
#######################################################
#                                                     #
#                        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 T0320TS599_3-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS599_3-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           -
LGA    -       -      S     230           -
LGA    N     229      L     231           #
LGA    S     230      -       -           -
LGA    L     231      -       -           -
LGA    P     232      P     232          4.861
LGA    N     233      N     233           #
LGA    P     234      P     234          1.950
LGA    H     235      H     235          3.428
LGA    L     236      L     236           #
LGA    R     237      R     237           #
LGA    K     238      K     238           -
LGA    D     239      -       -           -
LGA    S     240      -       -           -
LGA    N     241      -       -           -
LGA    N     242      -       -           -
LGA    P     243      -       -           -
LGA    A     244      -       -           -
LGA    L     245      D     239          3.638
LGA    H     246      S     240          2.914
LGA    F     247      N     241          1.118
LGA    E     248      N     242          1.298
LGA    W     249      P     243          1.113
LGA    E     250      A     244          0.542
LGA    I     251      L     245          2.205
LGA    I     252      H     246          2.589
LGA    H     253      -       -           -
LGA    A     254      -       -           -
LGA    F     255      F     247          1.633
LGA    G     256      E     248          1.136
LGA    K     257      W     249          0.360
LGA    D     258      E     250          1.379
LGA    A     259      I     251          1.744
LGA    E     260      I     252          1.097
LGA    G     261      H     253          1.539
LGA    E     262      A     254          2.494
LGA    R     263      F     255           #
LGA    S     264      G     256           -
LGA    S     265      K     257          3.734
LGA    A     266      D     258          5.150
LGA    I     267      R     263          3.546
LGA    N     268      S     264           #
LGA    T     269      -       -           -
LGA    S     270      -       -           -
LGA    P     271      -       -           -
LGA    I     272      -       -           -
LGA    S     273      S     265          3.638
LGA    V     274      A     266          0.596
LGA    V     275      I     267          2.155
LGA    D     276      N     268          4.813
LGA    K     277      T     269          4.840
LGA    E     278      S     270           -
LGA    R     279      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    F     280      P     289          3.766
LGA    S     281      G     290          2.920
LGA    K     282      W     291          3.452
LGA    Y     283      Y     292          2.473
LGA    H     284      L     293          3.853
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    D     285      L     298           #
LGA    N     286      E     299          3.344
LGA    -       -      R     300           -
LGA    Y     287      A     301           #
LGA    Y     288      G     302           -
LGA    P     289      R     303           -
LGA    G     290      I     304           -
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     33    2.91    18.18     28.943     1.095

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.761754 * X  +  -0.243102 * Y  +  -0.600527 * Z  +   3.106506
  Y_new =  -0.246562 * X  +  -0.965961 * Y  +   0.078277 * Z  +  14.504266
  Z_new =  -0.599115 * X  +   0.088440 * Y  +  -0.795764 * Z  +   1.523991 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.030909   -0.110684  [ DEG:   173.6583     -6.3417 ]
  Theta =   0.642395    2.499197  [ DEG:    36.8065    143.1935 ]
  Phi   =  -0.313035    2.828558  [ DEG:   -17.9356    162.0644 ]
 
# 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: T0320TS599_3-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_3-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   33   2.91   18.18  28.943
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_3-D2
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    228  CA  ASN   228      13.563  23.165  -0.865  1.00  0.00              
ATOM    229  CA  ASN   229      16.218  22.626   1.853  1.00  0.00              
ATOM    230  CA  SER   230      14.415  19.910   3.701  1.00  0.00              
ATOM    231  CA  LEU   231      14.158  17.621   0.779  1.00  0.00              
ATOM    232  CA  PRO   232      17.611  17.422  -0.715  1.00  0.00              
ATOM    233  CA  ASN   233      17.971  13.712  -1.603  1.00  0.00              
ATOM    234  CA  PRO   234      20.168  12.525   1.146  1.00  0.00              
ATOM    235  CA  HIS   235      18.561   9.093   1.769  1.00  0.00              
ATOM    236  CA  LEU   236      16.741   8.578  -1.557  1.00  0.00              
ATOM    237  CA  ARG   237      14.935   5.407  -2.014  1.00  0.00              
ATOM    238  CA  LYS   238      13.922   4.736  -5.840  1.00  0.00              
ATOM    239  CA  ASP   239      11.433   2.112  -6.230  1.00  0.00              
ATOM    240  CA  SER   240      10.877   2.170  -9.826  1.00  0.00              
ATOM    241  CA  ASN   241      13.347   0.561 -12.099  1.00  0.00              
ATOM    242  CA  ASN   242      15.307   3.437 -13.421  1.00  0.00              
ATOM    243  CA  PRO   243      16.984   4.221 -10.086  1.00  0.00              
ATOM    244  CA  ALA   244      15.723   7.706  -9.671  1.00  0.00              
ATOM    245  CA  LEU   245      15.104   7.884  -5.919  1.00  0.00              
ATOM    246  CA  HIS   246      12.140  10.154  -4.716  1.00  0.00              
ATOM    247  CA  PHE   247      10.844   9.276  -1.310  1.00  0.00              
ATOM    248  CA  GLU   248       7.294  10.173  -0.303  1.00  0.00              
ATOM    249  CA  TRP   249       6.620  10.748   3.278  1.00  0.00              
ATOM    250  CA  GLU   250       3.160   9.950   4.805  1.00  0.00              
ATOM    251  CA  ILE   251       2.075  12.408   7.877  1.00  0.00              
ATOM    252  CA  ILE   252       0.793  10.665  10.809  1.00  0.00              
ATOM    253  CA  HIS   253      -2.647  11.908  11.643  1.00  0.00              
ATOM    254  CA  ALA   254      -1.805  14.203  14.500  1.00  0.00              
ATOM    255  CA  PHE   255       0.631  16.271  12.488  1.00  0.00              
ATOM    256  CA  GLY   256      -1.458  17.056   9.492  1.00  0.00              
ATOM    257  CA  LYS   257      -4.292  18.142  11.738  1.00  0.00              
ATOM    258  CA  ASP   258      -2.910  20.512  14.195  1.00  0.00              
ATOM    259  CA  ALA   259      -0.962  22.730  11.938  1.00  0.00              
ATOM    260  CA  GLU   260      -3.467  22.896   9.069  1.00  0.00              
ATOM    261  CA  GLY   261      -6.367  24.099  11.251  1.00  0.00              
ATOM    262  CA  GLU   262      -4.328  26.980  12.634  1.00  0.00              
ATOM    263  CA  ARG   263      -3.004  28.017   9.224  1.00  0.00              
ATOM    264  CA  SER   264      -6.310  27.944   7.565  1.00  0.00              
ATOM    265  CA  SER   265      -7.767  30.129  10.261  1.00  0.00              
ATOM    266  CA  ALA   266      -5.201  32.838  10.099  1.00  0.00              
ATOM    267  CA  ILE   267      -4.543  33.194   6.496  1.00  0.00              
ATOM    268  CA  ASN   268      -7.939  32.589   4.978  1.00  0.00              
ATOM    269  CA  THR   269      -7.358  32.342   1.248  1.00  0.00              
ATOM    270  CA  SER   270      -8.680  28.874   0.522  1.00  0.00              
ATOM    271  CA  PRO   271      -5.833  27.337  -1.526  1.00  0.00              
ATOM    272  CA  ILE   272      -2.952  29.063   0.114  1.00  0.00              
ATOM    273  CA  SER   273      -0.517  26.447   1.663  1.00  0.00              
ATOM    274  CA  VAL   274       1.353  27.734   4.526  1.00  0.00              
ATOM    275  CA  VAL   275       3.847  25.120   5.653  1.00  0.00              
ATOM    276  CA  ASP   276       4.597  24.987   9.347  1.00  0.00              
ATOM    277  CA  LYS   277       8.390  24.921   9.871  1.00  0.00              
ATOM    278  CA  GLU   278       8.018  22.346  12.663  1.00  0.00              
ATOM    279  CA  ARG   279       6.259  19.770  10.470  1.00  0.00              
ATOM    280  CA  PHE   280       8.872  19.954   7.637  1.00  0.00              
ATOM    281  CA  SER   281      11.861  19.479   9.984  1.00  0.00              
ATOM    282  CA  LYS   282      10.420  16.364  11.770  1.00  0.00              
ATOM    283  CA  TYR   283       9.405  14.402   8.699  1.00  0.00              
ATOM    284  CA  HIS   284      12.730  15.095   6.887  1.00  0.00              
ATOM    285  CA  ASP   285      15.421  14.562   9.578  1.00  0.00              
ATOM    286  CA  ASN   286      15.445  10.930   9.706  1.00  0.00              
ATOM    287  CA  TYR   287      15.301   9.845   6.064  1.00  0.00              
ATOM    288  CA  TYR   288      12.822   6.934   6.140  1.00  0.00              
ATOM    289  CA  PRO   289      10.964   6.716   2.871  1.00  0.00              
ATOM    290  CA  GLY   290       7.262   6.372   3.369  1.00  0.00              
ATOM    291  CA  TRP   291       5.083   6.671   0.267  1.00  0.00              
ATOM    292  CA  TYR   292       1.934   8.278   0.666  1.00  0.00              
ATOM    293  CA  LEU   293      -0.331   7.623  -2.465  1.00  0.00              
ATOM    294  CA  VAL   294      -2.423  10.596  -3.735  1.00  0.00              
ATOM    295  CA  ASP   295      -5.902  10.213  -4.918  1.00  0.00              
ATOM    296  CA  ASP   296      -4.830  10.551  -8.584  1.00  0.00              
ATOM    297  CA  THR   297      -2.170   7.885  -8.214  1.00  0.00              
ATOM    298  CA  LEU   298      -4.187   5.440  -6.304  1.00  0.00              
ATOM    299  CA  GLU   299      -7.042   5.695  -8.775  1.00  0.00              
ATOM    300  CA  ARG   300      -4.704   5.181 -11.720  1.00  0.00              
ATOM    301  CA  ALA   301      -3.166   2.046 -10.048  1.00  0.00              
ATOM    302  CA  GLY   302      -6.460   0.435  -9.228  1.00  0.00              
ATOM    303  CA  ARG   303      -8.322   0.322 -12.484  1.00  0.00              
ATOM    304  CA  ILE   304      -5.198  -1.923 -14.182  1.00  0.00              
TER                                                                             
END
