
#######################################################
#                                                     #
#                        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_4-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS393_4-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      N     241           -
LGA    N     242      N     242           -
LGA    P     243      P     243           -
LGA    A     244      A     244           -
LGA    L     245      L     245           -
LGA    H     246      H     246           -
LGA    -       -      F     247           -
LGA    -       -      E     248           -
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    F     247      R     263           #
LGA    E     248      S     264           -
LGA    W     249      S     265           -
LGA    E     250      -       -           -
LGA    I     251      A     266           #
LGA    I     252      I     267           #
LGA    H     253      N     268          3.691
LGA    A     254      T     269          4.492
LGA    F     255      S     270          1.923
LGA    G     256      P     271          1.563
LGA    K     257      I     272          1.231
LGA    D     258      S     273          2.310
LGA    A     259      V     274          2.737
LGA    E     260      V     275          5.140
LGA    -       -      D     276           -
LGA    G     261      K     277          0.905
LGA    E     262      E     278          0.573
LGA    -       -      R     279           -
LGA    R     263      F     280           #
LGA    S     264      S     281          1.659
LGA    S     265      K     282          4.902
LGA    A     266      Y     283          1.896
LGA    -       -      H     284           -
LGA    I     267      D     285          1.748
LGA    N     268      N     286          1.925
LGA    T     269      Y     287          1.472
LGA    S     270      Y     288          1.887
LGA    P     271      P     289          0.408
LGA    I     272      G     290          3.545
LGA    S     273      W     291          1.723
LGA    V     274      Y     292          2.670
LGA    -       -      L     293           -
LGA    V     275      V     294          0.856
LGA    D     276      D     295          3.100
LGA    K     277      D     296          3.479
LGA    E     278      T     297          0.671
LGA    R     279      L     298          2.435
LGA    F     280      E     299          4.655
LGA    S     281      R     300           #
LGA    K     282      A     301           -
LGA    Y     283      G     302           -
LGA    -       -      R     303           -
LGA    H     284      I     304           #
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     27    2.71    22.22     24.470     0.961

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.823973 * X  +   0.481792 * Y  +   0.298238 * Z  +  -0.398953
  Y_new =   0.203700 * X  +  -0.239288 * Y  +   0.949341 * Z  +  27.693073
  Z_new =   0.528749 * X  +   0.842982 * Y  +   0.099026 * Z  +  16.899340 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.453862   -1.687731  [ DEG:    83.3001    -96.6999 ]
  Theta =  -0.557126   -2.584467  [ DEG:   -31.9210   -148.0790 ]
  Phi   =   2.899235   -0.242357  [ DEG:   166.1139    -13.8861 ]
 
# 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_4-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS393_4-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   27   2.71   22.22  24.470
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS393_4-D2
PFRMAT TS
TARGET T0320
MODEL 4
PARENT N/A
ATOM    228  CA  ASN   228     -23.924  14.476  20.662  1.00 25.00           C
ATOM    229  CA  ASN   229     -24.306  18.303  20.590  1.00 25.00           C
ATOM    230  CA  SER   230     -26.875  18.677  17.831  1.00 25.00           C
ATOM    231  CA  LEU   231     -25.019  17.001  14.953  1.00 25.00           C
ATOM    232  CA  PRO   232     -26.670  18.571  11.911  1.00 25.00           C
ATOM    233  CA  ASN   233     -26.260  22.277  11.153  1.00 25.00           C
ATOM    234  CA  PRO   234     -26.931  21.619   7.522  1.00 25.00           C
ATOM    235  CA  HIS   235     -24.171  22.883   5.221  1.00 25.00           C
ATOM    236  CA  LEU   236     -25.607  25.203   2.506  1.00 25.00           C
ATOM    237  CA  ARG   237     -27.171  28.133   0.741  1.00 25.00           C
ATOM    238  CA  LYS   238     -26.605  31.622  -0.611  1.00 25.00           C
ATOM    239  CA  ASP   239     -24.107  30.034  -2.994  1.00 25.00           C
ATOM    240  CA  SER   240     -21.902  32.976  -3.872  1.00 25.00           C
ATOM    241  CA  ASN   241     -20.004  34.038  -6.909  1.00 25.00           C
ATOM    242  CA  ASN   242     -18.114  37.288  -6.589  1.00 25.00           C
ATOM    243  CA  PRO   243     -16.699  36.335  -3.188  1.00 25.00           C
ATOM    244  CA  ALA   244     -14.236  38.983  -1.935  1.00 25.00           C
ATOM    245  CA  LEU   245     -10.706  37.482  -2.210  1.00 25.00           C
ATOM    246  CA  HIS   246      -8.077  38.565   0.316  1.00 25.00           C
ATOM    247  CA  PHE   247      -4.732  37.202  -0.884  1.00 25.00           C
ATOM    248  CA  GLU   248      -1.080  37.225   0.159  1.00 25.00           C
ATOM    249  CA  TRP   249       2.228  36.491   1.933  1.00 25.00           C
ATOM    250  CA  GLU   250       5.043  34.053   1.321  1.00 25.00           C
ATOM    251  CA  ILE   251       5.656  33.235   4.974  1.00 25.00           C
ATOM    252  CA  ILE   252       7.323  32.671   8.352  1.00 25.00           C
ATOM    253  CA  HIS   253       8.626  29.582   6.501  1.00 25.00           C
ATOM    254  CA  ALA   254      10.863  31.800   4.323  1.00 25.00           C
ATOM    255  CA  PHE   255      12.217  33.547   7.451  1.00 25.00           C
ATOM    256  CA  GLY   256      15.035  34.130   4.907  1.00 25.00           C
ATOM    257  CA  LYS   257      17.722  31.576   4.244  1.00 25.00           C
ATOM    258  CA  ASP   258      21.032  33.262   5.041  1.00 25.00           C
ATOM    259  CA  ALA   259      21.557  35.438   1.919  1.00 25.00           C
ATOM    260  CA  GLU   260      19.691  33.776  -0.949  1.00 25.00           C
ATOM    261  CA  GLY   261      20.613  30.191  -1.925  1.00 25.00           C
ATOM    262  CA  GLU   262      23.646  29.428  -4.092  1.00 25.00           C
ATOM    263  CA  ARG   263      24.245  26.769  -6.764  1.00 25.00           C
ATOM    264  CA  SER   264      22.561  23.919  -4.979  1.00 25.00           C
ATOM    265  CA  SER   265      18.848  23.518  -4.377  1.00 25.00           C
ATOM    266  CA  ALA   266      18.332  19.731  -4.074  1.00 25.00           C
ATOM    267  CA  ILE   267      16.887  17.412  -6.627  1.00 25.00           C
ATOM    268  CA  ASN   268      15.523  15.011  -4.022  1.00 25.00           C
ATOM    269  CA  THR   269      13.375  17.545  -2.195  1.00 25.00           C
ATOM    270  CA  SER   270      11.504  18.548   0.975  1.00 25.00           C
ATOM    271  CA  PRO   271      10.137  19.136   4.462  1.00 25.00           C
ATOM    272  CA  ILE   272      10.683  15.464   5.269  1.00 25.00           C
ATOM    273  CA  SER   273       8.749  15.742   8.503  1.00 25.00           C
ATOM    274  CA  VAL   274       7.314  12.278   8.039  1.00 25.00           C
ATOM    275  CA  VAL   275       8.930  10.833  11.127  1.00 25.00           C
ATOM    276  CA  ASP   276      11.546  10.697  13.908  1.00 25.00           C
ATOM    277  CA  LYS   277      12.650   7.329  12.496  1.00 25.00           C
ATOM    278  CA  GLU   278      15.910   6.328  14.216  1.00 25.00           C
ATOM    279  CA  ARG   279      18.824   8.067  12.450  1.00 25.00           C
ATOM    280  CA  PHE   280      19.188   9.894  15.781  1.00 25.00           C
ATOM    281  CA  SER   281      22.431  11.047  17.455  1.00 25.00           C
ATOM    282  CA  LYS   282      23.315  10.745  21.182  1.00 25.00           C
ATOM    283  CA  TYR   283      26.611  12.344  20.137  1.00 25.00           C
ATOM    284  CA  HIS   284      27.633  15.447  18.204  1.00 25.00           C
ATOM    285  CA  ASP   285      27.415  18.368  15.744  1.00 25.00           C
ATOM    286  CA  ASN   286      27.036  22.069  16.404  1.00 25.00           C
ATOM    287  CA  TYR   287      24.444  23.778  18.596  1.00 25.00           C
ATOM    288  CA  TYR   288      21.416  24.058  20.890  1.00 25.00           C
ATOM    289  CA  PRO   289      17.718  24.080  19.939  1.00 25.00           C
ATOM    290  CA  GLY   290      15.372  25.435  22.570  1.00 25.00           C
ATOM    291  CA  TRP   291      11.815  26.085  21.547  1.00 25.00           C
ATOM    292  CA  TYR   292      10.204  23.811  24.083  1.00 25.00           C
ATOM    293  CA  LEU   293       7.948  21.844  26.394  1.00 25.00           C
ATOM    294  CA  VAL   294       9.374  19.060  28.522  1.00 25.00           C
ATOM    295  CA  ASP   295       8.957  16.464  31.310  1.00 25.00           C
ATOM    296  CA  ASP   296       7.927  13.342  33.143  1.00 25.00           C
ATOM    297  CA  THR   297       4.957  13.965  30.920  1.00 25.00           C
ATOM    298  CA  LEU   298       4.447  12.524  27.409  1.00 25.00           C
ATOM    299  CA  GLU   299       1.657  15.062  26.745  1.00 25.00           C
ATOM    300  CA  ARG   300       3.931  17.907  27.929  1.00 25.00           C
ATOM    301  CA  ALA   301       1.465  20.424  29.261  1.00 25.00           C
ATOM    302  CA  GLY   302      -1.123  21.742  26.797  1.00 25.00           C
ATOM    303  CA  ARG   303      -1.608  19.691  23.626  1.00 25.00           C
ATOM    304  CA  ILE   304      -1.681  20.437  19.933  1.00 25.00           C
TER
END
