
#######################################################
#                                                     #
#                        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_3-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS168_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      -       -           -
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      I     224          1.439
LGA    V     241      M     225          1.359
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    V     262      E     226           #
LGA    S     263      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           -
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     264      L     254          4.224
LGA    D     265      H     255          5.025
LGA    -       -      P     256           -
LGA    G     266      G     257           #
LGA    K     267      D     258          3.114
LGA    V     268      P     259          1.696
LGA    I     269      V     260          3.477
LGA    P     270      F     261          3.231
LGA    L     271      -       -           -
LGA    G     272      -       -           -
LGA    G     273      -       -           -
LGA    D     274      -       -           -
LGA    C     275      -       -           -
LGA    T     276      V     262          4.844
LGA    V     277      S     263           #
LGA    -       -      L     264           -
LGA    -       -      D     265           -
LGA    -       -      G     266           -
LGA    -       -      K     267           -
LGA    -       -      V     268           -
LGA    Y     278      I     269          4.399
LGA    P     279      P     270          3.350
LGA    -       -      L     271           -
LGA    V     280      G     272          2.777
LGA    F     281      G     273          0.648
LGA    V     282      D     274          1.448
LGA    N     283      C     275          2.493
LGA    E     284      T     276          3.250
LGA    A     285      V     277          2.945
LGA    A     286      -       -           -
LGA    Y     287      -       -           -
LGA    Y     288      Y     278          1.850
LGA    E     289      P     279           #
LGA    K     290      V     280          3.701
LGA    K     291      F     281           #
LGA    E     292      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    A     293      A     295           #
LGA    F     294      K     296           #
LGA    A     295      T     297           -
LGA    K     296      -       -           -
LGA    T     297      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   74   74    5.0     19    3.15    15.79     16.561     0.584

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.962350 * X  +   0.268607 * Y  +   0.041630 * Z  +  28.383957
  Y_new =   0.244136 * X  +   0.786829 * Y  +   0.566831 * Z  +  29.701971
  Z_new =   0.119499 * X  +   0.555653 * Y  +  -0.822782 * Z  +  28.707348 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.547613   -0.593980  [ DEG:   145.9675    -34.0325 ]
  Theta =  -0.119785   -3.021807  [ DEG:    -6.8632   -173.1368 ]
  Phi   =   2.893146   -0.248446  [ DEG:   165.7651    -14.2349 ]
 
# 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_3-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS168_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   19   3.15   15.79  16.561
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS168_3-D2
PFRMAT TS
TARGET T0289
MODEL 3
PARENT N/A
ATOM    224  CA  ILE   224      23.497  31.534  21.506  1.00 25.00           C
ATOM    225  CA  MET   225      20.585  30.525  19.265  1.00 25.00           C
ATOM    226  CA  GLU   226      19.561  34.143  19.211  1.00 25.00           C
ATOM    227  CA  LYS   227      19.276  37.856  19.640  1.00 25.00           C
ATOM    228  CA  VAL   228      21.621  40.062  21.652  1.00 25.00           C
ATOM    229  CA  ASP   229      22.157  41.868  18.297  1.00 25.00           C
ATOM    230  CA  TYR   230      20.845  39.949  15.306  1.00 25.00           C
ATOM    231  CA  PRO   231      21.583  41.463  11.884  1.00 25.00           C
ATOM    232  CA  ARG   232      22.869  42.021   8.351  1.00 25.00           C
ATOM    233  CA  ASN   233      22.367  38.839   6.329  1.00 25.00           C
ATOM    234  CA  GLU   234      24.501  36.552   4.260  1.00 25.00           C
ATOM    235  CA  SER   235      27.946  36.323   5.869  1.00 25.00           C
ATOM    236  CA  GLY   236      27.958  35.941   9.700  1.00 25.00           C
ATOM    237  CA  ASP   237      29.609  35.503  13.050  1.00 25.00           C
ATOM    238  CA  VAL   238      29.705  33.844  16.450  1.00 25.00           C
ATOM    239  CA  ALA   239      28.527  31.347  19.061  1.00 25.00           C
ATOM    240  CA  ALA   240      26.844  28.134  20.127  1.00 25.00           C
ATOM    241  CA  VAL   241      26.484  27.984  23.841  1.00 25.00           C
ATOM    242  CA  ILE   242      25.745  24.463  24.977  1.00 25.00           C
ATOM    243  CA  HIS   243      21.947  24.486  24.758  1.00 25.00           C
ATOM    244  CA  PRO   244      20.144  21.274  23.720  1.00 25.00           C
ATOM    245  CA  ASN   245      17.858  18.560  22.238  1.00 25.00           C
ATOM    246  CA  LEU   246      14.853  16.408  23.133  1.00 25.00           C
ATOM    247  CA  GLN   247      14.428  14.234  20.038  1.00 25.00           C
ATOM    248  CA  ASP   248      12.668  11.613  17.927  1.00 25.00           C
ATOM    249  CA  GLN   249      14.242  12.627  14.592  1.00 25.00           C
ATOM    250  CA  ASP   250      17.037  13.802  12.345  1.00 25.00           C
ATOM    251  CA  TRP   251      20.015  13.249  10.063  1.00 25.00           C
ATOM    252  CA  LYS   252      21.780  10.360  11.809  1.00 25.00           C
ATOM    253  CA  PRO   253      23.702  11.982  14.711  1.00 25.00           C
ATOM    254  CA  LEU   254      24.201   9.374  17.382  1.00 25.00           C
ATOM    255  CA  HIS   255      26.558  10.732  20.034  1.00 25.00           C
ATOM    256  CA  PRO   256      26.274  14.466  19.172  1.00 25.00           C
ATOM    257  CA  GLY   257      25.455  16.447  22.314  1.00 25.00           C
ATOM    258  CA  ASP   258      25.593  18.846  25.294  1.00 25.00           C
ATOM    259  CA  PRO   259      25.542  20.610  28.664  1.00 25.00           C
ATOM    260  CA  VAL   260      24.108  24.136  28.960  1.00 25.00           C
ATOM    261  CA  PHE   261      23.438  27.770  28.259  1.00 25.00           C
ATOM    262  CA  VAL   262      26.843  29.381  28.604  1.00 25.00           C
ATOM    263  CA  SER   263      27.677  33.113  28.331  1.00 25.00           C
ATOM    264  CA  LEU   264      30.957  34.644  29.269  1.00 25.00           C
ATOM    265  CA  ASP   265      32.471  37.124  31.714  1.00 25.00           C
ATOM    266  CA  GLY   266      35.925  38.406  32.608  1.00 25.00           C
ATOM    267  CA  LYS   267      34.760  41.286  34.822  1.00 25.00           C
ATOM    268  CA  VAL   268      31.100  42.058  34.204  1.00 25.00           C
ATOM    269  CA  ILE   269      29.499  44.601  31.879  1.00 25.00           C
ATOM    270  CA  PRO   270      26.670  46.917  32.831  1.00 25.00           C
ATOM    271  CA  LEU   271      23.196  47.134  31.364  1.00 25.00           C
ATOM    272  CA  GLY   272      20.931  49.857  32.665  1.00 25.00           C
ATOM    273  CA  GLY   273      19.926  48.772  36.187  1.00 25.00           C
ATOM    274  CA  ASP   274      20.503  45.229  37.482  1.00 25.00           C
ATOM    275  CA  CYS   275      24.307  44.902  37.435  1.00 25.00           C
ATOM    276  CA  THR   276      27.407  42.811  38.246  1.00 25.00           C
ATOM    277  CA  VAL   277      30.541  42.258  40.352  1.00 25.00           C
ATOM    278  CA  TYR   278      31.074  38.832  38.729  1.00 25.00           C
ATOM    279  CA  PRO   279      31.616  35.523  36.854  1.00 25.00           C
ATOM    280  CA  VAL   280      30.982  31.796  37.321  1.00 25.00           C
ATOM    281  CA  PHE   281      28.247  29.766  35.643  1.00 25.00           C
ATOM    282  CA  VAL   282      30.154  26.580  34.727  1.00 25.00           C
ATOM    283  CA  ASN   283      31.222  29.063  32.088  1.00 25.00           C
ATOM    284  CA  GLU   284      31.856  30.362  28.573  1.00 25.00           C
ATOM    285  CA  ALA   285      33.523  28.698  25.553  1.00 25.00           C
ATOM    286  CA  ALA   286      30.771  30.049  23.258  1.00 25.00           C
ATOM    287  CA  TYR   287      31.252  33.561  24.707  1.00 25.00           C
ATOM    288  CA  TYR   288      35.030  33.308  24.132  1.00 25.00           C
ATOM    289  CA  GLU   289      34.431  32.202  20.515  1.00 25.00           C
ATOM    290  CA  LYS   290      32.054  35.155  19.980  1.00 25.00           C
ATOM    291  CA  LYS   291      35.497  36.773  20.164  1.00 25.00           C
ATOM    292  CA  GLU   292      36.733  37.482  23.706  1.00 25.00           C
ATOM    293  CA  ALA   293      35.715  37.409  27.343  1.00 25.00           C
ATOM    294  CA  PHE   294      35.583  33.838  28.504  1.00 25.00           C
ATOM    295  CA  ALA   295      34.817  32.965  32.089  1.00 25.00           C
ATOM    296  CA  LYS   296      35.204  32.809  35.848  1.00 25.00           C
ATOM    297  CA  THR   297      35.396  34.009  39.430  1.00 25.00           C
TER
END
