
#######################################################
#                                                     #
#                        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 T0289TS599_3-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS599_3-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      I     224          4.463
LGA    R     232      -       -           -
LGA    N     233      -       -           -
LGA    E     234      -       -           -
LGA    S     235      -       -           -
LGA    G     236      -       -           -
LGA    D     237      M     225          3.534
LGA    V     238      E     226          2.214
LGA    A     239      -       -           -
LGA    A     240      -       -           -
LGA    V     241      K     227          3.978
LGA    I     242      V     228           -
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      D     229          4.205
LGA    P     253      Y     230           -
LGA    -       -      P     231           -
LGA    L     254      R     232           #
LGA    -       -      N     233           -
LGA    -       -      E     234           -
LGA    H     255      S     235          5.038
LGA    P     256      G     236          4.675
LGA    G     257      -       -           -
LGA    D     258      D     237          2.827
LGA    P     259      V     238          4.240
LGA    V     260      A     239          1.798
LGA    F     261      A     240          1.609
LGA    V     262      V     241          1.737
LGA    S     263      I     242          4.505
LGA    L     264      H     243          1.576
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     265      D     258           #
LGA    G     266      P     259          1.238
LGA    -       -      V     260           -
LGA    -       -      F     261           -
LGA    K     267      V     262          3.922
LGA    -       -      S     263           -
LGA    -       -      L     264           -
LGA    -       -      D     265           -
LGA    -       -      G     266           -
LGA    -       -      K     267           -
LGA    -       -      V     268           -
LGA    V     268      I     269          3.044
LGA    I     269      P     270           -
LGA    P     270      L     271           -
LGA    L     271      G     272           -
LGA    G     272      G     273           -
LGA    G     273      D     274           -
LGA    D     274      C     275           -
LGA    C     275      T     276           -
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      V     277           #
LGA    Y     288      -       -           -
LGA    E     289      -       -           -
LGA    K     290      -       -           -
LGA    K     291      Y     278          4.641
LGA    E     292      P     279          3.100
LGA    A     293      V     280          1.731
LGA    F     294      F     281          2.871
LGA    A     295      V     282          4.214
LGA    K     296      N     283          2.453
LGA    -       -      E     284           -
LGA    T     297      A     285          1.765
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     24    3.36    12.50     17.960     0.693

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.670596 * X  +  -0.328627 * Y  +   0.665061 * Z  +  28.484993
  Y_new =   0.199317 * X  +  -0.783736 * Y  +  -0.588244 * Z  +  36.945015
  Z_new =   0.714544 * X  +   0.527032 * Y  +  -0.460069 * Z  +  42.895596 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.288460   -0.853132  [ DEG:   131.1191    -48.8809 ]
  Theta =  -0.795973   -2.345620  [ DEG:   -45.6059   -134.3941 ]
  Phi   =   0.288908   -2.852684  [ DEG:    16.5532   -163.4468 ]
 
# 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: T0289TS599_3-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS599_3-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   24   3.36   12.50  17.960
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS599_3-D2
PFRMAT TS                                                                       
TARGET T0289                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    224  CA  ILE   224      21.665  35.962  18.153  1.00  0.00              
ATOM    225  CA  MET   225      18.004  35.542  19.310  1.00  0.00              
ATOM    226  CA  GLU   226      16.285  37.175  16.447  1.00  0.00              
ATOM    227  CA  LYS   227      17.890  34.573  14.173  1.00  0.00              
ATOM    228  CA  VAL   228      17.430  31.778  15.320  1.00  0.00              
ATOM    229  CA  ASP   229      20.317  28.588  15.404  1.00  0.00              
ATOM    230  CA  TYR   230      20.448  26.619  18.200  1.00  0.00              
ATOM    231  CA  PRO   231      24.066  25.807  18.146  1.00  0.00              
ATOM    232  CA  ARG   232      25.605  23.975  21.108  1.00  0.00              
ATOM    233  CA  ASN   233      28.882  24.478  22.148  1.00  0.00              
ATOM    234  CA  GLU   234      29.996  21.393  24.108  1.00  0.00              
ATOM    235  CA  SER   235      29.091  22.658  27.320  1.00  0.00              
ATOM    236  CA  GLY   236      25.650  23.577  26.801  1.00  0.00              
ATOM    237  CA  ASP   237      25.673  27.184  26.704  1.00  0.00              
ATOM    238  CA  VAL   238      24.055  28.837  23.856  1.00  0.00              
ATOM    239  CA  ALA   239      20.970  26.788  23.715  1.00  0.00              
ATOM    240  CA  ALA   240      20.140  27.508  27.510  1.00  0.00              
ATOM    241  CA  VAL   241      20.422  31.179  27.458  1.00  0.00              
ATOM    242  CA  ILE   242      18.416  31.533  24.408  1.00  0.00              
ATOM    243  CA  HIS   243      15.346  29.498  25.493  1.00  0.00              
ATOM    244  CA  PRO   244      15.256  26.797  22.815  1.00  0.00              
ATOM    245  CA  ASN   245      12.058  27.012  21.907  1.00  0.00              
ATOM    246  CA  LEU   246      12.053  30.695  21.328  1.00  0.00              
ATOM    247  CA  GLN   247      11.119  31.494  17.982  1.00  0.00              
ATOM    248  CA  ASP   248       9.241  35.051  18.829  1.00  0.00              
ATOM    249  CA  GLN   249      12.335  36.741  20.041  1.00  0.00              
ATOM    250  CA  ASP   250      11.692  36.550  23.741  1.00  0.00              
ATOM    251  CA  TRP   251      15.500  35.661  24.492  1.00  0.00              
ATOM    252  CA  LYS   252      15.457  37.270  28.002  1.00  0.00              
ATOM    253  CA  PRO   253      12.759  39.401  28.094  1.00  0.00              
ATOM    254  CA  LEU   254      13.053  43.116  29.228  1.00  0.00              
ATOM    255  CA  HIS   255       9.920  44.802  30.616  1.00  0.00              
ATOM    256  CA  PRO   256       8.992  48.304  30.111  1.00  0.00              
ATOM    257  CA  GLY   257       9.973  50.353  33.265  1.00  0.00              
ATOM    258  CA  ASP   258      12.607  47.662  34.536  1.00  0.00              
ATOM    259  CA  PRO   259      16.138  49.105  35.316  1.00  0.00              
ATOM    260  CA  VAL   260      18.878  47.619  33.651  1.00  0.00              
ATOM    261  CA  PHE   261      22.509  48.511  34.374  1.00  0.00              
ATOM    262  CA  VAL   262      25.271  46.966  32.368  1.00  0.00              
ATOM    263  CA  SER   263      28.749  46.687  33.647  1.00  0.00              
ATOM    264  CA  LEU   264      31.446  45.276  31.818  1.00  0.00              
ATOM    265  CA  ASP   265      34.022  43.833  34.042  1.00  0.00              
ATOM    266  CA  GLY   266      31.984  41.418  36.041  1.00  0.00              
ATOM    267  CA  LYS   267      28.896  43.627  36.961  1.00  0.00              
ATOM    268  CA  VAL   268      26.003  42.999  35.958  1.00  0.00              
ATOM    269  CA  ILE   269      22.574  44.517  37.906  1.00  0.00              
ATOM    270  CA  PRO   270      19.868  43.803  37.433  1.00  0.00              
ATOM    271  CA  LEU   271      16.601  45.203  39.628  1.00  0.00              
ATOM    272  CA  GLY   272      13.614  43.716  39.293  1.00  0.00              
ATOM    273  CA  GLY   273      10.153  45.117  40.222  1.00  0.00              
ATOM    274  CA  ASP   274       7.653  44.764  37.606  1.00  0.00              
ATOM    275  CA  CYS   275       9.301  43.313  34.744  1.00  0.00              
ATOM    276  CA  THR   276      12.447  45.188  34.314  1.00  0.00              
ATOM    277  CA  VAL   277      15.482  43.969  32.806  1.00  0.00              
ATOM    278  CA  TYR   278      18.944  46.132  32.235  1.00  0.00              
ATOM    279  CA  PRO   279      21.220  45.621  29.549  1.00  0.00              
ATOM    280  CA  VAL   280      24.195  47.658  29.654  1.00  0.00              
ATOM    281  CA  PHE   281      27.211  47.166  27.486  1.00  0.00              
ATOM    282  CA  VAL   282      30.705  47.960  28.604  1.00  0.00              
ATOM    283  CA  ASN   283      33.347  47.475  25.994  1.00  0.00              
ATOM    284  CA  GLU   284      34.595  46.521  22.852  1.00  0.00              
ATOM    285  CA  ALA   285      37.998  45.400  23.423  1.00  0.00              
ATOM    286  CA  ALA   286      37.596  42.959  25.591  1.00  0.00              
ATOM    287  CA  TYR   287      34.752  41.128  23.697  1.00  0.00              
ATOM    288  CA  TYR   288      36.307  41.292  20.463  1.00  0.00              
ATOM    289  CA  GLU   289      39.595  39.785  21.510  1.00  0.00              
ATOM    290  CA  LYS   290      38.540  36.513  23.177  1.00  0.00              
ATOM    291  CA  LYS   291      35.836  35.576  20.688  1.00  0.00              
ATOM    292  CA  GLU   292      32.813  37.334  21.891  1.00  0.00              
ATOM    293  CA  ALA   293      30.087  38.652  19.826  1.00  0.00              
ATOM    294  CA  PHE   294      28.382  41.621  21.396  1.00  0.00              
ATOM    295  CA  ALA   295      24.721  42.690  19.703  1.00  0.00              
ATOM    296  CA  LYS   296      23.026  44.743  21.967  1.00  0.00              
ATOM    297  CA  THR   297      19.827  46.634  20.468  1.00  0.00              
TER                                                                             
END
