
#######################################################
#                                                     #
#                        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_2-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS277_2-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    N     228      S     230          3.073
LGA    N     229      L     231          1.610
LGA    S     230      P     232          1.480
LGA    L     231      N     233          3.383
LGA    -       -      P     234           -
LGA    P     232      H     235          2.116
LGA    N     233      L     236          1.696
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    P     234      N     242          4.165
LGA    H     235      P     243          2.888
LGA    L     236      A     244          3.478
LGA    -       -      L     245           -
LGA    R     237      H     246          1.225
LGA    K     238      F     247          3.002
LGA    D     239      E     248          3.946
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      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    -       -      Y     288           -
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    S     240      W     291          4.849
LGA    N     241      Y     292          2.024
LGA    N     242      L     293          2.894
LGA    P     243      V     294           -
LGA    A     244      D     295           -
LGA    L     245      D     296           -
LGA    H     246      T     297           -
LGA    F     247      L     298           -
LGA    E     248      E     299          3.276
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     16    3.00     6.25     13.756     0.517

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.353452 * X  +   0.242760 * Y  +  -0.903405 * Z  +  80.251869
  Y_new =  -0.272196 * X  +   0.950642 * Y  +   0.148958 * Z  +  13.623505
  Z_new =   0.894976 * X  +   0.193253 * Y  +   0.402084 * Z  + -52.859543 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.448031   -2.693562  [ DEG:    25.6703   -154.3297 ]
  Theta =  -1.108377   -2.033216  [ DEG:   -63.5053   -116.4947 ]
  Phi   =  -0.656246    2.485347  [ DEG:   -37.6001    142.3999 ]
 
# 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_2-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS277_2-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   16   3.00    6.25  13.756
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS277_2-D2
PFRMAT TS 
TARGET T0320
MODEL 2
PARENT 1SUR
ATOM   4297  H   ASN   228      25.872  14.606   8.951  1.00  0.00                              
ATOM   4299  N   ASN   228      25.735  15.314   9.552  1.00  0.00                              
ATOM   4301  CA  ASN   228      24.527  16.150   9.435  1.00  0.00                              
ATOM   4303  CB  ASN   228      24.814  17.509  10.089  1.00  0.00                              
ATOM   4305  C   ASN   228      24.093  16.372   7.916  1.00  0.00                              
ATOM   4307  O   ASN   228      24.533  15.641   7.027  1.00  0.00                              
ATOM   4309  CG  ASN   228      25.928  18.257   9.370  1.00  0.00                              
ATOM   4311  ND2 ASN   228      26.164  17.903   8.111  1.00  0.00                              
ATOM   4313 HD21 ASN   228      25.646  17.210   7.733  1.00  0.00                              
ATOM   4315 HD22 ASN   228      26.835  18.346   7.622  1.00  0.00                              
ATOM   4317  OD1 ASN   228      26.594  19.113   9.954  1.00  0.00                              
ATOM   4319  H   ASN   229      22.988  17.987   8.372  1.00  0.00                              
ATOM   4321  N   ASN   229      23.244  17.429   7.658  1.00  0.00                              
ATOM   4323  CA  ASN   229      22.718  17.759   6.258  1.00  0.00                              
ATOM   4325  CB  ASN   229      23.839  17.817   5.194  1.00  0.00                              
ATOM   4327  C   ASN   229      21.544  16.819   5.800  1.00  0.00                              
ATOM   4329  O   ASN   229      21.291  15.796   6.427  1.00  0.00                              
ATOM   4331  CG  ASN   229      24.775  18.992   5.401  1.00  0.00                              
ATOM   4333  ND2 ASN   229      26.070  18.758   5.234  1.00  0.00                              
ATOM   4335 HD21 ASN   229      26.343  17.889   4.992  1.00  0.00                              
ATOM   4337 HD22 ASN   229      26.689  19.459   5.359  1.00  0.00                              
ATOM   4339  OD1 ASN   229      24.337  20.098   5.729  1.00  0.00                              
ATOM   4341  H   SER   230      21.160  17.918   4.149  1.00  0.00                              
ATOM   4343  N   SER   230      20.870  17.184   4.647  1.00  0.00                              
ATOM   4345  CA  SER   230      19.663  16.409   4.154  1.00  0.00                              
ATOM   4347  CB  SER   230      18.679  17.354   3.377  1.00  0.00                              
ATOM   4349  C   SER   230      20.046  15.180   3.259  1.00  0.00                              
ATOM   4351  O   SER   230      21.199  15.042   2.842  1.00  0.00                              
ATOM   4353  OG  SER   230      19.219  17.757   2.099  1.00  0.00                              
ATOM   4355  H   LEU   231      18.194  14.409   3.387  1.00  0.00                              
ATOM   4357  N   LEU   231      19.047  14.271   3.004  1.00  0.00                              
ATOM   4359  CA  LEU   231      19.261  13.072   2.122  1.00  0.00                              
ATOM   4361  CB  LEU   231      20.035  11.989   2.871  1.00  0.00                              
ATOM   4363  C   LEU   231      17.914  12.487   1.641  1.00  0.00                              
ATOM   4365  O   LEU   231      17.711  12.296   0.443  1.00  0.00                              
ATOM   4367  CG  LEU   231      20.672  10.899   2.025  1.00  0.00                              
ATOM   4369  CD1 LEU   231      21.092  11.462   0.675  1.00  0.00                              
ATOM   4371  CD2 LEU   231      21.870  10.318   2.753  1.00  0.00                              
ATOM   4373  N   PRO   232      17.017  12.155   2.576  1.00  0.00                              
ATOM   4375  CA  PRO   232      15.698  11.590   2.226  1.00  0.00                              
ATOM   4377  CB  PRO   232      15.310  10.834   3.480  1.00  0.00                              
ATOM   4379  C   PRO   232      14.642  12.670   1.855  1.00  0.00                              
ATOM   4381  O   PRO   232      14.993  13.830   1.618  1.00  0.00                              
ATOM   4383  CG  PRO   232      15.896  11.664   4.597  1.00  0.00                              
ATOM   4385  CD  PRO   232      17.204  12.228   4.037  1.00  0.00                              
ATOM   4387  H   ASN   233      13.121  11.368   1.955  1.00  0.00                              
ATOM   4389  N   ASN   233      13.339  12.265   1.771  1.00  0.00                              
ATOM   4391  CA  ASN   233      12.236  13.229   1.439  1.00  0.00                              
ATOM   4393  CB  ASN   233      12.498  13.910   0.095  1.00  0.00                              
ATOM   4395  C   ASN   233      10.816  12.560   1.441  1.00  0.00                              
ATOM   4397  O   ASN   233       9.995  12.834   0.560  1.00  0.00                              
ATOM   4399  CG  ASN   233      11.662  15.158  -0.094  1.00  0.00                              
ATOM   4401  ND2 ASN   233      11.204  15.386  -1.318  1.00  0.00                              
ATOM   4403 HD21 ASN   233      11.427  14.780  -2.001  1.00  0.00                              
ATOM   4405 HD22 ASN   233      10.684  16.153  -1.482  1.00  0.00                              
ATOM   4407  OD1 ASN   233      11.461  15.942   0.842  1.00  0.00                              
ATOM   4409  N   PRO   234      10.521  11.704   2.442  1.00  0.00                              
ATOM   4411  CA  PRO   234       9.203  11.004   2.555  1.00  0.00                              
ATOM   4413  CB  PRO   234       9.500   9.845   3.536  1.00  0.00                              
ATOM   4415  C   PRO   234       8.045  11.906   3.100  1.00  0.00                              
ATOM   4417  O   PRO   234       7.983  13.103   2.809  1.00  0.00                              
ATOM   4419  CG  PRO   234      11.012   9.841   3.678  1.00  0.00                              
ATOM   4421  CD  PRO   234      11.412  11.283   3.492  1.00  0.00                              
ATOM   4423  H   HIS   235       7.168  10.359   4.001  1.00  0.00                              
ATOM   4425  N   HIS   235       7.106  11.292   3.862  1.00  0.00                              
ATOM   4427  CA  HIS   235       5.975  12.052   4.504  1.00  0.00                              
ATOM   4429  CB  HIS   235       4.998  12.563   3.436  1.00  0.00                              
ATOM   4431  C   HIS   235       5.198  11.169   5.558  1.00  0.00                              
ATOM   4433  O   HIS   235       5.043   9.962   5.362  1.00  0.00                              
ATOM   4435  CG  HIS   235       4.262  11.466   2.720  1.00  0.00                              
ATOM   4437  ND1 HIS   235       4.776  10.813   1.620  1.00  0.00                              
ATOM   4439  HD1 HIS   235       5.630  10.964   1.229  1.00  0.00                              
ATOM   4441  CE1 HIS   235       3.922   9.877   1.232  1.00  0.00                              
ATOM   4443  NE2 HIS   235       2.858   9.932   2.014  1.00  0.00                              
ATOM   4445  HE2 HIS   235       2.109   9.347   1.954  1.00  0.00                              
ATOM   4447  CD2 HIS   235       3.054  10.897   2.972  1.00  0.00                              
ATOM   4449  H   LEU   236       4.866  12.735   6.793  1.00  0.00                              
ATOM   4451  N   LEU   236       4.690  11.815   6.672  1.00  0.00                              
ATOM   4453  CA  LEU   236       3.876  11.077   7.728  1.00  0.00                              
ATOM   4455  CB  LEU   236       4.791  10.250   8.655  1.00  0.00                              
ATOM   4457  C   LEU   236       3.002  12.060   8.602  1.00  0.00                              
ATOM   4459  O   LEU   236       2.623  13.148   8.146  1.00  0.00                              
ATOM   4461  CG  LEU   236       4.104   9.501   9.801  1.00  0.00                              
ATOM   4463  CD1 LEU   236       3.185   8.412   9.247  1.00  0.00                              
ATOM   4465  CD2 LEU   236       5.148   8.900  10.732  1.00  0.00                              
ATOM   4467  H   ARG   237       3.000  10.775  10.152  1.00  0.00                              
ATOM   4469  N   ARG   237       2.678  11.624   9.864  1.00  0.00                              
ATOM   4471  CA  ARG   237       1.846  12.425  10.802  1.00  0.00                              
ATOM   4473  CB  ARG   237       2.572  13.706  11.248  1.00  0.00                              
ATOM   4475  C   ARG   237       0.499  12.776  10.198  1.00  0.00                              
ATOM   4477  O   ARG   237      -0.301  11.888   9.885  1.00  0.00                              
ATOM   4479  CG  ARG   237       3.744  13.462  12.188  1.00  0.00                              
ATOM   4481  CD  ARG   237       4.372  14.773  12.648  1.00  0.00                              
ATOM   4483  NE  ARG   237       5.463  14.553  13.594  1.00  0.00                              
ATOM   4485  HE  ARG   237       5.238  14.472  14.513  1.00  0.00                              
ATOM   4487  CZ  ARG   237       6.753  14.478  13.266  1.00  0.00                              
ATOM   4489  NH1 ARG   237       7.130  14.586  11.988  1.00  0.00                              
ATOM   4491  NH2 ARG   237       7.673  14.317  14.213  1.00  0.00                              
ATOM   4493  H   LYS   238       0.847  14.724  10.401  1.00  0.00                              
ATOM   4495  N   LYS   238       0.225  14.082  10.075  1.00  0.00                              
ATOM   4497  CA  LYS   238      -1.009  14.547   9.468  1.00  0.00                              
ATOM   4499  CB  LYS   238      -1.531  15.791  10.204  1.00  0.00                              
ATOM   4501  C   LYS   238      -0.795  14.876   7.991  1.00  0.00                              
ATOM   4503  O   LYS   238      -1.689  14.671   7.170  1.00  0.00                              
ATOM   4505  CG  LYS   238      -1.868  15.550  11.673  1.00  0.00                              
ATOM   4507  CD  LYS   238      -2.372  16.826  12.346  1.00  0.00                              
ATOM   4509  CE  LYS   238      -2.742  16.588  13.808  1.00  0.00                              
ATOM   4511  NZ  LYS   238      -3.231  17.834  14.468  1.00  0.00                              
ATOM   4513  H   ASP   239       1.038  15.548   8.324  1.00  0.00                              
ATOM   4515  N   ASP   239       0.393  15.392   7.654  1.00  0.00                              
ATOM   4517  CA  ASP   239       0.718  15.731   6.263  1.00  0.00                              
ATOM   4519  CB  ASP   239      -0.244  16.787   5.726  1.00  0.00                              
ATOM   4521  C   ASP   239       2.144  16.232   6.140  1.00  0.00                              
ATOM   4523  O   ASP   239       2.402  17.219   5.449  1.00  0.00                              
ATOM   4525  CG  ASP   239       0.017  17.137   4.271  1.00  0.00                              
ATOM   4527  OD1 ASP   239       0.111  16.209   3.437  1.00  0.00                              
ATOM   4529  OD2 ASP   239       0.099  18.347   3.946  1.00  0.00                              
ATOM   4531  H   SER   240       2.838  14.829   7.327  1.00  0.00                              
ATOM   4533  N   SER   240       3.073  15.575   6.815  1.00  0.00                              
ATOM   4535  CA  SER   240       4.462  15.985   6.766  1.00  0.00                              
ATOM   4537  CB  SER   240       4.563  17.508   6.862  1.00  0.00                              
ATOM   4539  C   SER   240       5.283  15.339   7.886  1.00  0.00                              
ATOM   4541  O   SER   240       4.886  15.369   9.051  1.00  0.00                              
ATOM   4543  OG  SER   240       5.921  17.918   6.890  1.00  0.00                              
ATOM   4545  H   ASN   241       6.691  14.791   6.626  1.00  0.00                              
ATOM   4547  N   ASN   241       6.441  14.781   7.531  1.00  0.00                              
ATOM   4549  CA  ASN   241       7.352  14.166   8.526  1.00  0.00                              
ATOM   4551  CB  ASN   241       7.629  12.691   8.171  1.00  0.00                              
ATOM   4553  C   ASN   241       8.699  14.933   8.657  1.00  0.00                              
ATOM   4555  O   ASN   241       8.865  15.750   9.567  1.00  0.00                              
ATOM   4557  CG  ASN   241       8.286  11.926   9.315  1.00  0.00                              
ATOM   4559  ND2 ASN   241       8.199  10.591   9.276  1.00  0.00                              
ATOM   4561 HD21 ASN   241       7.748  10.189   8.553  1.00  0.00                              
ATOM   4563 HD22 ASN   241       8.604  10.078   9.956  1.00  0.00                              
ATOM   4565  OD1 ASN   241       8.842  12.528  10.240  1.00  0.00                              
ATOM   4567  H   ASN   242       9.509  14.028   7.026  1.00  0.00                              
ATOM   4569  N   ASN   242       9.698  14.628   7.731  1.00  0.00                              
ATOM   4571  CA  ASN   242      11.089  15.244   7.827  1.00  0.00                              
ATOM   4573  CB  ASN   242      12.109  14.165   8.277  1.00  0.00                              
ATOM   4575  C   ASN   242      11.595  15.922   6.477  1.00  0.00                              
ATOM   4577  O   ASN   242      12.772  15.809   6.133  1.00  0.00                              
ATOM   4579  CG  ASN   242      11.916  12.818   7.538  1.00  0.00                              
ATOM   4581  ND2 ASN   242      13.004  12.018   7.414  1.00  0.00                              
ATOM   4583 HD21 ASN   242      13.823  12.314   7.773  1.00  0.00                              
ATOM   4585 HD22 ASN   242      12.924  11.194   6.964  1.00  0.00                              
ATOM   4587  OD1 ASN   242      10.804  12.492   7.107  1.00  0.00                              
ATOM   4589  N   PRO   243      10.675  16.576   5.691  1.00  0.00                              
ATOM   4591  CA  PRO   243      11.054  17.234   4.429  1.00  0.00                              
ATOM   4593  CB  PRO   243       9.737  17.319   3.666  1.00  0.00                              
ATOM   4595  C   PRO   243      11.686  18.633   4.644  1.00  0.00                              
ATOM   4597  O   PRO   243      12.475  19.099   3.815  1.00  0.00                              
ATOM   4599  CG  PRO   243       8.704  17.512   4.742  1.00  0.00                              
ATOM   4601  CD  PRO   243       9.213  16.686   5.935  1.00  0.00                              
ATOM   4603  H   ALA   244      10.742  18.890   6.375  1.00  0.00                              
ATOM   4605  N   ALA   244      11.335  19.293   5.773  1.00  0.00                              
ATOM   4607  CA  ALA   244      11.847  20.647   6.072  1.00  0.00                              
ATOM   4609  CB  ALA   244      10.945  21.708   5.445  1.00  0.00                              
ATOM   4611  C   ALA   244      11.977  20.891   7.610  1.00  0.00                              
ATOM   4613  O   ALA   244      12.070  22.050   8.055  1.00  0.00                              
ATOM   4615  H   LEU   245      11.792  18.932   8.029  1.00  0.00                              
ATOM   4617  N   LEU   245      11.924  19.778   8.421  1.00  0.00                              
ATOM   4619  CA  LEU   245      12.050  19.861   9.908  1.00  0.00                              
ATOM   4621  CB  LEU   245      10.745  19.349  10.570  1.00  0.00                              
ATOM   4623  C   LEU   245      13.277  19.013  10.420  1.00  0.00                              
ATOM   4625  O   LEU   245      14.337  19.553  10.682  1.00  0.00                              
ATOM   4627  CG  LEU   245      10.903  18.445  11.811  1.00  0.00                              
ATOM   4629  CD1 LEU   245      11.388  19.271  12.997  1.00  0.00                              
ATOM   4631  CD2 LEU   245       9.578  17.777  12.142  1.00  0.00                              
ATOM   4633  H   HIS   246      12.271  17.313  10.293  1.00  0.00                              
ATOM   4635  N   HIS   246      13.111  17.686  10.506  1.00  0.00                              
ATOM   4637  CA  HIS   246      14.225  16.801  10.923  1.00  0.00                              
ATOM   4639  CB  HIS   246      13.677  15.528  11.582  1.00  0.00                              
ATOM   4641  C   HIS   246      15.082  16.396   9.753  1.00  0.00                              
ATOM   4643  O   HIS   246      14.857  15.339   9.154  1.00  0.00                              
ATOM   4645  CG  HIS   246      13.035  15.762  12.896  1.00  0.00                              
ATOM   4647  ND1 HIS   246      13.684  16.365  13.950  1.00  0.00                              
ATOM   4649  HD1 HIS   246      14.569  16.709  13.936  1.00  0.00                              
ATOM   4651  CE1 HIS   246      12.851  16.472  14.964  1.00  0.00                              
ATOM   4653  NE2 HIS   246      11.718  15.878  14.638  1.00  0.00                              
ATOM   4655  HE2 HIS   246      10.982  15.750  15.228  1.00  0.00                              
ATOM   4657  CD2 HIS   246      11.819  15.396  13.359  1.00  0.00                              
ATOM   4659  H   PHE   247      16.274  17.936   9.976  1.00  0.00                              
ATOM   4661  N   PHE   247      16.083  17.172   9.449  1.00  0.00                              
ATOM   4663  CA  PHE   247      16.945  16.857   8.302  1.00  0.00                              
ATOM   4665  CB  PHE   247      17.825  18.039   7.930  1.00  0.00                              
ATOM   4667  C   PHE   247      17.792  15.579   8.542  1.00  0.00                              
ATOM   4669  O   PHE   247      18.300  14.974   7.588  1.00  0.00                              
ATOM   4671  CG  PHE   247      17.090  19.056   7.123  1.00  0.00                              
ATOM   4673  CD1 PHE   247      15.803  18.820   6.703  1.00  0.00                              
ATOM   4675  CE1 PHE   247      15.113  19.765   5.966  1.00  0.00                              
ATOM   4677  CZ  PHE   247      15.709  20.964   5.667  1.00  0.00                              
ATOM   4679  CD2 PHE   247      17.702  20.219   6.744  1.00  0.00                              
ATOM   4681  CE2 PHE   247      17.015  21.170   5.992  1.00  0.00                              
ATOM   4683  H   GLU   248      17.488  15.658  10.489  1.00  0.00                              
ATOM   4685  N   GLU   248      17.899  15.157   9.804  1.00  0.00                              
ATOM   4687  CA  GLU   248      18.631  13.905  10.161  1.00  0.00                              
ATOM   4689  CB  GLU   248      17.638  12.754  10.411  1.00  0.00                              
ATOM   4691  C   GLU   248      19.637  13.497   9.080  1.00  0.00                              
ATOM   4693  O   GLU   248      19.921  12.302   8.905  1.00  0.00                              
ATOM   4695  CG  GLU   248      18.301  11.437  10.850  1.00  0.00                              
ATOM   4697  CD  GLU   248      17.288  10.340  11.211  1.00  0.00                              
ATOM   4699  OE1 GLU   248      16.101  10.482  10.851  1.00  0.00                              
ATOM   4701  OE2 GLU   248      17.685   9.337  11.877  1.00  0.00                              
TER 
END
