
#######################################################
#                                                     #
#                        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   77 (   77),  selected   77 , name T0320TS393_1-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS393_1-D2.T0320_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     228      N     228           -
LGA    N     229      N     229           -
LGA    S     230      S     230           -
LGA    L     231      L     231           -
LGA    P     232      P     232           -
LGA    N     233      N     233           -
LGA    P     234      P     234           -
LGA    H     235      H     235           -
LGA    L     236      L     236           -
LGA    R     237      R     237           -
LGA    K     238      K     238           -
LGA    D     239      D     239           -
LGA    S     240      S     240           -
LGA    N     241      -       -           -
LGA    N     242      -       -           -
LGA    P     243      -       -           -
LGA    A     244      -       -           -
LGA    L     245      -       -           -
LGA    H     246      -       -           -
LGA    F     247      -       -           -
LGA    E     248      -       -           -
LGA    W     249      -       -           -
LGA    E     250      -       -           -
LGA    I     251      N     241           #
LGA    I     252      N     242          4.426
LGA    -       -      P     243           -
LGA    H     253      A     244          3.689
LGA    A     254      L     245           -
LGA    F     255      -       -           -
LGA    G     256      -       -           -
LGA    K     257      -       -           -
LGA    D     258      -       -           -
LGA    A     259      -       -           -
LGA    E     260      -       -           -
LGA    G     261      -       -           -
LGA    E     262      -       -           -
LGA    R     263      -       -           -
LGA    S     264      -       -           -
LGA    S     265      -       -           -
LGA    A     266      -       -           -
LGA    I     267      -       -           -
LGA    N     268      -       -           -
LGA    T     269      -       -           -
LGA    S     270      H     246           #
LGA    P     271      F     247          2.652
LGA    I     272      E     248          3.076
LGA    S     273      W     249          2.056
LGA    -       -      E     250           -
LGA    V     274      I     251          3.749
LGA    V     275      I     252          1.065
LGA    D     276      H     253          1.691
LGA    K     277      A     254          2.423
LGA    E     278      F     255          4.224
LGA    -       -      G     256           -
LGA    R     279      K     257          4.748
LGA    F     280      D     258          4.007
LGA    S     281      R     263           -
LGA    K     282      S     264           -
LGA    Y     283      S     265           -
LGA    H     284      A     266           -
LGA    D     285      I     267           -
LGA    N     286      -       -           -
LGA    Y     287      -       -           -
LGA    Y     288      N     268          4.503
LGA    P     289      T     269          4.976
LGA    G     290      S     270          1.428
LGA    W     291      P     271          2.263
LGA    Y     292      I     272          3.062
LGA    L     293      S     273          1.784
LGA    V     294      -       -           -
LGA    D     295      -       -           -
LGA    D     296      -       -           -
LGA    T     297      -       -           -
LGA    L     298      V     274          3.408
LGA    E     299      V     275          3.770
LGA    R     300      D     276          2.800
LGA    A     301      K     277           #
LGA    G     302      E     278          3.477
LGA    R     303      R     279          4.654
LGA    -       -      F     280           -
LGA    I     304      S     281          3.995
LGA    -       -      K     282           -
LGA    -       -      Y     283           -
LGA    -       -      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    -       -      Y     292           -
LGA    -       -      L     293           -
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      E     299           -
LGA    -       -      R     300           -
LGA    -       -      A     301           -
LGA    -       -      G     302           -
LGA    -       -      R     303           -
LGA    -       -      I     304           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   77   73    5.0     24    3.43     4.17     18.067     0.680

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.619845 * X  +   0.784000 * Y  +  -0.033704 * Z  +   6.415002
  Y_new =   0.559498 * X  +   0.411417 * Y  +  -0.719512 * Z  +  19.540384
  Z_new =  -0.550231 * X  +  -0.464844 * Y  +  -0.693661 * Z  +  -4.165324 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.551196    0.590397  [ DEG:  -146.1728     33.8272 ]
  Theta =   0.582641    2.558951  [ DEG:    33.3829    146.6171 ]
  Phi   =   2.407320   -0.734273  [ DEG:   137.9293    -42.0707 ]
 
# 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: T0320TS393_1-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS393_1-D2.T0320_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   77   73   5.0   24   3.43    4.17  18.067
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS393_1-D2
PFRMAT TS
TARGET T0320
MODEL 1
PARENT N/A
ATOM    228  CA  ASN   228      19.150   1.957 -12.636  1.00 25.00           C
ATOM    229  CA  ASN   229      16.864   4.299 -14.652  1.00 25.00           C
ATOM    230  CA  SER   230      15.125   1.755 -16.898  1.00 25.00           C
ATOM    231  CA  LEU   231      13.834  -1.823 -16.799  1.00 25.00           C
ATOM    232  CA  PRO   232      12.988  -3.218 -20.218  1.00 25.00           C
ATOM    233  CA  ASN   233      11.271   0.130 -20.817  1.00 25.00           C
ATOM    234  CA  PRO   234       7.854  -1.443 -20.872  1.00 25.00           C
ATOM    235  CA  HIS   235       6.512   2.052 -21.020  1.00 25.00           C
ATOM    236  CA  LEU   236       3.018   1.223 -19.788  1.00 25.00           C
ATOM    237  CA  ARG   237       1.967  -1.187 -22.595  1.00 25.00           C
ATOM    238  CA  LYS   238       0.011  -3.941 -24.311  1.00 25.00           C
ATOM    239  CA  ASP   239      -3.584  -2.674 -24.389  1.00 25.00           C
ATOM    240  CA  SER   240      -5.859  -1.732 -21.493  1.00 25.00           C
ATOM    241  CA  ASN   241      -5.793  -5.135 -19.792  1.00 25.00           C
ATOM    242  CA  ASN   242      -7.492  -3.380 -16.947  1.00 25.00           C
ATOM    243  CA  PRO   243      -7.104  -1.543 -13.631  1.00 25.00           C
ATOM    244  CA  ALA   244      -7.620   2.272 -13.622  1.00 25.00           C
ATOM    245  CA  LEU   245      -3.950   2.810 -14.245  1.00 25.00           C
ATOM    246  CA  HIS   246      -2.478   0.613 -11.538  1.00 25.00           C
ATOM    247  CA  PHE   247      -1.004   3.101  -9.072  1.00 25.00           C
ATOM    248  CA  GLU   248      -0.698   0.512  -6.335  1.00 25.00           C
ATOM    249  CA  TRP   249      -0.077   3.403  -4.053  1.00 25.00           C
ATOM    250  CA  GLU   250       3.602   2.734  -3.541  1.00 25.00           C
ATOM    251  CA  ILE   251       4.244   6.482  -3.428  1.00 25.00           C
ATOM    252  CA  ILE   252       4.296   6.015   0.370  1.00 25.00           C
ATOM    253  CA  HIS   253       2.523   6.754   3.683  1.00 25.00           C
ATOM    254  CA  ALA   254       1.100   3.199   3.742  1.00 25.00           C
ATOM    255  CA  PHE   255       4.590   1.765   3.088  1.00 25.00           C
ATOM    256  CA  GLY   256       4.453  -1.418   5.241  1.00 25.00           C
ATOM    257  CA  LYS   257       1.691  -1.680   7.843  1.00 25.00           C
ATOM    258  CA  ASP   258       0.680  -5.337   8.137  1.00 25.00           C
ATOM    259  CA  ALA   259      -3.050  -4.891   8.699  1.00 25.00           C
ATOM    260  CA  GLU   260      -4.844  -3.728  11.870  1.00 25.00           C
ATOM    261  CA  GLY   261      -1.432  -3.776  13.483  1.00 25.00           C
ATOM    262  CA  GLU   262      -1.074  -0.004  13.678  1.00 25.00           C
ATOM    263  CA  ARG   263      -1.997   0.389  17.353  1.00 25.00           C
ATOM    264  CA  SER   264       1.286   2.381  17.365  1.00 25.00           C
ATOM    265  CA  SER   265       4.050   3.095  19.821  1.00 25.00           C
ATOM    266  CA  ALA   266       1.803   5.941  20.951  1.00 25.00           C
ATOM    267  CA  ILE   267       2.477   9.670  21.586  1.00 25.00           C
ATOM    268  CA  ASN   268       1.405  13.209  20.699  1.00 25.00           C
ATOM    269  CA  THR   269       4.157  13.140  18.039  1.00 25.00           C
ATOM    270  CA  SER   270       4.266  15.630  15.165  1.00 25.00           C
ATOM    271  CA  PRO   271       2.706  14.766  11.791  1.00 25.00           C
ATOM    272  CA  ILE   272       0.849  17.414   9.870  1.00 25.00           C
ATOM    273  CA  SER   273      -2.601  18.751  10.657  1.00 25.00           C
ATOM    274  CA  VAL   274      -2.583  20.683   7.346  1.00 25.00           C
ATOM    275  CA  VAL   275      -5.407  22.826   8.536  1.00 25.00           C
ATOM    276  CA  ASP   276      -6.383  24.969  11.514  1.00 25.00           C
ATOM    277  CA  LYS   277      -4.762  25.505  14.899  1.00 25.00           C
ATOM    278  CA  GLU   278      -7.151  27.935  16.613  1.00 25.00           C
ATOM    279  CA  ARG   279      -8.582  30.346  14.061  1.00 25.00           C
ATOM    280  CA  PHE   280      -7.514  33.323  11.956  1.00 25.00           C
ATOM    281  CA  SER   281      -6.561  36.495  13.773  1.00 25.00           C
ATOM    282  CA  LYS   282      -5.955  36.908  17.479  1.00 25.00           C
ATOM    283  CA  TYR   283      -2.515  35.509  16.814  1.00 25.00           C
ATOM    284  CA  HIS   284      -1.090  38.987  16.131  1.00 25.00           C
ATOM    285  CA  ASP   285       1.141  40.382  13.367  1.00 25.00           C
ATOM    286  CA  ASN   286       4.047  38.005  12.671  1.00 25.00           C
ATOM    287  CA  TYR   287       5.333  35.117  14.826  1.00 25.00           C
ATOM    288  CA  TYR   288       6.055  32.362  12.286  1.00 25.00           C
ATOM    289  CA  PRO   289       9.776  31.714  11.662  1.00 25.00           C
ATOM    290  CA  GLY   290      12.485  30.945   9.048  1.00 25.00           C
ATOM    291  CA  TRP   291      13.095  31.045   5.289  1.00 25.00           C
ATOM    292  CA  TYR   292      16.715  30.659   6.369  1.00 25.00           C
ATOM    293  CA  LEU   293      19.318  32.234   4.052  1.00 25.00           C
ATOM    294  CA  VAL   294      21.876  33.875   6.298  1.00 25.00           C
ATOM    295  CA  ASP   295      25.380  33.235   7.622  1.00 25.00           C
ATOM    296  CA  ASP   296      27.903  33.717   4.810  1.00 25.00           C
ATOM    297  CA  THR   297      26.930  34.101   1.138  1.00 25.00           C
ATOM    298  CA  LEU   298      23.920  36.141  -0.064  1.00 25.00           C
ATOM    299  CA  GLU   299      23.457  33.758  -3.025  1.00 25.00           C
ATOM    300  CA  ARG   300      23.603  30.750  -0.660  1.00 25.00           C
ATOM    301  CA  ALA   301      27.133  29.814  -1.627  1.00 25.00           C
ATOM    302  CA  GLY   302      26.397  30.418  -5.262  1.00 25.00           C
ATOM    303  CA  ARG   303      26.663  26.674  -5.589  1.00 25.00           C
ATOM    304  CA  ILE   304      24.784  23.696  -6.969  1.00 25.00           C
TER
END
