
#######################################################
#                                                     #
#                        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_1-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS599_1-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      N     228          2.583
LGA    L     245      N     229          2.951
LGA    H     246      S     230          3.733
LGA    F     247      L     231          1.767
LGA    E     248      P     232          0.895
LGA    W     249      N     233          3.261
LGA    -       -      P     234           -
LGA    E     250      H     235           #
LGA    I     251      L     236          4.061
LGA    I     252      R     237           #
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    H     253      N     242          4.545
LGA    A     254      P     243          3.259
LGA    F     255      A     244          2.545
LGA    G     256      L     245          2.823
LGA    K     257      -       -           -
LGA    D     258      -       -           -
LGA    A     259      H     246          0.953
LGA    E     260      F     247          0.324
LGA    G     261      E     248          1.624
LGA    E     262      W     249          1.528
LGA    R     263      E     250          2.032
LGA    S     264      I     251          2.386
LGA    S     265      I     252          1.242
LGA    A     266      H     253          1.351
LGA    I     267      A     254          3.168
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    N     268      S     264          2.441
LGA    T     269      S     265          0.456
LGA    S     270      A     266          2.356
LGA    P     271      I     267          0.872
LGA    I     272      N     268           #
LGA    S     273      T     269          3.134
LGA    V     274      S     270           #
LGA    V     275      P     271           -
LGA    D     276      I     272          5.505
LGA    K     277      S     273           -
LGA    -       -      V     274           -
LGA    E     278      V     275          6.207
LGA    R     279      D     276          2.645
LGA    F     280      K     277           -
LGA    S     281      E     278           -
LGA    K     282      R     279           -
LGA    Y     283      F     280           -
LGA    H     284      S     281           -
LGA    D     285      K     282           -
LGA    N     286      Y     283           -
LGA    Y     287      H     284           -
LGA    Y     288      D     285           -
LGA    P     289      N     286           -
LGA    G     290      Y     287           -
LGA    W     291      Y     288           -
LGA    Y     292      P     289           -
LGA    L     293      G     290           -
LGA    V     294      -       -           -
LGA    D     295      -       -           -
LGA    D     296      -       -           -
LGA    T     297      W     291           #
LGA    -       -      Y     292           -
LGA    L     298      L     293           #
LGA    E     299      -       -           -
LGA    R     300      -       -           -
LGA    A     301      V     294          0.920
LGA    G     302      D     295          1.364
LGA    R     303      D     296           -
LGA    I     304      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     30    2.81     0.00     28.577     1.033

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.592751 * X  +   0.241739 * Y  +  -0.768251 * Z  +  14.619277
  Y_new =  -0.439672 * X  +  -0.702082 * Y  +  -0.560151 * Z  +  20.250414
  Z_new =  -0.674785 * X  +   0.669809 * Y  +  -0.309873 * Z  +  10.367601 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.004103   -1.137489  [ DEG:   114.8267    -65.1733 ]
  Theta =   0.740673    2.400919  [ DEG:    42.4375    137.5625 ]
  Phi   =  -0.638200    2.503393  [ DEG:   -36.5662    143.4339 ]
 
# 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_1-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_1-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   30   2.81    0.00  28.577
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_1-D2
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    228  CA  ASN   228      22.647  14.394  19.123  1.00  0.00              
ATOM    229  CA  ASN   229      21.267  10.877  19.542  1.00  0.00              
ATOM    230  CA  SER   230      17.838  11.914  18.424  1.00  0.00              
ATOM    231  CA  LEU   231      18.700  13.489  15.055  1.00  0.00              
ATOM    232  CA  PRO   232      20.479  11.056  12.783  1.00  0.00              
ATOM    233  CA  ASN   233      23.387  13.176  11.423  1.00  0.00              
ATOM    234  CA  PRO   234      22.407  13.326   7.774  1.00  0.00              
ATOM    235  CA  HIS   235      23.401  17.164   7.406  1.00  0.00              
ATOM    236  CA  LEU   236      26.801  17.261   9.451  1.00  0.00              
ATOM    237  CA  ARG   237      27.099  20.336  11.543  1.00  0.00              
ATOM    238  CA  LYS   238      30.345  22.063  12.314  1.00  0.00              
ATOM    239  CA  ASP   239      30.705  24.104  15.477  1.00  0.00              
ATOM    240  CA  SER   240      33.312  26.755  14.872  1.00  0.00              
ATOM    241  CA  ASN   241      32.444  29.612  12.505  1.00  0.00              
ATOM    242  CA  ASN   242      33.756  28.206   9.214  1.00  0.00              
ATOM    243  CA  PRO   243      32.912  24.597   9.760  1.00  0.00              
ATOM    244  CA  ALA   244      30.643  23.957   6.861  1.00  0.00              
ATOM    245  CA  LEU   245      28.253  21.081   7.014  1.00  0.00              
ATOM    246  CA  HIS   246      25.087  21.161   5.035  1.00  0.00              
ATOM    247  CA  PHE   247      22.305  18.845   6.439  1.00  0.00              
ATOM    248  CA  GLU   248      19.478  18.485   3.450  1.00  0.00              
ATOM    249  CA  TRP   249      16.418  17.131   4.770  1.00  0.00              
ATOM    250  CA  GLU   250      13.993  15.160   2.404  1.00  0.00              
ATOM    251  CA  ILE   251      10.419  15.171   3.178  1.00  0.00              
ATOM    252  CA  ILE   252       9.004  11.954   1.529  1.00  0.00              
ATOM    253  CA  HIS   253       5.486  12.822   0.615  1.00  0.00              
ATOM    254  CA  ALA   254       3.584  10.107   2.492  1.00  0.00              
ATOM    255  CA  PHE   255       5.288  10.542   5.871  1.00  0.00              
ATOM    256  CA  GLY   256       5.149  14.358   6.418  1.00  0.00              
ATOM    257  CA  LYS   257       1.555  14.594   5.221  1.00  0.00              
ATOM    258  CA  ASP   258      -0.407  11.893   7.223  1.00  0.00              
ATOM    259  CA  ALA   259       1.377  12.584  10.586  1.00  0.00              
ATOM    260  CA  GLU   260       1.001  16.293  10.624  1.00  0.00              
ATOM    261  CA  GLY   261      -2.661  16.400   9.503  1.00  0.00              
ATOM    262  CA  GLU   262      -3.474  18.467  12.624  1.00  0.00              
ATOM    263  CA  ARG   263      -0.564  20.818  11.809  1.00  0.00              
ATOM    264  CA  SER   264      -1.799  21.462   8.221  1.00  0.00              
ATOM    265  CA  SER   265      -5.321  22.184   9.515  1.00  0.00              
ATOM    266  CA  ALA   266      -4.445  24.259  12.628  1.00  0.00              
ATOM    267  CA  ILE   267      -1.475  25.958  10.907  1.00  0.00              
ATOM    268  CA  ASN   268      -2.350  26.943   7.424  1.00  0.00              
ATOM    269  CA  THR   269      -1.724  24.316   4.811  1.00  0.00              
ATOM    270  CA  SER   270       1.519  25.642   3.412  1.00  0.00              
ATOM    271  CA  PRO   271       3.499  26.139   6.639  1.00  0.00              
ATOM    272  CA  ILE   272       6.651  24.329   5.645  1.00  0.00              
ATOM    273  CA  SER   273       9.727  26.204   6.248  1.00  0.00              
ATOM    274  CA  VAL   274      12.673  25.449   4.183  1.00  0.00              
ATOM    275  CA  VAL   275      15.938  26.101   5.558  1.00  0.00              
ATOM    276  CA  ASP   276      18.789  26.173   3.200  1.00  0.00              
ATOM    277  CA  LYS   277      21.780  24.879   5.223  1.00  0.00              
ATOM    278  CA  GLU   278      24.254  27.196   3.615  1.00  0.00              
ATOM    279  CA  ARG   279      22.270  30.416   4.004  1.00  0.00              
ATOM    280  CA  PHE   280      21.427  30.225   7.731  1.00  0.00              
ATOM    281  CA  SER   281      24.899  29.419   8.969  1.00  0.00              
ATOM    282  CA  LYS   282      26.837  31.979   6.960  1.00  0.00              
ATOM    283  CA  TYR   283      24.862  35.204   7.641  1.00  0.00              
ATOM    284  CA  HIS   284      24.698  34.772  11.408  1.00  0.00              
ATOM    285  CA  ASP   285      28.189  33.980  12.254  1.00  0.00              
ATOM    286  CA  ASN   286      27.586  31.161  14.648  1.00  0.00              
ATOM    287  CA  TYR   287      24.219  29.822  13.477  1.00  0.00              
ATOM    288  CA  TYR   288      21.989  29.747  16.560  1.00  0.00              
ATOM    289  CA  PRO   289      18.630  28.401  15.703  1.00  0.00              
ATOM    290  CA  GLY   290      17.899  25.965  18.690  1.00  0.00              
ATOM    291  CA  TRP   291      15.675  22.991  17.318  1.00  0.00              
ATOM    292  CA  TYR   292      15.931  20.100  19.649  1.00  0.00              
ATOM    293  CA  LEU   293      14.661  16.790  18.455  1.00  0.00              
ATOM    294  CA  VAL   294      13.713  14.596  21.222  1.00  0.00              
ATOM    295  CA  ASP   295      13.785  10.771  20.859  1.00  0.00              
ATOM    296  CA  ASP   296       9.951  10.477  20.890  1.00  0.00              
ATOM    297  CA  THR   297       9.733  12.816  17.849  1.00  0.00              
ATOM    298  CA  LEU   298      12.421  10.895  15.947  1.00  0.00              
ATOM    299  CA  GLU   299      10.687   7.526  16.656  1.00  0.00              
ATOM    300  CA  ARG   300       7.288   8.698  15.540  1.00  0.00              
ATOM    301  CA  ALA   301       8.884  10.063  12.345  1.00  0.00              
ATOM    302  CA  GLY   302      11.009   7.009  11.629  1.00  0.00              
ATOM    303  CA  ARG   303       9.403   3.781  11.762  1.00  0.00              
ATOM    304  CA  ILE   304       6.684   3.432   9.453  1.00  0.00              
TER                                                                             
END
