
#######################################################
#                                                     #
#                        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_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS599_1-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      M     230           -
LGA    H     231      H     231           -
LGA    T     232      T     232           -
LGA    M     233      M     233           -
LGA    K     234      K     234           -
LGA    N     235      N     235           -
LGA    T     236      T     236           -
LGA    -       -      G     237           -
LGA    -       -      R     238           -
LGA    G     237      N     239           #
LGA    R     238      V     240           -
LGA    N     239      -       -           -
LGA    V     240      N     241           #
LGA    N     241      D     242          1.983
LGA    D     242      -       -           -
LGA    R     243      -       -           -
LGA    P     244      R     243          2.145
LGA    V     245      P     244          1.851
LGA    M     246      V     245          1.608
LGA    V     247      M     246          2.334
LGA    A     248      V     247          1.764
LGA    K     249      A     248          4.420
LGA    E     250      -       -           -
LGA    G     251      -       -           -
LGA    E     252      K     249          5.718
LGA    T     253      E     250           -
LGA    Y     254      G     251           -
LGA    T     255      E     252           -
LGA    G     256      T     253           -
LGA    T     257      Y     254           -
LGA    Y     258      T     255           -
LGA    R     259      G     256           -
LGA    G     260      T     257           -
LGA    A     261      Y     258           -
LGA    -       -      R     259           -
LGA    G     262      G     260          4.846
LGA    L     263      A     261          2.579
LGA    E     264      G     262          4.231
LGA    -       -      L     263           -
LGA    -       -      E     264           -
LGA    -       -      G     265           -
LGA    G     265      F     266          3.526
LGA    F     266      A     267          2.345
LGA    A     267      L     268          1.429
LGA    L     268      N     269          0.672
LGA    N     269      V     270          1.007
LGA    V     270      K     271          1.121
LGA    K     271      -       -           -
LGA    G     272      -       -           -
LGA    A     273      G     272          2.195
LGA    Y     274      A     273          1.502
LGA    I     275      Y     274          1.081
LGA    I     276      I     275          1.537
LGA    G     277      I     276          1.943
LGA    N     278      G     277          2.902
LGA    I     279      N     278          3.538
LGA    D     280      I     279          3.256
LGA    -       -      D     280           -
LGA    H     281      H     281          1.995
LGA    L     282      L     282          0.431
LGA    P     283      P     283          1.156
LGA    P     284      P     284          0.347
LGA    E     285      E     285          0.630
LGA    Q     286      Q     286          0.914
LGA    L     287      L     287          1.421
LGA    K     288      K     288          1.548
LGA    I     289      I     289          1.431
LGA    L     290      L     290          1.411
LGA    K     291      -       -           -
LGA    P     292      -       -           -
LGA    G     293      K     291           #
LGA    D     294      P     292          2.286
LGA    K     295      G     293          3.456
LGA    I     296      D     294          3.962
LGA    T     297      K     295          5.516
LGA    F     298      I     296           -
LGA    T     299      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    2.63    30.77     34.695     1.426

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.296660 * X  +  -0.791581 * Y  +   0.534222 * Z  +  23.505358
  Y_new =  -0.752342 * X  +  -0.538271 * Y  +  -0.379797 * Z  +  62.291321
  Z_new =   0.588196 * X  +  -0.289247 * Y  +  -0.755223 * Z  +  82.065460 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.775831    0.365762  [ DEG:  -159.0434     20.9566 ]
  Theta =  -0.628826   -2.512766  [ DEG:   -36.0291   -143.9709 ]
  Phi   =  -1.195200    1.946393  [ DEG:   -68.4799    111.5201 ]
 
# 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_1-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_1-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   2.63   30.77  34.695
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_1-D2
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    219  CA  ASN   219      34.615  62.775  94.438  1.00  0.00              
ATOM    220  CA  PRO   220      37.873  63.052  92.453  1.00  0.00              
ATOM    221  CA  GLU   221      38.096  59.823  90.570  1.00  0.00              
ATOM    222  CA  LYS   222      34.597  60.111  89.073  1.00  0.00              
ATOM    223  CA  ILE   223      34.994  63.832  88.279  1.00  0.00              
ATOM    224  CA  ARG   224      38.366  63.855  86.445  1.00  0.00              
ATOM    225  CA  LEU   225      37.287  60.983  84.271  1.00  0.00              
ATOM    226  CA  LEU   226      33.872  62.299  83.400  1.00  0.00              
ATOM    227  CA  LYS   227      35.435  65.665  82.457  1.00  0.00              
ATOM    228  CA  GLU   228      37.791  63.907  80.040  1.00  0.00              
ATOM    229  CA  PHE   229      34.883  61.958  78.483  1.00  0.00              
ATOM    230  CA  MET   230      32.789  65.057  78.037  1.00  0.00              
ATOM    231  CA  HIS   231      35.772  66.823  76.419  1.00  0.00              
ATOM    232  CA  THR   232      36.126  63.992  73.914  1.00  0.00              
ATOM    233  CA  MET   233      32.387  64.181  73.115  1.00  0.00              
ATOM    234  CA  LYS   234      32.571  67.952  72.535  1.00  0.00              
ATOM    235  CA  ASN   235      35.567  67.621  70.164  1.00  0.00              
ATOM    236  CA  THR   236      33.790  64.952  68.236  1.00  0.00              
ATOM    237  CA  GLY   237      30.815  67.402  68.150  1.00  0.00              
ATOM    238  CA  ARG   238      29.918  66.223  64.809  1.00  0.00              
ATOM    239  CA  ASN   239      30.027  62.537  65.955  1.00  0.00              
ATOM    240  CA  VAL   240      27.938  63.227  69.060  1.00  0.00              
ATOM    241  CA  ASN   241      25.148  65.135  67.236  1.00  0.00              
ATOM    242  CA  ASP   242      24.804  62.163  64.869  1.00  0.00              
ATOM    243  CA  ARG   243      24.720  59.561  67.695  1.00  0.00              
ATOM    244  CA  PRO   244      22.420  60.690  70.470  1.00  0.00              
ATOM    245  CA  VAL   245      20.043  58.243  72.090  1.00  0.00              
ATOM    246  CA  MET   246      17.482  59.439  74.573  1.00  0.00              
ATOM    247  CA  VAL   247      15.987  57.003  77.094  1.00  0.00              
ATOM    248  CA  ALA   248      13.014  58.041  79.114  1.00  0.00              
ATOM    249  CA  LYS   249      12.082  56.802  82.586  1.00  0.00              
ATOM    250  CA  GLU   250       9.184  54.718  81.175  1.00  0.00              
ATOM    251  CA  GLY   251      11.321  52.654  78.889  1.00  0.00              
ATOM    252  CA  GLU   252      10.871  54.476  75.627  1.00  0.00              
ATOM    253  CA  THR   253      13.926  54.675  73.471  1.00  0.00              
ATOM    254  CA  TYR   254      14.268  57.908  71.548  1.00  0.00              
ATOM    255  CA  THR   255      16.782  58.292  68.806  1.00  0.00              
ATOM    256  CA  GLY   256      18.082  61.764  68.266  1.00  0.00              
ATOM    257  CA  THR   257      19.991  64.853  69.013  1.00  0.00              
ATOM    258  CA  TYR   258      19.504  65.389  72.696  1.00  0.00              
ATOM    259  CA  ARG   259      18.587  68.725  74.239  1.00  0.00              
ATOM    260  CA  GLY   260      15.640  67.812  76.515  1.00  0.00              
ATOM    261  CA  ALA   261      14.951  69.643  79.722  1.00  0.00              
ATOM    262  CA  GLY   262      16.479  67.964  82.717  1.00  0.00              
ATOM    263  CA  LEU   263      13.806  68.305  85.328  1.00  0.00              
ATOM    264  CA  GLU   264      13.681  65.024  87.141  1.00  0.00              
ATOM    265  CA  GLY   265      17.215  63.763  87.248  1.00  0.00              
ATOM    266  CA  PHE   266      19.375  63.569  84.123  1.00  0.00              
ATOM    267  CA  ALA   267      21.890  60.855  83.695  1.00  0.00              
ATOM    268  CA  LEU   268      24.361  61.073  80.973  1.00  0.00              
ATOM    269  CA  ASN   269      26.029  58.037  79.627  1.00  0.00              
ATOM    270  CA  VAL   270      28.952  58.393  77.475  1.00  0.00              
ATOM    271  CA  LYS   271      29.835  55.779  74.933  1.00  0.00              
ATOM    272  CA  GLY   272      28.260  57.328  71.772  1.00  0.00              
ATOM    273  CA  ALA   273      25.903  59.647  73.675  1.00  0.00              
ATOM    274  CA  TYR   274      23.129  58.151  75.726  1.00  0.00              
ATOM    275  CA  ILE   275      20.763  60.347  77.803  1.00  0.00              
ATOM    276  CA  ILE   276      18.856  58.804  80.520  1.00  0.00              
ATOM    277  CA  GLY   277      16.068  60.531  82.075  1.00  0.00              
ATOM    278  CA  ASN   278      14.980  59.401  85.411  1.00  0.00              
ATOM    279  CA  ILE   279      12.109  61.063  86.969  1.00  0.00              
ATOM    280  CA  ASP   280       9.749  58.140  87.061  1.00  0.00              
ATOM    281  CA  HIS   281      12.189  55.683  88.612  1.00  0.00              
ATOM    282  CA  LEU   282      13.528  57.522  91.520  1.00  0.00              
ATOM    283  CA  PRO   283      12.559  56.522  95.078  1.00  0.00              
ATOM    284  CA  PRO   284      11.549  59.308  97.384  1.00  0.00              
ATOM    285  CA  GLU   285      14.764  59.002  99.417  1.00  0.00              
ATOM    286  CA  GLN   286      16.888  59.311  96.223  1.00  0.00              
ATOM    287  CA  LEU   287      15.083  62.327  94.973  1.00  0.00              
ATOM    288  CA  LYS   288      15.622  64.237  98.178  1.00  0.00              
ATOM    289  CA  ILE   289      19.337  63.529  98.409  1.00  0.00              
ATOM    290  CA  LEU   290      20.062  64.558  94.873  1.00  0.00              
ATOM    291  CA  LYS   291      18.090  67.569  93.813  1.00  0.00              
ATOM    292  CA  PRO   292      16.279  68.511  90.593  1.00  0.00              
ATOM    293  CA  GLY   293      18.726  69.599  87.991  1.00  0.00              
ATOM    294  CA  ASP   294      21.498  67.329  89.188  1.00  0.00              
ATOM    295  CA  LYS   295      23.553  65.808  86.456  1.00  0.00              
ATOM    296  CA  ILE   296      25.228  62.472  86.799  1.00  0.00              
ATOM    297  CA  THR   297      27.928  61.464  84.183  1.00  0.00              
ATOM    298  CA  PHE   298      28.779  57.885  83.506  1.00  0.00              
ATOM    299  CA  THR   299      31.456  56.777  80.444  1.00  0.00              
TER                                                                             
END
