
#######################################################
#                                                     #
#                        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   81 (   81),  selected   81 , name T0386TS599_2-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS599_2-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     219      N     219           -
LGA    P     220      P     220           -
LGA    E     221      E     221           -
LGA    K     222      K     222           -
LGA    I     223      I     223           -
LGA    R     224      R     224           -
LGA    L     225      L     225           -
LGA    L     226      L     226           -
LGA    K     227      K     227           -
LGA    E     228      E     228           -
LGA    F     229      F     229           -
LGA    -       -      M     230           -
LGA    -       -      H     231           -
LGA    M     230      T     232           #
LGA    -       -      M     233           -
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    H     231      T     236           #
LGA    T     232      G     237           -
LGA    M     233      -       -           -
LGA    K     234      R     238          2.687
LGA    N     235      N     239          4.453
LGA    T     236      -       -           -
LGA    G     237      V     240          2.715
LGA    R     238      N     241          2.447
LGA    N     239      D     242          0.456
LGA    V     240      R     243          2.148
LGA    N     241      -       -           -
LGA    D     242      -       -           -
LGA    R     243      P     244          1.562
LGA    P     244      V     245          0.904
LGA    V     245      M     246          1.324
LGA    M     246      V     247          1.197
LGA    V     247      A     248          1.576
LGA    A     248      K     249           -
LGA    K     249      -       -           -
LGA    E     250      -       -           -
LGA    G     251      E     250          2.149
LGA    E     252      -       -           -
LGA    T     253      G     251           #
LGA    Y     254      E     252           -
LGA    T     255      T     253           -
LGA    G     256      Y     254           -
LGA    T     257      T     255           -
LGA    Y     258      G     256           -
LGA    R     259      T     257           -
LGA    G     260      Y     258           -
LGA    -       -      R     259           -
LGA    -       -      G     260           -
LGA    -       -      A     261           -
LGA    A     261      G     262           #
LGA    G     262      L     263          4.394
LGA    L     263      E     264          2.279
LGA    E     264      -       -           -
LGA    G     265      G     265           #
LGA    F     266      F     266          1.444
LGA    A     267      A     267          3.274
LGA    L     268      L     268          2.286
LGA    N     269      N     269          1.477
LGA    V     270      V     270          4.568
LGA    K     271      K     271          2.655
LGA    G     272      G     272          3.253
LGA    A     273      A     273          2.439
LGA    -       -      Y     274           -
LGA    Y     274      I     275          1.909
LGA    I     275      I     276          1.948
LGA    I     276      G     277          2.983
LGA    G     277      N     278          3.090
LGA    N     278      I     279          3.328
LGA    I     279      D     280          1.165
LGA    D     280      H     281          2.713
LGA    H     281      L     282          3.362
LGA    L     282      P     283          1.770
LGA    P     283      P     284          3.018
LGA    P     284      -       -           -
LGA    E     285      E     285          3.315
LGA    Q     286      Q     286          3.183
LGA    L     287      L     287          4.813
LGA    K     288      -       -           -
LGA    I     289      -       -           -
LGA    L     290      K     288          1.676
LGA    K     291      I     289           -
LGA    P     292      -       -           -
LGA    G     293      -       -           -
LGA    D     294      -       -           -
LGA    K     295      L     290           #
LGA    I     296      K     291          5.220
LGA    T     297      P     292          4.053
LGA    F     298      G     293          4.019
LGA    T     299      D     294           -
LGA    -       -      K     295           -
LGA    -       -      I     296           -
LGA    -       -      T     297           -
LGA    -       -      F     298           -
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   81   81    5.0     39    2.88    35.90     28.928     1.308

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.248385 * X  +  -0.876434 * Y  +  -0.412515 * Z  +  18.813570
  Y_new =   0.278266 * X  +  -0.343351 * Y  +   0.897038 * Z  +  64.032570
  Z_new =  -0.927832 * X  +  -0.337600 * Y  +   0.158598 * Z  +  83.808945 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.131615    2.009978  [ DEG:   -64.8367    115.1633 ]
  Theta =   1.188558    1.953034  [ DEG:    68.0994    111.9006 ]
  Phi   =   0.842074   -2.299518  [ DEG:    48.2473   -131.7527 ]
 
# 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: T0386TS599_2-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_2-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   81   81   5.0   39   2.88   35.90  28.928
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_2-D2
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM    219  CA  ASN   219      29.871  71.358  94.082  1.00  0.00              
ATOM    220  CA  PRO   220      32.344  72.654  91.478  1.00  0.00              
ATOM    221  CA  GLU   221      33.777  69.528  89.977  1.00  0.00              
ATOM    222  CA  LYS   222      30.377  68.084  89.099  1.00  0.00              
ATOM    223  CA  ILE   223      29.008  71.382  87.819  1.00  0.00              
ATOM    224  CA  ARG   224      31.815  72.468  85.451  1.00  0.00              
ATOM    225  CA  LEU   225      31.784  69.061  83.855  1.00  0.00              
ATOM    226  CA  LEU   226      28.071  68.667  83.468  1.00  0.00              
ATOM    227  CA  LYS   227      27.879  72.109  81.811  1.00  0.00              
ATOM    228  CA  GLU   228      30.581  71.132  79.311  1.00  0.00              
ATOM    229  CA  PHE   229      28.738  67.873  78.505  1.00  0.00              
ATOM    230  CA  MET   230      25.420  69.644  78.025  1.00  0.00              
ATOM    231  CA  HIS   231      27.158  72.169  75.716  1.00  0.00              
ATOM    232  CA  THR   232      28.536  69.352  73.571  1.00  0.00              
ATOM    233  CA  MET   233      25.066  67.774  73.384  1.00  0.00              
ATOM    234  CA  LYS   234      23.510  71.062  72.211  1.00  0.00              
ATOM    235  CA  ASN   235      26.176  71.541  69.470  1.00  0.00              
ATOM    236  CA  THR   236      25.631  68.043  68.283  1.00  0.00              
ATOM    237  CA  GLY   237      21.881  68.926  68.291  1.00  0.00              
ATOM    238  CA  ARG   238      21.404  66.848  65.259  1.00  0.00              
ATOM    239  CA  ASN   239      23.261  63.922  66.935  1.00  0.00              
ATOM    240  CA  VAL   240      21.186  64.212  70.132  1.00  0.00              
ATOM    241  CA  ASN   241      17.801  64.246  68.322  1.00  0.00              
ATOM    242  CA  ASP   242      18.714  60.951  66.647  1.00  0.00              
ATOM    243  CA  ARG   243      19.867  59.314  69.915  1.00  0.00              
ATOM    244  CA  PRO   244      17.479  59.999  72.738  1.00  0.00              
ATOM    245  CA  VAL   245      16.584  57.196  75.169  1.00  0.00              
ATOM    246  CA  MET   246      13.939  57.714  77.812  1.00  0.00              
ATOM    247  CA  VAL   247      13.799  55.265  80.790  1.00  0.00              
ATOM    248  CA  ALA   248      10.845  55.405  83.117  1.00  0.00              
ATOM    249  CA  LYS   249      10.933  54.375  86.783  1.00  0.00              
ATOM    250  CA  GLU   250       9.037  51.146  85.995  1.00  0.00              
ATOM    251  CA  GLY   251      11.466  49.850  83.440  1.00  0.00              
ATOM    252  CA  GLU   252       9.815  50.992  80.225  1.00  0.00              
ATOM    253  CA  THR   253      12.190  51.962  77.514  1.00  0.00              
ATOM    254  CA  TYR   254      11.202  55.126  75.602  1.00  0.00              
ATOM    255  CA  THR   255      12.898  56.502  72.573  1.00  0.00              
ATOM    256  CA  GLY   256      12.273  60.199  72.386  1.00  0.00              
ATOM    257  CA  THR   257      14.172  63.071  71.246  1.00  0.00              
ATOM    258  CA  TYR   258      13.422  65.704  73.957  1.00  0.00              
ATOM    259  CA  ARG   259      11.388  63.893  76.490  1.00  0.00              
ATOM    260  CA  GLY   260       9.962  66.677  78.680  1.00  0.00              
ATOM    261  CA  ALA   261       7.808  65.513  81.622  1.00  0.00              
ATOM    262  CA  GLY   262      10.104  65.348  84.593  1.00  0.00              
ATOM    263  CA  LEU   263       7.734  65.523  87.488  1.00  0.00              
ATOM    264  CA  GLU   264       9.239  63.295  90.111  1.00  0.00              
ATOM    265  CA  GLY   265      12.963  63.571  89.822  1.00  0.00              
ATOM    266  CA  PHE   266      14.716  63.735  86.464  1.00  0.00              
ATOM    267  CA  ALA   267      18.131  62.287  85.963  1.00  0.00              
ATOM    268  CA  LEU   268      19.978  63.128  82.844  1.00  0.00              
ATOM    269  CA  ASN   269      22.720  60.880  81.636  1.00  0.00              
ATOM    270  CA  VAL   270      24.915  62.108  78.952  1.00  0.00              
ATOM    271  CA  LYS   271      26.656  59.650  76.675  1.00  0.00              
ATOM    272  CA  GLY   272      24.271  59.707  73.654  1.00  0.00              
ATOM    273  CA  ALA   273      21.303  61.179  75.583  1.00  0.00              
ATOM    274  CA  TYR   274      19.770  59.083  78.324  1.00  0.00              
ATOM    275  CA  ILE   275      16.825  60.418  80.376  1.00  0.00              
ATOM    276  CA  ILE   276      15.998  58.639  83.541  1.00  0.00              
ATOM    277  CA  GLY   277      12.832  59.324  85.216  1.00  0.00              
ATOM    278  CA  ASN   278      12.498  58.346  88.728  1.00  0.00              
ATOM    279  CA  ILE   279       9.307  59.042  90.372  1.00  0.00              
ATOM    280  CA  ASP   280       8.319  55.537  91.279  1.00  0.00              
ATOM    281  CA  HIS   281      11.628  54.577  92.883  1.00  0.00              
ATOM    282  CA  LEU   282      12.240  57.383  95.217  1.00  0.00              
ATOM    283  CA  PRO   283      12.368  56.780  98.925  1.00  0.00              
ATOM    284  CA  PRO   284      10.731  59.282 101.184  1.00  0.00              
ATOM    285  CA  GLU   285      14.125  60.364 102.562  1.00  0.00              
ATOM    286  CA  GLN   286      15.488  60.892  99.010  1.00  0.00              
ATOM    287  CA  LEU   287      12.545  62.959  97.908  1.00  0.00              
ATOM    288  CA  LYS   288      12.911  65.272 100.813  1.00  0.00              
ATOM    289  CA  ILE   289      16.683  65.697 100.428  1.00  0.00              
ATOM    290  CA  LEU   290      16.536  66.452  96.705  1.00  0.00              
ATOM    291  CA  LYS   291      13.531  68.720  95.993  1.00  0.00              
ATOM    292  CA  PRO   292      10.808  67.711  93.524  1.00  0.00              
ATOM    293  CA  GLY   293      11.615  68.914  90.070  1.00  0.00              
ATOM    294  CA  ASP   294      15.351  68.893  90.641  1.00  0.00              
ATOM    295  CA  LYS   295      17.537  67.899  87.785  1.00  0.00              
ATOM    296  CA  ILE   296      20.627  65.834  88.253  1.00  0.00              
ATOM    297  CA  THR   297      23.198  65.597  85.353  1.00  0.00              
ATOM    298  CA  PHE   298      25.560  62.661  85.078  1.00  0.00              
ATOM    299  CA  THR   299      28.083  62.154  81.735  1.00  0.00              
TER                                                                             
END
