
#######################################################
#                                                     #
#                        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   74 (   74),  selected   74 , name T0289TS168_2-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS168_2-D2.T0289_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I     224      -       -           -
LGA    M     225      -       -           -
LGA    E     226      -       -           -
LGA    K     227      -       -           -
LGA    V     228      -       -           -
LGA    D     229      -       -           -
LGA    Y     230      -       -           -
LGA    P     231      -       -           -
LGA    R     232      -       -           -
LGA    N     233      -       -           -
LGA    E     234      -       -           -
LGA    S     235      -       -           -
LGA    G     236      -       -           -
LGA    D     237      -       -           -
LGA    V     238      -       -           -
LGA    A     239      -       -           -
LGA    A     240      -       -           -
LGA    V     241      -       -           -
LGA    I     242      -       -           -
LGA    H     243      I     224           #
LGA    -       -      M     225           -
LGA    P     244      E     226          4.014
LGA    N     245      K     227          4.820
LGA    L     246      V     228          1.946
LGA    Q     247      D     229          2.471
LGA    D     248      Y     230          4.031
LGA    -       -      P     231           -
LGA    Q     249      R     232          2.300
LGA    -       -      N     233           -
LGA    -       -      E     234           -
LGA    -       -      S     235           -
LGA    -       -      G     236           -
LGA    -       -      D     237           -
LGA    D     250      V     238          3.902
LGA    W     251      A     239          1.851
LGA    K     252      A     240          2.681
LGA    P     253      V     241          0.182
LGA    -       -      I     242           -
LGA    -       -      H     243           -
LGA    -       -      P     244           -
LGA    -       -      N     245           -
LGA    -       -      L     246           -
LGA    -       -      Q     247           -
LGA    -       -      D     248           -
LGA    -       -      Q     249           -
LGA    -       -      D     250           -
LGA    -       -      W     251           -
LGA    -       -      K     252           -
LGA    -       -      P     253           -
LGA    -       -      L     254           -
LGA    -       -      H     255           -
LGA    -       -      P     256           -
LGA    -       -      G     257           -
LGA    -       -      D     258           -
LGA    -       -      P     259           -
LGA    -       -      V     260           -
LGA    -       -      F     261           -
LGA    L     254      V     262          1.958
LGA    H     255      S     263          3.142
LGA    -       -      L     264           -
LGA    -       -      D     265           -
LGA    -       -      G     266           -
LGA    -       -      K     267           -
LGA    P     256      V     268          2.465
LGA    G     257      I     269          2.321
LGA    -       -      P     270           -
LGA    D     258      L     271          1.154
LGA    P     259      G     272          3.240
LGA    V     260      G     273          1.671
LGA    F     261      D     274          3.087
LGA    V     262      C     275          1.753
LGA    S     263      T     276          2.539
LGA    L     264      V     277          3.457
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      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    F     281      A     295           #
LGA    V     282      K     296          1.670
LGA    N     283      T     297          1.887
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)   74   74    5.0     23    2.75     0.00     20.087     0.807

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.135115 * X  +   0.856444 * Y  +   0.498245 * Z  +  31.590508
  Y_new =  -0.430826 * X  +  -0.503614 * Y  +   0.748840 * Z  +  20.540024
  Z_new =   0.892263 * X  +  -0.113477 * Y  +   0.437024 * Z  +  31.610844 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.254049    2.887544  [ DEG:   -14.5559    165.4441 ]
  Theta =  -1.102332   -2.039260  [ DEG:   -63.1590   -116.8410 ]
  Phi   =  -1.874700    1.266893  [ DEG:  -107.4124     72.5876 ]
 
# 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: T0289TS168_2-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS168_2-D2.T0289_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   74   74   5.0   23   2.75    0.00  20.087
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS168_2-D2
PFRMAT TS
TARGET T0289
MODEL 2
PARENT N/A
ATOM    224  CA  ILE   224      36.028  19.438  39.068  1.00 25.00           C
ATOM    225  CA  MET   225      35.491  23.092  38.373  1.00 25.00           C
ATOM    226  CA  GLU   226      38.896  23.851  39.988  1.00 25.00           C
ATOM    227  CA  LYS   227      38.684  22.557  43.567  1.00 25.00           C
ATOM    228  CA  VAL   228      34.920  23.059  43.347  1.00 25.00           C
ATOM    229  CA  ASP   229      35.569  23.893  46.986  1.00 25.00           C
ATOM    230  CA  TYR   230      35.812  26.895  49.319  1.00 25.00           C
ATOM    231  CA  PRO   231      37.205  28.734  52.288  1.00 25.00           C
ATOM    232  CA  ARG   232      38.258  30.058  55.633  1.00 25.00           C
ATOM    233  CA  ASN   233      37.520  33.645  54.629  1.00 25.00           C
ATOM    234  CA  GLU   234      33.687  33.924  54.814  1.00 25.00           C
ATOM    235  CA  SER   235      31.685  33.925  51.598  1.00 25.00           C
ATOM    236  CA  GLY   236      31.481  31.819  48.425  1.00 25.00           C
ATOM    237  CA  ASP   237      31.103  29.597  45.365  1.00 25.00           C
ATOM    238  CA  VAL   238      31.552  29.280  41.600  1.00 25.00           C
ATOM    239  CA  ALA   239      30.481  27.567  38.441  1.00 25.00           C
ATOM    240  CA  ALA   240      30.054  24.394  36.377  1.00 25.00           C
ATOM    241  CA  VAL   241      28.415  23.462  33.021  1.00 25.00           C
ATOM    242  CA  ILE   242      27.704  24.858  29.602  1.00 25.00           C
ATOM    243  CA  HIS   243      26.468  28.005  27.901  1.00 25.00           C
ATOM    244  CA  PRO   244      24.282  31.102  28.177  1.00 25.00           C
ATOM    245  CA  ASN   245      22.667  34.273  29.451  1.00 25.00           C
ATOM    246  CA  LEU   246      21.231  37.635  28.689  1.00 25.00           C
ATOM    247  CA  GLN   247      19.794  41.124  28.734  1.00 25.00           C
ATOM    248  CA  ASP   248      16.404  42.845  28.877  1.00 25.00           C
ATOM    249  CA  GLN   249      14.637  43.111  32.260  1.00 25.00           C
ATOM    250  CA  ASP   250      17.474  44.385  34.523  1.00 25.00           C
ATOM    251  CA  TRP   251      19.996  46.867  35.915  1.00 25.00           C
ATOM    252  CA  LYS   252      20.897  48.939  32.853  1.00 25.00           C
ATOM    253  CA  PRO   253      24.131  47.752  31.254  1.00 25.00           C
ATOM    254  CA  LEU   254      25.768  47.803  34.710  1.00 25.00           C
ATOM    255  CA  HIS   255      26.003  46.250  38.142  1.00 25.00           C
ATOM    256  CA  PRO   256      27.393  42.726  38.319  1.00 25.00           C
ATOM    257  CA  GLY   257      28.577  39.408  36.871  1.00 25.00           C
ATOM    258  CA  ASP   258      29.670  36.163  35.132  1.00 25.00           C
ATOM    259  CA  PRO   259      27.147  33.790  33.654  1.00 25.00           C
ATOM    260  CA  VAL   260      27.602  30.585  35.642  1.00 25.00           C
ATOM    261  CA  PHE   261      29.664  28.347  33.298  1.00 25.00           C
ATOM    262  CA  VAL   262      32.488  28.631  30.766  1.00 25.00           C
ATOM    263  CA  SER   263      35.466  27.343  28.734  1.00 25.00           C
ATOM    264  CA  LEU   264      35.979  30.967  27.693  1.00 25.00           C
ATOM    265  CA  ASP   265      38.825  32.820  25.953  1.00 25.00           C
ATOM    266  CA  GLY   266      38.418  30.246  23.241  1.00 25.00           C
ATOM    267  CA  LYS   267      41.284  28.066  22.086  1.00 25.00           C
ATOM    268  CA  VAL   268      45.076  28.099  22.654  1.00 25.00           C
ATOM    269  CA  ILE   269      46.842  25.543  24.733  1.00 25.00           C
ATOM    270  CA  PRO   270      48.438  24.266  27.933  1.00 25.00           C
ATOM    271  CA  LEU   271      47.156  24.715  31.473  1.00 25.00           C
ATOM    272  CA  GLY   272      49.154  26.048  34.436  1.00 25.00           C
ATOM    273  CA  GLY   273      48.706  28.304  37.449  1.00 25.00           C
ATOM    274  CA  ASP   274      45.055  28.427  38.495  1.00 25.00           C
ATOM    275  CA  CYS   275      41.423  28.360  39.530  1.00 25.00           C
ATOM    276  CA  THR   276      37.752  28.535  40.404  1.00 25.00           C
ATOM    277  CA  VAL   277      35.031  30.242  38.426  1.00 25.00           C
ATOM    278  CA  TYR   278      33.398  30.081  34.976  1.00 25.00           C
ATOM    279  CA  PRO   279      33.064  33.105  32.674  1.00 25.00           C
ATOM    280  CA  VAL   280      30.518  32.531  29.886  1.00 25.00           C
ATOM    281  CA  PHE   281      30.333  29.888  27.124  1.00 25.00           C
ATOM    282  CA  VAL   282      28.739  31.734  24.189  1.00 25.00           C
ATOM    283  CA  ASN   283      29.692  28.643  22.140  1.00 25.00           C
ATOM    284  CA  GLU   284      32.704  26.878  23.744  1.00 25.00           C
ATOM    285  CA  ALA   285      32.443  23.360  22.253  1.00 25.00           C
ATOM    286  CA  ALA   286      33.527  24.702  18.834  1.00 25.00           C
ATOM    287  CA  TYR   287      36.514  26.473  20.449  1.00 25.00           C
ATOM    288  CA  TYR   288      37.495  23.236  22.244  1.00 25.00           C
ATOM    289  CA  GLU   289      37.270  21.308  18.941  1.00 25.00           C
ATOM    290  CA  LYS   290      39.469  23.935  17.230  1.00 25.00           C
ATOM    291  CA  LYS   291      36.939  23.390  14.436  1.00 25.00           C
ATOM    292  CA  GLU   292      36.045  27.000  15.200  1.00 25.00           C
ATOM    293  CA  ALA   293      33.725  29.221  17.278  1.00 25.00           C
ATOM    294  CA  PHE   294      34.186  30.948  20.607  1.00 25.00           C
ATOM    295  CA  ALA   295      33.871  32.301  24.143  1.00 25.00           C
ATOM    296  CA  LYS   296      32.828  35.924  24.695  1.00 25.00           C
ATOM    297  CA  THR   297      35.786  38.110  25.714  1.00 25.00           C
TER
END
