
#######################################################
#                                                     #
#                        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_1-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS599_1-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      I     224           #
LGA    E     226      M     225          2.771
LGA    K     227      E     226          1.955
LGA    V     228      K     227          4.579
LGA    D     229      V     228          4.825
LGA    Y     230      D     229          4.176
LGA    P     231      Y     230           #
LGA    R     232      P     231          4.275
LGA    N     233      R     232          2.356
LGA    E     234      N     233          2.357
LGA    S     235      E     234          3.478
LGA    -       -      S     235           -
LGA    G     236      G     236          1.464
LGA    D     237      D     237          1.921
LGA    V     238      V     238          2.151
LGA    -       -      A     239           -
LGA    A     239      A     240          2.777
LGA    A     240      V     241          1.134
LGA    V     241      I     242          3.520
LGA    I     242      H     243          1.684
LGA    H     243      P     244          3.094
LGA    P     244      -       -           -
LGA    N     245      N     245          4.049
LGA    L     246      L     246          4.069
LGA    Q     247      Q     247          3.698
LGA    D     248      -       -           -
LGA    Q     249      D     248           #
LGA    D     250      Q     249          2.371
LGA    W     251      -       -           -
LGA    K     252      D     250          1.871
LGA    P     253      W     251          1.384
LGA    L     254      K     252          3.041
LGA    H     255      P     253          1.281
LGA    P     256      L     254          4.123
LGA    G     257      H     255          1.224
LGA    D     258      P     256           #
LGA    -       -      G     257           -
LGA    P     259      D     258          1.527
LGA    V     260      P     259          3.010
LGA    F     261      V     260          2.382
LGA    V     262      F     261          1.018
LGA    S     263      V     262          1.503
LGA    L     264      S     263          2.091
LGA    D     265      L     264          2.619
LGA    G     266      D     265          1.428
LGA    K     267      G     266          3.296
LGA    V     268      K     267          2.069
LGA    -       -      V     268           -
LGA    I     269      I     269          1.595
LGA    P     270      P     270          2.160
LGA    L     271      L     271          1.971
LGA    G     272      G     272          4.057
LGA    G     273      G     273          3.783
LGA    D     274      D     274          3.232
LGA    C     275      C     275          3.051
LGA    -       -      T     276           -
LGA    T     276      V     277          1.796
LGA    V     277      Y     278          1.633
LGA    Y     278      P     279          1.221
LGA    P     279      V     280          0.944
LGA    V     280      F     281          1.506
LGA    -       -      V     282           -
LGA    -       -      N     283           -
LGA    F     281      E     284          5.379
LGA    V     282      A     285           #
LGA    N     283      A     286           #
LGA    E     284      Y     287           -
LGA    A     285      Y     288           -
LGA    A     286      E     289           -
LGA    Y     287      K     290           -
LGA    Y     288      K     291           -
LGA    E     289      E     292           -
LGA    K     290      A     293           -
LGA    K     291      -       -           -
LGA    E     292      -       -           -
LGA    A     293      -       -           -
LGA    F     294      -       -           -
LGA    A     295      F     294           #
LGA    K     296      A     295           -
LGA    T     297      K     296           -
LGA    -       -      T     297           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   74   74    5.0     50    2.81    28.00     41.578     1.716

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.127244 * X  +  -0.111373 * Y  +  -0.985599 * Z  +  17.335836
  Y_new =   0.457749 * X  +  -0.874936 * Y  +   0.157965 * Z  +  48.103626
  Z_new =  -0.879929 * X  +  -0.471257 * Y  +  -0.060349 * Z  +   6.671130 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.698163    1.443429  [ DEG:   -97.2976     82.7024 ]
  Theta =   1.075712    2.065881  [ DEG:    61.6338    118.3662 ]
  Phi   =   1.299664   -1.841929  [ DEG:    74.4653   -105.5347 ]
 
# 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_1-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS599_1-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   50   2.81   28.00  41.578
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS599_1-D2
PFRMAT TS                                                                       
TARGET T0289                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    224  CA  ILE   224      23.546  34.606  24.980  1.00  0.00              
ATOM    225  CA  MET   225      21.602  33.168  22.364  1.00  0.00              
ATOM    226  CA  GLU   226      23.300  29.790  22.731  1.00  0.00              
ATOM    227  CA  LYS   227      22.612  29.541  26.434  1.00  0.00              
ATOM    228  CA  VAL   228      19.062  30.758  27.046  1.00  0.00              
ATOM    229  CA  ASP   229      19.020  32.858  30.105  1.00  0.00              
ATOM    230  CA  TYR   230      16.120  36.243  29.634  1.00  0.00              
ATOM    231  CA  PRO   231      16.772  38.163  32.759  1.00  0.00              
ATOM    232  CA  ARG   232      14.985  41.078  32.980  1.00  0.00              
ATOM    233  CA  ASN   233      15.251  42.913  36.644  1.00  0.00              
ATOM    234  CA  GLU   234      12.407  43.678  38.147  1.00  0.00              
ATOM    235  CA  SER   235      11.435  46.908  36.436  1.00  0.00              
ATOM    236  CA  GLY   236      11.929  45.370  33.006  1.00  0.00              
ATOM    237  CA  ASP   237      14.909  47.183  31.869  1.00  0.00              
ATOM    238  CA  VAL   238      18.260  45.420  31.512  1.00  0.00              
ATOM    239  CA  ALA   239      21.109  47.735  31.803  1.00  0.00              
ATOM    240  CA  ALA   240      24.331  46.607  30.694  1.00  0.00              
ATOM    241  CA  VAL   241      27.199  48.542  31.787  1.00  0.00              
ATOM    242  CA  ILE   242      30.573  47.488  30.774  1.00  0.00              
ATOM    243  CA  HIS   243      33.577  48.143  33.093  1.00  0.00              
ATOM    244  CA  PRO   244      36.507  49.695  31.202  1.00  0.00              
ATOM    245  CA  ASN   245      38.904  46.696  31.522  1.00  0.00              
ATOM    246  CA  LEU   246      36.314  44.466  29.957  1.00  0.00              
ATOM    247  CA  GLN   247      35.333  46.468  26.876  1.00  0.00              
ATOM    248  CA  ASP   248      38.890  47.058  25.633  1.00  0.00              
ATOM    249  CA  GLN   249      39.071  46.361  21.878  1.00  0.00              
ATOM    250  CA  ASP   250      36.808  43.342  21.878  1.00  0.00              
ATOM    251  CA  TRP   251      34.812  43.326  18.602  1.00  0.00              
ATOM    252  CA  LYS   252      33.045  39.882  19.348  1.00  0.00              
ATOM    253  CA  PRO   253      35.498  37.883  21.301  1.00  0.00              
ATOM    254  CA  LEU   254      34.616  36.764  24.751  1.00  0.00              
ATOM    255  CA  HIS   255      36.306  33.648  25.868  1.00  0.00              
ATOM    256  CA  PRO   256      35.116  31.139  28.701  1.00  0.00              
ATOM    257  CA  GLY   257      36.370  32.373  32.117  1.00  0.00              
ATOM    258  CA  ASP   258      36.021  36.311  31.102  1.00  0.00              
ATOM    259  CA  PRO   259      34.456  38.406  33.240  1.00  0.00              
ATOM    260  CA  VAL   260      31.249  40.337  32.205  1.00  0.00              
ATOM    261  CA  PHE   261      30.406  42.956  33.659  1.00  0.00              
ATOM    262  CA  VAL   262      26.673  44.405  34.380  1.00  0.00              
ATOM    263  CA  SER   263      25.785  47.430  35.621  1.00  0.00              
ATOM    264  CA  LEU   264      22.412  48.103  37.106  1.00  0.00              
ATOM    265  CA  ASP   265      22.012  51.386  38.888  1.00  0.00              
ATOM    266  CA  GLY   266      25.473  51.878  40.092  1.00  0.00              
ATOM    267  CA  LYS   267      26.072  48.252  41.514  1.00  0.00              
ATOM    268  CA  VAL   268      28.443  46.276  39.786  1.00  0.00              
ATOM    269  CA  ILE   269      27.611  42.435  38.802  1.00  0.00              
ATOM    270  CA  PRO   270      30.152  40.346  37.787  1.00  0.00              
ATOM    271  CA  LEU   271      29.373  37.184  35.441  1.00  0.00              
ATOM    272  CA  GLY   272      31.506  35.101  34.545  1.00  0.00              
ATOM    273  CA  GLY   273      29.807  31.774  32.964  1.00  0.00              
ATOM    274  CA  ASP   274      31.428  28.673  32.625  1.00  0.00              
ATOM    275  CA  CYS   275      33.821  29.361  29.676  1.00  0.00              
ATOM    276  CA  THR   276      30.965  30.521  27.153  1.00  0.00              
ATOM    277  CA  VAL   277      31.986  33.414  24.941  1.00  0.00              
ATOM    278  CA  TYR   278      29.403  36.009  23.836  1.00  0.00              
ATOM    279  CA  PRO   279      30.021  37.631  20.346  1.00  0.00              
ATOM    280  CA  VAL   280      28.020  40.863  19.789  1.00  0.00              
ATOM    281  CA  PHE   281      26.715  41.846  16.236  1.00  0.00              
ATOM    282  CA  VAL   282      25.611  44.698  15.846  1.00  0.00              
ATOM    283  CA  ASN   283      23.484  45.669  12.499  1.00  0.00              
ATOM    284  CA  GLU   284      23.820  48.722  10.957  1.00  0.00              
ATOM    285  CA  ALA   285      24.024  47.929   7.257  1.00  0.00              
ATOM    286  CA  ALA   286      27.749  48.349   6.860  1.00  0.00              
ATOM    287  CA  TYR   287      28.860  46.273   9.856  1.00  0.00              
ATOM    288  CA  TYR   288      26.448  43.408   9.280  1.00  0.00              
ATOM    289  CA  GLU   289      27.051  43.091   5.690  1.00  0.00              
ATOM    290  CA  LYS   290      30.813  42.951   5.491  1.00  0.00              
ATOM    291  CA  LYS   291      30.975  40.814   8.473  1.00  0.00              
ATOM    292  CA  GLU   292      32.056  43.593  11.014  1.00  0.00              
ATOM    293  CA  ALA   293      31.161  43.084  14.450  1.00  0.00              
ATOM    294  CA  PHE   294      30.317  46.346  16.581  1.00  0.00              
ATOM    295  CA  ALA   295      30.218  45.846  20.228  1.00  0.00              
ATOM    296  CA  LYS   296      28.716  49.189  22.088  1.00  0.00              
ATOM    297  CA  THR   297      28.808  48.917  25.314  1.00  0.00              
TER                                                                             
END
