
#######################################################
#                                                     #
#                        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_5-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS393_5-D2.T0320_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    -       -      P     232           -
LGA    -       -      N     233           -
LGA    -       -      P     234           -
LGA    -       -      H     235           -
LGA    -       -      L     236           -
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      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           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    N     228      S     264          4.187
LGA    N     229      S     265          4.490
LGA    S     230      A     266          2.441
LGA    L     231      I     267          1.298
LGA    P     232      N     268          3.960
LGA    N     233      T     269          1.388
LGA    P     234      S     270          1.611
LGA    H     235      P     271          1.710
LGA    L     236      I     272          0.789
LGA    R     237      S     273          2.727
LGA    K     238      V     274          4.467
LGA    D     239      V     275          4.221
LGA    S     240      D     276          3.029
LGA    N     241      K     277          2.840
LGA    N     242      E     278          2.418
LGA    P     243      R     279          3.165
LGA    A     244      F     280          3.630
LGA    L     245      S     281          2.535
LGA    H     246      K     282          3.944
LGA    F     247      Y     283          2.225
LGA    E     248      H     284          2.723
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    W     249      Y     287          0.682
LGA    E     250      Y     288           #
LGA    I     251      P     289           #
LGA    I     252      G     290           -
LGA    -       -      W     291           -
LGA    H     253      Y     292           #
LGA    A     254      L     293           #
LGA    F     255      V     294           -
LGA    G     256      D     295           -
LGA    K     257      D     296           -
LGA    D     258      T     297           -
LGA    A     259      L     298           -
LGA    E     260      E     299           -
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      -       -           -
LGA    P     271      -       -           -
LGA    I     272      -       -           -
LGA    S     273      -       -           -
LGA    V     274      -       -           -
LGA    V     275      -       -           -
LGA    D     276      -       -           -
LGA    K     277      -       -           -
LGA    E     278      -       -           -
LGA    R     279      -       -           -
LGA    F     280      -       -           -
LGA    S     281      -       -           -
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      R     300          4.350
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     23    3.05     0.00     19.336     0.730

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.847835 * X  +  -0.503158 * Y  +  -0.167355 * Z  +  17.660238
  Y_new =  -0.045002 * X  +   0.246195 * Y  +  -0.968175 * Z  +   7.248393
  Z_new =   0.528347 * X  +   0.828384 * Y  +   0.186090 * Z  +   0.897571 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.349823   -1.791770  [ DEG:    77.3392   -102.6608 ]
  Theta =  -0.556653   -2.584940  [ DEG:   -31.8938   -148.1062 ]
  Phi   =  -0.053029    3.088564  [ DEG:    -3.0383    176.9617 ]
 
# 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_5-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS393_5-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   23   3.05    0.00  19.336
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS393_5-D2
PFRMAT TS
TARGET T0320
MODEL 5
PARENT N/A
ATOM    228  CA  ASN   228      -1.203  25.144   4.261  1.00 25.00           C
ATOM    229  CA  ASN   229       0.844  28.183   3.314  1.00 25.00           C
ATOM    230  CA  SER   230       1.545  28.346   7.076  1.00 25.00           C
ATOM    231  CA  LEU   231       4.492  26.162   6.068  1.00 25.00           C
ATOM    232  CA  PRO   232       5.908  29.437   4.775  1.00 25.00           C
ATOM    233  CA  ASN   233       8.008  29.473   7.871  1.00 25.00           C
ATOM    234  CA  PRO   234      11.445  30.614   8.989  1.00 25.00           C
ATOM    235  CA  HIS   235      13.422  32.152   6.176  1.00 25.00           C
ATOM    236  CA  LEU   236      16.177  31.682   3.505  1.00 25.00           C
ATOM    237  CA  ARG   237      18.527  33.908   5.444  1.00 25.00           C
ATOM    238  CA  LYS   238      21.937  34.229   3.924  1.00 25.00           C
ATOM    239  CA  ASP   239      20.556  34.015   0.339  1.00 25.00           C
ATOM    240  CA  SER   240      20.024  30.238   0.166  1.00 25.00           C
ATOM    241  CA  ASN   241      23.151  28.776  -1.529  1.00 25.00           C
ATOM    242  CA  ASN   242      26.022  29.143  -3.930  1.00 25.00           C
ATOM    243  CA  PRO   243      26.503  25.418  -3.842  1.00 25.00           C
ATOM    244  CA  ALA   244      23.058  24.157  -4.996  1.00 25.00           C
ATOM    245  CA  LEU   245      20.375  23.914  -7.693  1.00 25.00           C
ATOM    246  CA  HIS   246      19.143  20.753  -5.972  1.00 25.00           C
ATOM    247  CA  PHE   247      18.596  20.525  -2.230  1.00 25.00           C
ATOM    248  CA  GLU   248      14.846  21.104  -2.567  1.00 25.00           C
ATOM    249  CA  TRP   249      14.123  17.636  -1.303  1.00 25.00           C
ATOM    250  CA  GLU   250      13.518  16.389  -4.785  1.00 25.00           C
ATOM    251  CA  ILE   251      12.430  13.092  -3.248  1.00 25.00           C
ATOM    252  CA  ILE   252       9.815  11.682  -5.693  1.00 25.00           C
ATOM    253  CA  HIS   253       7.172  13.103  -3.314  1.00 25.00           C
ATOM    254  CA  ALA   254       8.568  16.632  -3.831  1.00 25.00           C
ATOM    255  CA  PHE   255       8.453  16.147  -7.628  1.00 25.00           C
ATOM    256  CA  GLY   256       6.894  18.435 -10.213  1.00 25.00           C
ATOM    257  CA  LYS   257       4.994  21.103 -12.164  1.00 25.00           C
ATOM    258  CA  ASP   258       6.941  21.002 -15.427  1.00 25.00           C
ATOM    259  CA  ALA   259       3.613  20.766 -17.257  1.00 25.00           C
ATOM    260  CA  GLU   260       0.734  21.208 -14.897  1.00 25.00           C
ATOM    261  CA  GLY   261      -2.752  20.649 -13.467  1.00 25.00           C
ATOM    262  CA  GLU   262      -5.425  17.984 -14.222  1.00 25.00           C
ATOM    263  CA  ARG   263      -4.418  16.416 -17.488  1.00 25.00           C
ATOM    264  CA  SER   264      -7.060  13.920 -18.544  1.00 25.00           C
ATOM    265  CA  SER   265      -9.962  14.538 -16.170  1.00 25.00           C
ATOM    266  CA  ALA   266     -13.301  13.624 -14.649  1.00 25.00           C
ATOM    267  CA  ILE   267     -13.689  10.117 -13.426  1.00 25.00           C
ATOM    268  CA  ASN   268     -13.603   6.616 -12.020  1.00 25.00           C
ATOM    269  CA  THR   269     -11.982   7.456  -8.683  1.00 25.00           C
ATOM    270  CA  SER   270      -8.638   6.846  -6.928  1.00 25.00           C
ATOM    271  CA  PRO   271      -6.939   4.535  -4.366  1.00 25.00           C
ATOM    272  CA  ILE   272      -5.730   0.942  -4.074  1.00 25.00           C
ATOM    273  CA  SER   273      -5.002  -2.793  -4.051  1.00 25.00           C
ATOM    274  CA  VAL   274      -2.235  -3.446  -1.531  1.00 25.00           C
ATOM    275  CA  VAL   275      -2.403  -6.138   1.180  1.00 25.00           C
ATOM    276  CA  ASP   276      -4.514  -8.088   3.627  1.00 25.00           C
ATOM    277  CA  LYS   277      -8.254  -8.673   3.881  1.00 25.00           C
ATOM    278  CA  GLU   278      -7.489 -12.092   5.377  1.00 25.00           C
ATOM    279  CA  ARG   279      -7.699 -13.846   1.968  1.00 25.00           C
ATOM    280  CA  PHE   280      -4.140 -13.912   0.736  1.00 25.00           C
ATOM    281  CA  SER   281      -3.430 -17.033   2.781  1.00 25.00           C
ATOM    282  CA  LYS   282      -0.011 -16.130   4.285  1.00 25.00           C
ATOM    283  CA  TYR   283       0.181 -17.215   7.924  1.00 25.00           C
ATOM    284  CA  HIS   284      -1.627 -19.748  10.155  1.00 25.00           C
ATOM    285  CA  ASP   285      -0.693 -19.571  13.839  1.00 25.00           C
ATOM    286  CA  ASN   286       2.982 -19.262  12.856  1.00 25.00           C
ATOM    287  CA  TYR   287       3.966 -15.636  12.661  1.00 25.00           C
ATOM    288  CA  TYR   288       7.511 -14.319  12.779  1.00 25.00           C
ATOM    289  CA  PRO   289       7.049 -12.860  16.293  1.00 25.00           C
ATOM    290  CA  GLY   290       9.934 -10.483  16.273  1.00 25.00           C
ATOM    291  CA  TRP   291      11.117  -6.887  15.975  1.00 25.00           C
ATOM    292  CA  TYR   292      12.767  -5.975  19.265  1.00 25.00           C
ATOM    293  CA  LEU   293      15.140  -3.235  20.454  1.00 25.00           C
ATOM    294  CA  VAL   294      15.287  -2.192  24.096  1.00 25.00           C
ATOM    295  CA  ASP   295      18.770  -2.199  25.614  1.00 25.00           C
ATOM    296  CA  ASP   296      20.141  -0.166  28.489  1.00 25.00           C
ATOM    297  CA  THR   297      21.908   2.249  26.184  1.00 25.00           C
ATOM    298  CA  LEU   298      18.997   4.662  25.574  1.00 25.00           C
ATOM    299  CA  GLU   299      21.196   6.764  23.246  1.00 25.00           C
ATOM    300  CA  ARG   300      22.220   3.612  21.327  1.00 25.00           C
ATOM    301  CA  ALA   301      25.583   5.022  20.356  1.00 25.00           C
ATOM    302  CA  GLY   302      25.724   8.815  19.922  1.00 25.00           C
ATOM    303  CA  ARG   303      25.603  12.371  18.546  1.00 25.00           C
ATOM    304  CA  ILE   304      23.173  11.966  15.628  1.00 25.00           C
TER
END
