA    -       -      C     201           -
LGA    A     189      G     202          2.252
LGA    K     190      V     203          2.757
LGA    -       -      E     204           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21   71    5.0     18    2.18    16.67     20.699     0.789

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.186701 * X  +  -0.761931 * Y  +   0.620164 * Z  +  -0.402283
  Y_new =   0.352905 * X  +  -0.641143 * Y  +  -0.681464 * Z  +  55.996281
  Z_new =   0.916843 * X  +   0.091629 * Y  +   0.388592 * Z  +  -2.662820 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.231567   -2.910025  [ DEG:    13.2678   -166.7322 ]
  Theta =  -1.160099   -1.981494  [ DEG:   -66.4688   -113.5312 ]
  Phi   =   2.057406   -1.084187  [ DEG:   117.8807    -62.1193 ]
 
# 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: T0347TS389_4-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS389_4-D2.T0347_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   71   5.0   18   2.18   16.67  20.699
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS389_4-D2
PFRMAT TS
TARGET T0347
MODEL  4
PARENT N/A
ATOM    512  N   ILE   154       3.164  52.567  -8.245  1.00  0.00
ATOM    513  CA  ILE   154       2.117  52.165  -7.342  1.00  0.00
ATOM    514  CB  ILE   154       1.961  50.633  -7.302  1.00  0.00
ATOM    515  CG1 ILE   154       1.602  50.097  -8.690  1.00  0.00
ATOM    516  CG2 ILE   154       0.860  50.234  -6.332  1.00  0.00
ATOM    517  CD1 ILE   154       1.604  48.587  -8.780  1.00  0.00
ATOM    518  O   ILE   154       1.620  53.198  -5.276  1.00  0.00
ATOM    519  C   ILE   154       2.470  52.660  -5.974  1.00  0.00
ATOM    520  N   PRO   155       3.704  52.476  -5.548  1.00  0.00
ATOM    521  CA  PRO   155       4.034  53.051  -4.262  1.00  0.00
ATOM    522  CB  PRO   155       4.828  51.948  -3.557  1.00  0.00
ATOM    523  CG  PRO   155       5.649  51.329  -4.638  1.00  0.00
ATOM    524  CD  PRO   155       4.770  51.292  -5.858  1.00  0.00
ATOM    525  O   PRO   155       5.185  54.569  -5.739  1.00  0.00
ATOM    526  C   PRO   155       4.868  54.315  -4.575  1.00  0.00
ATOM    527  N   PHE   156       5.143  55.144  -3.574  1.00  0.00
ATOM    528  CA  PHE   156       5.956  56.336  -3.774  1.00  0.00
ATOM    529  CB  PHE   156       5.068  57.575  -3.908  1.00  0.00
ATOM    530  CG  PHE   156       4.127  57.522  -5.077  1.00  0.00
ATOM    531  CD1 PHE   156       2.841  57.034  -4.931  1.00  0.00
ATOM    532  CD2 PHE   156       4.530  57.962  -6.327  1.00  0.00
ATOM    533  CE1 PHE   156       1.977  56.985  -6.008  1.00  0.00
ATOM    534  CE2 PHE   156       3.664  57.916  -7.404  1.00  0.00
ATOM    535  CZ  PHE   156       2.392  57.429  -7.249  1.00  0.00
ATOM    536  O   PHE   156       6.560  56.303  -1.406  1.00  0.00
ATOM    537  C   PHE   156       6.905  56.531  -2.571  1.00  0.00
ATOM    538  N   SER   157       8.106  56.991  -2.863  1.00  0.00
ATOM    539  CA  SER   157       9.100  57.240  -1.839  1.00  0.00
ATOM    540  CB  SER   157      10.507  57.004  -2.390  1.00  0.00
ATOM    541  OG  SER   157      10.681  55.656  -2.790  1.00  0.00
ATOM    542  O   SER   157       8.474  59.469  -2.365  1.00  0.00
ATOM    543  C   SER   157       8.842  58.689  -1.499  1.00  0.00
ATOM    547  N   LEU   174      10.234  62.381   0.151  1.00  0.00
ATOM    548  CA  LEU   174      11.392  63.074   0.693  1.00  0.00
ATOM    549  CB  LEU   174      12.181  63.757  -0.426  1.00  0.00
ATOM    550  CG  LEU   174      12.824  62.833  -1.462  1.00  0.00
ATOM    551  CD1 LEU   174      13.439  63.643  -2.593  1.00  0.00
ATOM    552  CD2 LEU   174      13.920  61.993  -0.827  1.00  0.00
ATOM    553  O   LEU   174      10.713  65.260   1.345  1.00  0.00
ATOM    554  C   LEU   174      11.177  64.180   1.716  1.00  0.00
ATOM    555  N   SER   175      11.502  63.950   2.990  1.00  0.00
ATOM    556  CA  SER   175      11.382  65.074   3.909  1.00  0.00
ATOM    557  CB  SER   175      11.641  64.623   5.347  1.00  0.00
ATOM    558  OG  SER   175      11.485  65.698   6.257  1.00  0.00
ATOM    559  O   SER   175      12.232  66.956   2.672  1.00  0.00
ATOM    560  C   SER   175      12.490  65.908   3.270  1.00  0.00
ATOM    561  N   ASP   176      13.724  65.397   3.404  1.00  0.00
ATOM    562  CA  ASP   176      14.945  66.019   2.857  1.00  0.00
ATOM    563  CB  ASP   176      16.175  65.578   3.653  1.00  0.00
ATOM    564  CG  ASP   176      16.229  66.201   5.034  1.00  0.00
ATOM    565  OD1 ASP   176      15.464  67.156   5.285  1.00  0.00
ATOM    566  OD2 ASP   176      17.036  65.736   5.864  1.00  0.00
ATOM    567  O   ASP   176      14.591  64.629   0.924  1.00  0.00
ATOM    568  C   ASP   176      15.150  65.618   1.400  1.00  0.00
ATOM    569  N   SER   177      15.971  66.381   0.698  1.00  0.00
ATOM    570  CA  SER   177      16.225  66.079  -0.698  1.00  0.00
ATOM    571  CB  SER   177      17.033  67.201  -1.352  1.00  0.00
ATOM    572  OG  SER   177      16.320  68.426  -1.325  1.00  0.00
ATOM    573  O   SER   177      17.157  64.019   0.139  1.00  0.00
ATOM    574  C   SER   177      17.015  64.777  -0.828  1.00  0.00
ATOM    575  N   PHE   178      17.506  64.513  -2.037  1.00  0.00
ATOM    576  CA  PHE   178      18.308  63.327  -2.313  1.00  0.00
ATOM    577  CB  PHE   178      18.047  62.823  -3.734  1.00  0.00
ATOM    578  CG  PHE   178      18.805  61.572  -4.083  1.00  0.00
ATOM    579  CD1 PHE   178      18.381  60.339  -3.623  1.00  0.00
ATOM    580  CD2 PHE   178      19.941  61.633  -4.870  1.00  0.00
ATOM    581  CE1 PHE   178      19.078  59.189  -3.944  1.00  0.00
ATOM    582  CE2 PHE   178      20.638  60.484  -5.190  1.00  0.00
ATOM    583  CZ  PHE   178      20.210  59.266  -4.731  1.00  0.00
ATOM    584  O   PHE   178      20.401  63.417  -1.152  1.00  0.00
ATOM    585  C   PHE   178      19.764  63.765  -2.151  1.00  0.00
ATOM    586  N   ASP   179      20.257  64.564  -3.110  1.00  0.00
ATOM    587  CA  ASP   179      21.635  65.093  -3.120  1.00  0.00
ATOM    588  CB  ASP   179      21.781  66.189  -4.178  1.00  0.00
ATOM    589  CG  ASP   179      21.767  65.638  -5.592  1.00  0.00
ATOM    590  OD1 ASP   179      21.874  64.405  -5.749  1.00  0.00
ATOM    591  OD2 ASP   179      21.653  66.444  -6.541  1.00  0.00
ATOM    592  O   ASP   179      23.071  66.200  -1.546  1.00  0.00
ATOM    593  C   ASP   179      21.976  65.677  -1.772  1.00  0.00
ATOM    594  N   ASP   180      20.989  65.621  -0.899  1.00  0.00
ATOM    595  CA  ASP   180      21.111  66.100   0.445  1.00  0.00
ATOM    596  CB  ASP   180      19.974  67.068   0.775  1.00  0.00
ATOM    597  CG  ASP   180      20.100  68.388   0.038  1.00  0.00
ATOM    598  OD1 ASP   180      21.191  68.661  -0.508  1.00  0.00
ATOM    599  OD2 ASP   180      19.110  69.147   0.003  1.00  0.00
ATOM    600  O   ASP   180      21.978  64.606   2.102  1.00  0.00
ATOM    601  C   ASP   180      21.046  64.874   1.342  1.00  0.00
ATOM    602  N   ALA   181      19.970  64.097   1.208  1.00  0.00
ATOM    603  CA  ALA   181      19.795  62.954   2.084  1.00  0.00
ATOM    604  CB  ALA   181      18.639  62.089   1.605  1.00  0.00
ATOM    605  O   ALA   181      21.035  61.180   3.103  1.00  0.00
ATOM    606  C   ALA   181      20.980  62.019   2.200  1.00  0.00
ATOM    607  N   LEU   182      21.947  62.162   1.308  1.00  0.00
ATOM    608  CA  LEU   182      23.129  61.324   1.407  1.00  0.00
ATOM    609  CB  LEU   182      23.804  61.187   0.040  1.00  0.00
ATOM    610  CG  LEU   182      23.014  60.436  -1.034  1.00  0.00
ATOM    611  CD1 LEU   182      23.730  60.504  -2.374  1.00  0.00
ATOM    612  CD2 LEU   182      22.853  58.971  -0.656  1.00  0.00
ATOM    613  O   LEU   182      24.508  61.459   3.380  1.00  0.00
ATOM    614  C   LEU   182      24.031  62.040   2.398  1.00  0.00
ATOM    615  N   ALA   183      24.223  63.328   2.145  1.00  0.00
ATOM    616  CA  ALA   183      25.074  64.134   2.986  1.00  0.00
ATOM    617  CB  ALA   183      24.841  65.611   2.713  1.00  0.00
ATOM    618  O   ALA   183      25.566  64.476   5.294  1.00  0.00
ATOM    619  C   ALA   183      24.842  63.916   4.477  1.00  0.00
ATOM    620  N   GLU   184      23.838  63.112   4.834  1.00  0.00
ATOM    621  CA  GLU   184      23.545  62.809   6.240  1.00  0.00
ATOM    622  CB  GLU   184      22.044  62.925   6.513  1.00  0.00
ATOM    623  CG  GLU   184      21.492  64.334   6.358  1.00  0.00
ATOM    624  CD  GLU   184      19.992  64.396   6.563  1.00  0.00
ATOM    625  OE1 GLU   184      19.381  63.336   6.815  1.00  0.00
ATOM    626  OE2 GLU   184      19.426  65.507   6.474  1.00  0.00
ATOM    627  O   GLU   184      24.578  61.015   7.506  1.00  0.00
ATOM    628  C   GLU   184      24.033  61.375   6.454  1.00  0.00
ATOM    629  N   ALA   185      23.816  60.550   5.445  1.00  0.00
ATOM    630  CA  ALA   185      24.299  59.202   5.515  1.00  0.00
ATOM    631  CB  ALA   185      23.912  58.434   4.261  1.00  0.00
ATOM    632  O   ALA   185      26.371  59.229   6.680  1.00  0.00
ATOM    633  C   ALA   185      25.793  59.435   5.631  1.00  0.00
ATOM    634  N   MET   186      26.394  59.905   4.544  1.00  0.00
ATOM    635  CA  MET   186      27.824  60.209   4.486  1.00  0.00
ATOM    636  CB  MET   186      28.113  61.218   3.372  1.00  0.00
ATOM    637  CG  MET   186      29.593  61.476   3.138  1.00  0.00
ATOM    638  SD  MET   186      30.469  60.014   2.550  1.00  0.00
ATOM    639  CE  MET   186      29.923  59.955   0.845  1.00  0.00
ATOM    640  O   MET   186      29.369  60.359   6.324  1.00  0.00
ATOM    641  C   MET   186      28.353  60.808   5.793  1.00  0.00
ATOM    642  N   LYS   187      27.662  61.830   6.288  1.00  0.00
ATOM    643  CA  LYS   187      28.024  62.506   7.529  1.00  0.00
ATOM    644  CB  LYS   187      27.204  63.787   7.700  1.00  0.00
ATOM    645  CG  LYS   187      27.658  64.666   8.853  1.00  0.00
ATOM    646  CD  LYS   187      26.860  65.956   8.914  1.00  0.00
ATOM    647  CE  LYS   187      27.350  66.859  10.033  1.00  0.00
ATOM    648  NZ  LYS   187      26.592  68.139  10.088  1.00  0.00
ATOM    649  O   LYS   187      27.784  61.953   9.839  1.00  0.00
ATOM    650  C   LYS   187      27.738  61.553   8.682  1.00  0.00
ATOM    651  N   LEU   188      27.411  60.300   8.361  1.00  0.00
ATOM    652  CA  LEU   188      27.185  59.277   9.386  1.00  0.00
ATOM    653  CB  LEU   188      26.357  58.123   8.817  1.00  0.00
ATOM    654  CG  LEU   188      26.035  56.980   9.782  1.00  0.00
ATOM    655  CD1 LEU   188      25.200  57.481  10.950  1.00  0.00
ATOM    656  CD2 LEU   188      25.253  55.883   9.075  1.00  0.00
ATOM    657  O   LEU   188      29.143  59.049  10.774  1.00  0.00
ATOM    658  C   LEU   188      28.615  58.933   9.667  1.00  0.00
ATOM    659  N   ALA   189      29.222  58.503   8.581  1.00  0.00
ATOM    660  CA  ALA   189      30.590  58.076   8.517  1.00  0.00
ATOM    661  CB  ALA   189      30.922  57.565   7.124  1.00  0.00
ATOM    662  O   ALA   189      32.354  59.149   9.730  1.00  0.00
ATOM    663  C   ALA   189      31.513  59.248   8.846  1.00  0.00
ATOM    664  N   LYS   190      31.333  60.369   8.162  1.00  0.00
ATOM    665  CA  LYS   190      32.144  61.543   8.447  1.00  0.00
ATOM    666  CB  LYS   190      31.518  62.791   7.822  1.00  0.00
ATOM    667  CG  LYS   190      32.336  64.058   8.012  1.00  0.00
ATOM    668  CD  LYS   190      31.694  65.242   7.309  1.00  0.00
ATOM    669  CE  LYS   190      32.505  66.512   7.508  1.00  0.00
ATOM    670  NZ  LYS   190      31.888  67.679   6.821  1.00  0.00
ATOM    671  O   LYS   190      33.273  61.505  10.576  1.00  0.00
ATOM    672  C   LYS   190      32.215  61.704   9.980  1.00  0.00
TER
END
