
#######################################################
#                                                     #
#                        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 (  155),  selected   21 , name T0347TS389_3-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS389_3-D2.T0347_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V     152      D     134           -
LGA    I     153      -       -           -
LGA    I     154      -       -           -
LGA    L     174      -       -           -
LGA    S     175      P     135          3.751
LGA    -       -      F     136           -
LGA    -       -      R     137           -
LGA    -       -      S     138           -
LGA    D     176      L     139          3.905
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    -       -      I     169           -
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    S     177      F     178          1.408
LGA    F     178      D     179          1.262
LGA    D     179      D     180          0.842
LGA    D     180      A     181          0.806
LGA    A     181      L     182          1.312
LGA    L     182      A     183          1.064
LGA    A     183      E     184          0.781
LGA    E     184      A     185          1.071
LGA    A     185      M     186          1.266
LGA    M     186      K     187          0.843
LGA    K     187      L     188          0.627
LGA    L     188      A     189          1.464
LGA    A     189      K     190          1.249
LGA    K     190      S     191          1.865
LGA    S     191      R     192          2.128
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    -       -      G     202           -
LGA    -       -      V     203           -
LGA    -       -      E     204           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21   71    5.0     17    1.77     5.88     22.640     0.909

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.338993 * X  +  -0.012976 * Y  +   0.940699 * Z  +  10.120640
  Y_new =  -0.598781 * X  +  -0.768255 * Y  +  -0.226376 * Z  +  52.030399
  Z_new =   0.725634 * X  +  -0.640013 * Y  +   0.252663 * Z  + -19.485491 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.194799    1.946793  [ DEG:   -68.4570    111.5430 ]
  Theta =  -0.811956   -2.329637  [ DEG:   -46.5216   -133.4784 ]
  Phi   =  -2.085946    1.055647  [ DEG:  -119.5159     60.4841 ]
 
# 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_3-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS389_3-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   17   1.77    5.88  22.640
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS389_3-D2
PFRMAT TS
TARGET T0347
MODEL  3
PARENT N/A
ATOM    535  N   VAL   152      16.284  60.370 -27.775  1.00  0.00
ATOM    536  CA  VAL   152      16.012  58.944 -27.709  1.00  0.00
ATOM    537  CB  VAL   152      17.032  58.137 -28.532  1.00  0.00
ATOM    538  CG1 VAL   152      16.748  56.647 -28.420  1.00  0.00
ATOM    539  CG2 VAL   152      16.963  58.530 -30.000  1.00  0.00
ATOM    540  O   VAL   152      17.133  58.080 -25.776  1.00  0.00
ATOM    541  C   VAL   152      16.108  58.585 -26.232  1.00  0.00
ATOM    542  N   ILE   153      15.065  58.907 -25.474  1.00  0.00
ATOM    543  CA  ILE   153      15.036  58.559 -24.063  1.00  0.00
ATOM    544  CB  ILE   153      14.080  59.475 -23.275  1.00  0.00
ATOM    545  CG1 ILE   153      14.553  60.927 -23.349  1.00  0.00
ATOM    546  CG2 ILE   153      14.027  59.058 -21.814  1.00  0.00
ATOM    547  CD1 ILE   153      13.553  61.923 -22.801  1.00  0.00
ATOM    548  O   ILE   153      13.491  56.842 -24.664  1.00  0.00
ATOM    549  C   ILE   153      14.553  57.123 -24.116  1.00  0.00
ATOM    550  N   ILE   154      15.367  56.224 -23.575  1.00  0.00
ATOM    551  CA  ILE   154      15.082  54.797 -23.590  1.00  0.00
ATOM    552  CB  ILE   154      16.371  53.965 -23.735  1.00  0.00
ATOM    553  CG1 ILE   154      17.065  54.287 -25.061  1.00  0.00
ATOM    554  CG2 ILE   154      16.052  52.479 -23.705  1.00  0.00
ATOM    555  CD1 ILE   154      18.480  53.760 -25.153  1.00  0.00
ATOM    556  O   ILE   154      13.570  53.334 -22.373  1.00  0.00
ATOM    557  C   ILE   154      14.384  54.270 -22.313  1.00  0.00
ATOM    561  N   LEU   174      11.367  58.855  -9.752  1.00  0.00
ATOM    562  CA  LEU   174      11.682  59.693  -8.606  1.00  0.00
ATOM    563  CB  LEU   174      11.919  61.138  -9.048  1.00  0.00
ATOM    564  CG  LEU   174      13.126  61.380  -9.956  1.00  0.00
ATOM    565  CD1 LEU   174      13.190  62.837 -10.390  1.00  0.00
ATOM    566  CD2 LEU   174      14.420  61.043  -9.231  1.00  0.00
ATOM    567  O   LEU   174       9.820  60.693  -7.502  1.00  0.00
ATOM    568  C   LEU   174      10.597  59.740  -7.555  1.00  0.00
ATOM    569  N   SER   175      10.545  58.717  -6.711  1.00  0.00
ATOM    570  CA  SER   175       9.552  58.698  -5.654  1.00  0.00
ATOM    571  CB  SER   175       9.391  57.283  -5.094  1.00  0.00
ATOM    572  OG  SER   175      10.566  56.867  -4.418  1.00  0.00
ATOM    573  O   SER   175       9.279  59.970  -3.683  1.00  0.00
ATOM    574  C   SER   175      10.020  59.625  -4.575  1.00  0.00
ATOM    575  N   ASP   176      11.276  60.022  -4.690  1.00  0.00
ATOM    576  CA  ASP   176      11.931  60.929  -3.765  1.00  0.00
ATOM    577  CB  ASP   176      12.924  60.170  -2.884  1.00  0.00
ATOM    578  CG  ASP   176      12.243  59.191  -1.949  1.00  0.00
ATOM    579  OD1 ASP   176      11.448  59.640  -1.096  1.00  0.00
ATOM    580  OD2 ASP   176      12.502  57.976  -2.068  1.00  0.00
ATOM    581  O   ASP   176      13.342  61.538  -5.606  1.00  0.00
ATOM    582  C   ASP   176      12.630  61.929  -4.682  1.00  0.00
ATOM    583  N   SER   177      12.405  63.214  -4.464  1.00  0.00
ATOM    584  CA  SER   177      13.037  64.242  -5.280  1.00  0.00
ATOM    585  CB  SER   177      12.813  65.626  -4.667  1.00  0.00
ATOM    586  OG  SER   177      11.433  65.932  -4.586  1.00  0.00
ATOM    587  O   SER   177      15.119  63.323  -4.584  1.00  0.00
ATOM    588  C   SER   177      14.526  64.021  -5.398  1.00  0.00
ATOM    589  N   PHE   178      15.134  64.607  -6.419  1.00  0.00
ATOM    590  CA  PHE   178      16.572  64.479  -6.565  1.00  0.00
ATOM    591  CB  PHE   178      17.028  65.057  -7.905  1.00  0.00
ATOM    592  CG  PHE   178      18.512  64.986  -8.120  1.00  0.00
ATOM    593  CD1 PHE   178      19.115  63.800  -8.503  1.00  0.00
ATOM    594  CD2 PHE   178      19.308  66.105  -7.942  1.00  0.00
ATOM    595  CE1 PHE   178      20.481  63.734  -8.702  1.00  0.00
ATOM    596  CE2 PHE   178      20.674  66.038  -8.141  1.00  0.00
ATOM    597  CZ  PHE   178      21.260  64.860  -8.518  1.00  0.00
ATOM    598  O   PHE   178      18.034  64.765  -4.707  1.00  0.00
ATOM    599  C   PHE   178      17.155  65.258  -5.405  1.00  0.00
ATOM    600  N   ASP   179      16.665  66.477  -5.192  1.00  0.00
ATOM    601  CA  ASP   179      17.156  67.268  -4.076  1.00  0.00
ATOM    602  CB  ASP   179      16.392  68.590  -3.980  1.00  0.00
ATOM    603  CG  ASP   179      16.771  69.563  -5.078  1.00  0.00
ATOM    604  OD1 ASP   179      17.782  69.317  -5.769  1.00  0.00
ATOM    605  OD2 ASP   179      16.054  70.574  -5.249  1.00  0.00
ATOM    606  O   ASP   179      17.819  66.377  -1.949  1.00  0.00
ATOM    607  C   ASP   179      16.942  66.445  -2.809  1.00  0.00
ATOM    608  N   ASP   180      15.783  65.797  -2.707  1.00  0.00
ATOM    609  CA  ASP   180      15.468  64.968  -1.551  1.00  0.00
ATOM    610  CB  ASP   180      14.093  64.316  -1.715  1.00  0.00
ATOM    611  CG  ASP   180      12.957  65.306  -1.556  1.00  0.00
ATOM    612  OD1 ASP   180      13.214  66.435  -1.087  1.00  0.00
ATOM    613  OD2 ASP   180      11.809  64.955  -1.902  1.00  0.00
ATOM    614  O   ASP   180      17.011  63.617  -0.285  1.00  0.00
ATOM    615  C   ASP   180      16.507  63.856  -1.380  1.00  0.00
ATOM    616  N   ALA   181      16.822  63.160  -2.460  1.00  0.00
ATOM    617  CA  ALA   181      17.832  62.119  -2.384  1.00  0.00
ATOM    618  CB  ALA   181      18.007  61.448  -3.737  1.00  0.00
ATOM    619  O   ALA   181      19.838  62.273  -1.093  1.00  0.00
ATOM    620  C   ALA   181      19.129  62.770  -1.958  1.00  0.00
ATOM    621  N   LEU   182      19.429  63.900  -2.585  1.00  0.00
ATOM    622  CA  LEU   182      20.637  64.644  -2.290  1.00  0.00
ATOM    623  CB  LEU   182      20.559  66.051  -2.887  1.00  0.00
ATOM    624  CG  LEU   182      21.767  66.958  -2.646  1.00  0.00
ATOM    625  CD1 LEU   182      23.014  66.378  -3.297  1.00  0.00
ATOM    626  CD2 LEU   182      21.526  68.340  -3.230  1.00  0.00
ATOM    627  O   LEU   182      21.835  64.385  -0.239  1.00  0.00
ATOM    628  C   LEU   182      20.799  64.752  -0.790  1.00  0.00
ATOM    629  N   ALA   183      19.762  65.240  -0.124  1.00  0.00
ATOM    630  CA  ALA   183      19.813  65.404   1.317  1.00  0.00
ATOM    631  CB  ALA   183      18.488  65.939   1.838  1.00  0.00
ATOM    632  O   ALA   183      21.086  63.971   2.724  1.00  0.00
ATOM    633  C   ALA   183      20.091  64.096   2.016  1.00  0.00
ATOM    634  N   GLU   184      19.231  63.109   1.799  1.00  0.00
ATOM    635  CA  GLU   184      19.417  61.825   2.450  1.00  0.00
ATOM    636  CB  GLU   184      18.463  60.784   1.862  1.00  0.00
ATOM    637  CG  GLU   184      18.550  59.419   2.526  1.00  0.00
ATOM    638  CD  GLU   184      17.548  58.432   1.958  1.00  0.00
ATOM    639  OE1 GLU   184      16.770  58.822   1.063  1.00  0.00
ATOM    640  OE2 GLU   184      17.541  57.267   2.411  1.00  0.00
ATOM    641  O   GLU   184      21.373  60.683   3.196  1.00  0.00
ATOM    642  C   GLU   184      20.825  61.292   2.289  1.00  0.00
ATOM    643  N   ALA   185      21.424  61.494   1.129  1.00  0.00
ATOM    644  CA  ALA   185      22.772  60.997   0.963  1.00  0.00
ATOM    645  CB  ALA   185      23.182  61.054  -0.500  1.00  0.00
ATOM    646  O   ALA   185      24.366  61.422   2.684  1.00  0.00
ATOM    647  C   ALA   185      23.650  61.900   1.806  1.00  0.00
ATOM    648  N   MET   186      23.572  63.208   1.563  1.00  0.00
ATOM    649  CA  MET   186      24.373  64.153   2.331  1.00  0.00
ATOM    650  CB  MET   186      23.852  65.579   2.133  1.00  0.00
ATOM    651  CG  MET   186      24.082  66.135   0.737  1.00  0.00
ATOM    652  SD  MET   186      23.304  67.744   0.493  1.00  0.00
ATOM    653  CE  MET   186      24.227  68.746   1.656  1.00  0.00
ATOM    654  O   MET   186      25.281  63.718   4.504  1.00  0.00
ATOM    655  C   MET   186      24.279  63.775   3.796  1.00  0.00
ATOM    656  N   LYS   187      23.049  63.521   4.230  1.00  0.00
ATOM    657  CA  LYS   187      22.759  63.131   5.596  1.00  0.00
ATOM    658  CB  LYS   187      21.322  62.619   5.714  1.00  0.00
ATOM    659  CG  LYS   187      20.878  62.338   7.142  1.00  0.00
ATOM    660  CD  LYS   187      19.398  61.994   7.200  1.00  0.00
ATOM    661  CE  LYS   187      18.992  61.550   8.596  1.00  0.00
ATOM    662  NZ  LYS   187      17.519  61.357   8.709  1.00  0.00
ATOM    663  O   LYS   187      24.574  62.211   6.841  1.00  0.00
ATOM    664  C   LYS   187      23.731  62.031   5.979  1.00  0.00
ATOM    665  N   LEU   188      23.614  60.893   5.312  1.00  0.00
ATOM    666  CA  LEU   188      24.474  59.749   5.567  1.00  0.00
ATOM    667  CB  LEU   188      24.513  58.825   4.347  1.00  0.00
ATOM    668  CG  LEU   188      25.335  57.543   4.495  1.00  0.00
ATOM    669  CD1 LEU   188      24.759  56.659   5.592  1.00  0.00
ATOM    670  CD2 LEU   188      25.332  56.751   3.197  1.00  0.00
ATOM    671  O   LEU   188      26.460  59.785   6.893  1.00  0.00
ATOM    672  C   LEU   188      25.898  60.166   5.872  1.00  0.00
ATOM    673  N   ALA   189      26.476  60.935   4.959  1.00  0.00
ATOM    674  CA  ALA   189      27.832  61.440   5.096  1.00  0.00
ATOM    675  CB  ALA   189      28.099  62.525   4.064  1.00  0.00
ATOM    676  O   ALA   189      29.124  61.741   7.075  1.00  0.00
ATOM    677  C   ALA   189      28.105  62.042   6.462  1.00  0.00
ATOM    678  N   LYS   190      27.205  62.905   6.929  1.00  0.00
ATOM    679  CA  LYS   190      27.342  63.541   8.240  1.00  0.00
ATOM    680  CB  LYS   190      26.368  64.713   8.373  1.00  0.00
ATOM    681  CG  LYS   190      26.476  65.463   9.690  1.00  0.00
ATOM    682  CD  LYS   190      25.543  66.662   9.721  1.00  0.00
ATOM    683  CE  LYS   190      25.626  67.393  11.051  1.00  0.00
ATOM    684  NZ  LYS   190      24.677  68.538  11.116  1.00  0.00
ATOM    685  O   LYS   190      27.807  62.399  10.307  1.00  0.00
ATOM    686  C   LYS   190      27.047  62.529   9.353  1.00  0.00
ATOM    687  N   SER   191      25.940  61.810   9.221  1.00  0.00
ATOM    688  CA  SER   191      25.558  60.797  10.200  1.00  0.00
ATOM    689  CB  SER   191      24.172  60.234   9.876  1.00  0.00
ATOM    690  OG  SER   191      23.184  61.249   9.928  1.00  0.00
ATOM    691  O   SER   191      26.280  58.582  10.771  1.00  0.00
ATOM    692  C   SER   191      26.557  59.638  10.202  1.00  0.00
TER
END
