
#######################################################
#                                                     #
#                        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   21 (  203),  selected   21 , name T0320TS277_5-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS277_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    N     228      S     240          1.325
LGA    N     229      N     241          1.104
LGA    S     230      N     242          1.995
LGA    L     231      P     243          2.743
LGA    P     232      A     244          2.569
LGA    N     233      L     245          1.733
LGA    -       -      H     246           -
LGA    P     234      F     247          2.963
LGA    H     235      E     248          2.424
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    L     236      I     251          1.757
LGA    R     237      I     252          1.690
LGA    K     238      H     253          3.408
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    D     239      S     264          2.885
LGA    S     240      S     265          1.568
LGA    -       -      A     266           -
LGA    N     241      I     267          3.506
LGA    N     242      N     268           -
LGA    P     243      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    A     244      Y     288          5.006
LGA    L     245      P     289          3.047
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    H     246      Y     292          1.141
LGA    F     247      L     293          2.434
LGA    -       -      V     294           -
LGA    E     248      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)   21   73    5.0     18    2.59    11.11     17.460     0.669

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.546683 * X  +   0.541921 * Y  +  -0.638325 * Z  +  42.596531
  Y_new =   0.064371 * X  +   0.732870 * Y  +   0.677317 * Z  + -47.537384
  Z_new =   0.834862 * X  +  -0.411367 * Y  +   0.365764 * Z  + -61.644268 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.844013    2.297580  [ DEG:   -48.3584    131.6416 ]
  Theta =  -0.987881   -2.153711  [ DEG:   -56.6014   -123.3986 ]
  Phi   =   0.117209   -3.024384  [ DEG:     6.7156   -173.2844 ]
 
# 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: T0320TS277_5-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS277_5-D2.T0320_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   73   5.0   18   2.59   11.11  17.460
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS277_5-D2
PFRMAT TS 
TARGET T0320
MODEL 5
PARENT 1SUR
ATOM   4297  H   ASN   228      15.202   4.794  -3.852  1.00  0.00                              
ATOM   4299  N   ASN   228      15.251   5.732  -3.906  1.00  0.00                              
ATOM   4301  CA  ASN   228      14.009   6.530  -3.807  1.00  0.00                              
ATOM   4303  CB  ASN   228      12.901   5.893  -4.637  1.00  0.00                              
ATOM   4305  C   ASN   228      13.533   6.730  -2.321  1.00  0.00                              
ATOM   4307  O   ASN   228      13.750   5.858  -1.474  1.00  0.00                              
ATOM   4309  CG  ASN   228      13.159   6.003  -6.126  1.00  0.00                              
ATOM   4311  ND2 ASN   228      12.736   4.999  -6.880  1.00  0.00                              
ATOM   4313 HD21 ASN   228      12.312   4.270  -6.462  1.00  0.00                              
ATOM   4315 HD22 ASN   228      12.870   5.030  -7.812  1.00  0.00                              
ATOM   4317  OD1 ASN   228      13.754   6.978  -6.595  1.00  0.00                              
ATOM   4319  H   ASN   229      12.759   8.553  -2.698  1.00  0.00                              
ATOM   4321  N   ASN   229      12.860   7.902  -2.028  1.00  0.00                              
ATOM   4323  CA  ASN   229      12.294   8.181  -0.657  1.00  0.00                              
ATOM   4325  CB  ASN   229      13.419   8.503   0.360  1.00  0.00                              
ATOM   4327  C   ASN   229      11.261   9.345  -0.672  1.00  0.00                              
ATOM   4329  O   ASN   229      11.590  10.481  -1.069  1.00  0.00                              
ATOM   4331  CG  ASN   229      12.943   8.444   1.799  1.00  0.00                              
ATOM   4333  ND2 ASN   229      12.856   9.602   2.446  1.00  0.00                              
ATOM   4335 HD21 ASN   229      13.106  10.391   1.995  1.00  0.00                              
ATOM   4337 HD22 ASN   229      12.553   9.614   3.340  1.00  0.00                              
ATOM   4339  OD1 ASN   229      12.682   7.362   2.335  1.00  0.00                              
ATOM   4341  H   SER   230       9.806   8.194   0.025  1.00  0.00                              
ATOM   4343  N   SER   230      10.031   9.068  -0.211  1.00  0.00                              
ATOM   4345  CA  SER   230       8.997  10.114  -0.099  1.00  0.00                              
ATOM   4347  CB  SER   230       7.603   9.500  -0.194  1.00  0.00                              
ATOM   4349  C   SER   230       9.147  10.875   1.218  1.00  0.00                              
ATOM   4351  O   SER   230      10.275  11.055   1.701  1.00  0.00                              
ATOM   4353  OG  SER   230       7.358   9.024  -1.508  1.00  0.00                              
ATOM   4355  H   LEU   231       7.188  11.196   1.411  1.00  0.00                              
ATOM   4357  N   LEU   231       8.028  11.330   1.819  1.00  0.00                              
ATOM   4359  CA  LEU   231       8.110  12.046   3.103  1.00  0.00                              
ATOM   4361  CB  LEU   231       9.238  13.075   3.048  1.00  0.00                              
ATOM   4363  C   LEU   231       6.776  12.724   3.506  1.00  0.00                              
ATOM   4365  O   LEU   231       6.763  13.898   3.905  1.00  0.00                              
ATOM   4367  CG  LEU   231       8.916  14.416   2.391  1.00  0.00                              
ATOM   4369  CD1 LEU   231      10.184  15.226   2.202  1.00  0.00                              
ATOM   4371  CD2 LEU   231       8.213  14.205   1.055  1.00  0.00                              
ATOM   4373  N   PRO   232       5.658  11.987   3.450  1.00  0.00                              
ATOM   4375  CA  PRO   232       4.353  12.536   3.812  1.00  0.00                              
ATOM   4377  CB  PRO   232       3.466  11.898   2.775  1.00  0.00                              
ATOM   4379  C   PRO   232       3.898  12.130   5.245  1.00  0.00                              
ATOM   4381  O   PRO   232       3.812  10.943   5.552  1.00  0.00                              
ATOM   4383  CG  PRO   232       4.046  10.489   2.615  1.00  0.00                              
ATOM   4385  CD  PRO   232       5.535  10.606   2.983  1.00  0.00                              
ATOM   4387  H   ASN   233       3.610  14.030   5.829  1.00  0.00                              
ATOM   4389  N   ASN   233       3.552  13.135   6.109  1.00  0.00                              
ATOM   4391  CA  ASN   233       3.067  12.835   7.488  1.00  0.00                              
ATOM   4393  CB  ASN   233       4.173  12.133   8.307  1.00  0.00                              
ATOM   4395  C   ASN   233       2.574  14.105   8.242  1.00  0.00                              
ATOM   4397  O   ASN   233       1.744  14.006   9.149  1.00  0.00                              
ATOM   4399  CG  ASN   233       3.684  11.625   9.665  1.00  0.00                              
ATOM   4401  ND2 ASN   233       4.566  11.632  10.661  1.00  0.00                              
ATOM   4403 HD21 ASN   233       5.434  11.958  10.493  1.00  0.00                              
ATOM   4405 HD22 ASN   233       4.305  11.327  11.517  1.00  0.00                              
ATOM   4407  OD1 ASN   233       2.507  11.223   9.816  1.00  0.00                              
ATOM   4409  N   PRO   234       3.097  15.302   7.894  1.00  0.00                              
ATOM   4411  CA  PRO   234       2.692  16.558   8.557  1.00  0.00                              
ATOM   4413  CB  PRO   234       3.871  17.475   8.293  1.00  0.00                              
ATOM   4415  C   PRO   234       1.387  17.162   8.011  1.00  0.00                              
ATOM   4417  O   PRO   234       0.710  16.558   7.175  1.00  0.00                              
ATOM   4419  CG  PRO   234       4.328  17.068   6.916  1.00  0.00                              
ATOM   4421  CD  PRO   234       4.146  15.548   6.873  1.00  0.00                              
ATOM   4423  H   HIS   235       1.555  18.729   9.206  1.00  0.00                              
ATOM   4425  N   HIS   235       1.027  18.344   8.522  1.00  0.00                              
ATOM   4427  CA  HIS   235      -0.154  19.068   8.041  1.00  0.00                              
ATOM   4429  CB  HIS   235      -0.946  18.202   7.063  1.00  0.00                              
ATOM   4431  C   HIS   235      -1.066  19.560   9.217  1.00  0.00                              
ATOM   4433  O   HIS   235      -1.339  18.808  10.156  1.00  0.00                              
ATOM   4435  CG  HIS   235      -2.170  18.871   6.536  1.00  0.00                              
ATOM   4437  ND1 HIS   235      -2.148  19.780   5.501  1.00  0.00                              
ATOM   4439  HD1 HIS   235      -1.381  20.045   5.007  1.00  0.00                              
ATOM   4441  CE1 HIS   235      -3.383  20.156   5.230  1.00  0.00                              
ATOM   4443  NE2 HIS   235      -4.203  19.501   6.026  1.00  0.00                              
ATOM   4445  HE2 HIS   235      -5.152  19.552   5.990  1.00  0.00                              
ATOM   4447  CD2 HIS   235      -3.470  18.663   6.831  1.00  0.00                              
ATOM   4449  H   LEU   236      -1.340  21.340   8.362  1.00  0.00                              
ATOM   4451  N   LEU   236      -1.543  20.822   9.127  1.00  0.00                              
ATOM   4453  CA  LEU   236      -2.371  21.427  10.196  1.00  0.00                              
ATOM   4455  CB  LEU   236      -1.558  22.468  10.961  1.00  0.00                              
ATOM   4457  C   LEU   236      -3.617  22.113   9.616  1.00  0.00                              
ATOM   4459  O   LEU   236      -3.576  22.657   8.500  1.00  0.00                              
ATOM   4461  CG  LEU   236      -2.329  23.311  11.947  1.00  0.00                              
ATOM   4463  CD1 LEU   236      -2.454  22.571  13.261  1.00  0.00                              
ATOM   4465  CD2 LEU   236      -1.646  24.653  12.142  1.00  0.00                              
ATOM   4467  H   ARG   237      -4.667  21.720  11.260  1.00  0.00                              
ATOM   4469  N   ARG   237      -4.709  22.131  10.402  1.00  0.00                              
ATOM   4471  CA  ARG   237      -5.975  22.747   9.965  1.00  0.00                              
ATOM   4473  CB  ARG   237      -7.065  22.564  11.050  1.00  0.00                              
ATOM   4475  C   ARG   237      -5.800  24.242   9.649  1.00  0.00                              
ATOM   4477  O   ARG   237      -5.889  24.649   8.489  1.00  0.00                              
ATOM   4479  CG  ARG   237      -8.470  23.080  10.638  1.00  0.00                              
ATOM   4481  CD  ARG   237      -9.529  22.821  11.726  1.00  0.00                              
ATOM   4483  NE  ARG   237     -10.861  23.288  11.302  1.00  0.00                              
ATOM   4485  HE  ARG   237     -10.933  23.679  10.439  1.00  0.00                              
ATOM   4487  CZ  ARG   237     -11.985  23.215  12.043  1.00  0.00                              
ATOM   4489  NH1 ARG   237     -11.963  22.671  13.263  1.00  0.00                              
ATOM   4491  NH2 ARG   237     -13.126  23.700  11.566  1.00  0.00                              
ATOM   4493  H   LYS   238      -5.395  24.686  11.542  1.00  0.00                              
ATOM   4495  N   LYS   238      -5.531  25.053  10.678  1.00  0.00                              
ATOM   4497  CA  LYS   238      -5.414  26.511  10.497  1.00  0.00                              
ATOM   4499  CB  LYS   238      -5.714  27.243  11.810  1.00  0.00                              
ATOM   4501  C   LYS   238      -4.010  26.908  10.008  1.00  0.00                              
ATOM   4503  O   LYS   238      -3.272  27.588  10.726  1.00  0.00                              
ATOM   4505  CG  LYS   238      -7.161  27.149  12.259  1.00  0.00                              
ATOM   4507  CD  LYS   238      -7.379  27.885  13.575  1.00  0.00                              
ATOM   4509  CE  LYS   238      -8.832  27.824  14.022  1.00  0.00                              
ATOM   4511  NZ  LYS   238      -9.037  28.520  15.323  1.00  0.00                              
ATOM   4513  H   ASP   239      -4.234  25.971   8.277  1.00  0.00                              
ATOM   4515  N   ASP   239      -3.652  26.515   8.780  1.00  0.00                              
ATOM   4517  CA  ASP   239      -2.353  26.904   8.199  1.00  0.00                              
ATOM   4519  CB  ASP   239      -1.518  27.676   9.233  1.00  0.00                              
ATOM   4521  C   ASP   239      -1.567  25.681   7.702  1.00  0.00                              
ATOM   4523  O   ASP   239      -0.646  25.212   8.381  1.00  0.00                              
ATOM   4525  CG  ASP   239      -0.240  28.254   8.655  1.00  0.00                              
ATOM   4527  OD1 ASP   239      -0.011  28.103   7.436  1.00  0.00                              
ATOM   4529  OD2 ASP   239       0.536  28.882   9.414  1.00  0.00                              
ATOM   4531  H   SER   240      -2.576  25.600   6.000  1.00  0.00                              
ATOM   4533  N   SER   240      -1.902  25.190   6.494  1.00  0.00                              
ATOM   4535  CA  SER   240      -1.245  23.990   5.938  1.00  0.00                              
ATOM   4537  CB  SER   240      -1.823  23.665   4.548  1.00  0.00                              
ATOM   4539  C   SER   240       0.283  24.192   5.841  1.00  0.00                              
ATOM   4541  O   SER   240       0.757  25.036   5.078  1.00  0.00                              
ATOM   4543  OG  SER   240      -1.382  22.391   4.108  1.00  0.00                              
ATOM   4545  H   ASN   241       0.628  22.723   7.141  1.00  0.00                              
ATOM   4547  N   ASN   241       1.054  23.377   6.618  1.00  0.00                              
ATOM   4549  CA  ASN   241       2.560  23.496   6.695  1.00  0.00                              
ATOM   4551  CB  ASN   241       3.084  22.598   7.871  1.00  0.00                              
ATOM   4553  C   ASN   241       3.245  23.095   5.362  1.00  0.00                              
ATOM   4555  O   ASN   241       3.498  23.949   4.509  1.00  0.00                              
ATOM   4557  CG  ASN   241       4.611  22.669   8.121  1.00  0.00                              
ATOM   4559  ND2 ASN   241       5.153  21.621   8.732  1.00  0.00                              
ATOM   4561 HD21 ASN   241       4.591  20.909   8.990  1.00  0.00                              
ATOM   4563 HD22 ASN   241       6.081  21.608   8.896  1.00  0.00                              
ATOM   4565  OD1 ASN   241       5.281  23.674   7.809  1.00  0.00                              
ATOM   4567  H   ASN   242       3.401  21.220   5.915  1.00  0.00                              
ATOM   4569  N   ASN   242       3.572  21.826   5.214  1.00  0.00                              
ATOM   4571  CA  ASN   242       4.180  21.322   3.975  1.00  0.00                              
ATOM   4573  CB  ASN   242       5.708  21.598   3.978  1.00  0.00                              
ATOM   4575  C   ASN   242       3.911  19.818   3.817  1.00  0.00                              
ATOM   4577  O   ASN   242       4.753  18.991   4.181  1.00  0.00                              
ATOM   4579  CG  ASN   242       6.394  21.217   2.659  1.00  0.00                              
ATOM   4581  ND2 ASN   242       7.563  21.825   2.385  1.00  0.00                              
ATOM   4583 HD21 ASN   242       7.904  22.449   3.004  1.00  0.00                              
ATOM   4585 HD22 ASN   242       8.014  21.625   1.579  1.00  0.00                              
ATOM   4587  OD1 ASN   242       5.881  20.398   1.893  1.00  0.00                              
ATOM   4589  N   PRO   243       2.773  19.440   3.234  1.00  0.00                              
ATOM   4591  CA  PRO   243       2.437  18.032   3.049  1.00  0.00                              
ATOM   4593  CB  PRO   243       1.411  18.065   1.936  1.00  0.00                              
ATOM   4595  C   PRO   243       3.645  17.169   2.686  1.00  0.00                              
ATOM   4597  O   PRO   243       3.871  16.117   3.297  1.00  0.00                              
ATOM   4599  CG  PRO   243       0.661  19.341   2.199  1.00  0.00                              
ATOM   4601  CD  PRO   243       1.732  20.325   2.659  1.00  0.00                              
ATOM   4603  H   ALA   244       4.257  18.428   1.332  1.00  0.00                              
ATOM   4605  N   ALA   244       4.439  17.612   1.750  1.00  0.00                              
ATOM   4607  CA  ALA   244       5.624  16.866   1.368  1.00  0.00                              
ATOM   4609  CB  ALA   244       5.876  16.998  -0.130  1.00  0.00                              
ATOM   4611  C   ALA   244       6.849  17.342   2.144  1.00  0.00                              
ATOM   4613  O   ALA   244       7.715  18.035   1.582  1.00  0.00                              
ATOM   4615  H   LEU   245       6.286  16.418   3.822  1.00  0.00                              
ATOM   4617  N   LEU   245       6.959  16.948   3.432  1.00  0.00                              
ATOM   4619  CA  LEU   245       8.117  17.352   4.227  1.00  0.00                              
ATOM   4621  CB  LEU   245       8.142  18.828   4.377  1.00  0.00                              
ATOM   4623  C   LEU   245       8.174  16.700   5.622  1.00  0.00                              
ATOM   4625  O   LEU   245       7.682  17.277   6.608  1.00  0.00                              
ATOM   4627  CG  LEU   245       9.254  19.359   5.209  1.00  0.00                              
ATOM   4629  CD1 LEU   245      10.578  18.838   4.668  1.00  0.00                              
ATOM   4631  CD2 LEU   245       9.226  20.872   5.182  1.00  0.00                              
ATOM   4633  H   HIS   246       9.151  15.108   4.958  1.00  0.00                              
ATOM   4635  N   HIS   246       8.820  15.532   5.736  1.00  0.00                              
ATOM   4637  CA  HIS   246       8.994  14.883   7.066  1.00  0.00                              
ATOM   4639  CB  HIS   246       7.784  15.198   7.984  1.00  0.00                              
ATOM   4641  C   HIS   246       9.170  13.374   6.952  1.00  0.00                              
ATOM   4643  O   HIS   246       9.779  12.897   6.035  1.00  0.00                              
ATOM   4645  CG  HIS   246       7.964  14.698   9.421  1.00  0.00                              
ATOM   4647  ND1 HIS   246       6.941  14.124  10.168  1.00  0.00                              
ATOM   4649  HD1 HIS   246       6.040  14.009   9.885  1.00  0.00                              
ATOM   4651  CE1 HIS   246       7.393  13.845  11.376  1.00  0.00                              
ATOM   4653  NE2 HIS   246       8.671  14.204  11.443  1.00  0.00                              
ATOM   4655  HE2 HIS   246       9.213  14.141  12.224  1.00  0.00                              
ATOM   4657  CD2 HIS   246       9.044  14.763  10.242  1.00  0.00                              
ATOM   4659  H   PHE   247       8.345  13.121   8.679  1.00  0.00                              
ATOM   4661  N   PHE   247       8.688  12.675   7.923  1.00  0.00                              
ATOM   4663  CA  PHE   247       8.686  11.237   7.915  1.00  0.00                              
ATOM   4665  CB  PHE   247       7.354  10.760   7.376  1.00  0.00                              
ATOM   4667  C   PHE   247       9.792  10.662   7.053  1.00  0.00                              
ATOM   4669  O   PHE   247      10.998  10.769   7.373  1.00  0.00                              
ATOM   4671  CG  PHE   247       7.186   9.296   7.421  1.00  0.00                              
ATOM   4673  CD1 PHE   247       7.720   8.563   8.452  1.00  0.00                              
ATOM   4675  CE1 PHE   247       7.597   7.177   8.480  1.00  0.00                              
ATOM   4677  CZ  PHE   247       6.911   6.526   7.463  1.00  0.00                              
ATOM   4679  CD2 PHE   247       6.452   8.635   6.432  1.00  0.00                              
ATOM   4681  CE2 PHE   247       6.301   7.259   6.465  1.00  0.00                              
ATOM   4683  H   GLU   248       8.445   9.871   5.849  1.00  0.00                              
ATOM   4685  N   GLU   248       9.374   9.987   5.979  1.00  0.00                              
ATOM   4687  CA  GLU   248      10.286   9.398   5.024  1.00  0.00                              
ATOM   4689  CB  GLU   248      10.939   8.118   5.605  1.00  0.00                              
ATOM   4691  C   GLU   248       9.539   9.061   3.734  1.00  0.00                              
ATOM   4693  O   GLU   248      10.057   8.351   2.875  1.00  0.00                              
ATOM   4695  CG  GLU   248       9.967   6.945   5.805  1.00  0.00                              
ATOM   4697  CD  GLU   248      10.629   5.702   6.428  1.00  0.00                              
ATOM   4699  OE1 GLU   248      11.803   5.423   6.096  1.00  0.00                              
ATOM   4701  OE2 GLU   248       9.966   5.004   7.258  1.00  0.00                              
TER 
END
