
#######################################################
#                                                     #
#                        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   14 (  113),  selected   14 , name T0356TS249_5_3-D1
# Molecule2: number of CA atoms  124 (  963),  selected  124 , name T0356_D1.pdb
# PARAMETERS: T0356TS249_5_3-D1.T0356_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N       7           -
LGA    -       -      D       8           -
LGA    -       -      L       9           -
LGA    -       -      R      10           -
LGA    -       -      D      11           -
LGA    -       -      F      12           -
LGA    -       -      L      13           -
LGA    -       -      T      14           -
LGA    -       -      L      15           -
LGA    -       -      L      16           -
LGA    -       -      E      17           -
LGA    -       -      Q      18           -
LGA    -       -      Q      19           -
LGA    -       -      G      20           -
LGA    -       -      E      21           -
LGA    -       -      L      22           -
LGA    -       -      K      23           -
LGA    -       -      R      24           -
LGA    -       -      I      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      P      28           -
LGA    -       -      V      29           -
LGA    -       -      D      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      I      35           -
LGA    -       -      T      36           -
LGA    -       -      E      37           -
LGA    -       -      I      38           -
LGA    -       -      A      39           -
LGA    -       -      D      40           -
LGA    -       -      R      41           -
LGA    -       -      T      42           -
LGA    -       -      L      43           -
LGA    -       -      R      44           -
LGA    D     314      A      45          1.538
LGA    A     315      G      46          2.128
LGA    -       -      G      47           -
LGA    -       -      P      48           -
LGA    -       -      A      49           -
LGA    -       -      L      50           -
LGA    -       -      L      51           -
LGA    -       -      F      52           -
LGA    -       -      E      53           -
LGA    -       -      N      54           -
LGA    -       -      P      55           -
LGA    -       -      K      56           -
LGA    -       -      G      57           -
LGA    -       -      Y      58           -
LGA    -       -      S      59           -
LGA    -       -      M      60           -
LGA    -       -      P      61           -
LGA    -       -      V      62           -
LGA    -       -      L      63           -
LGA    -       -      C      64           -
LGA    -       -      N      65           -
LGA    -       -      L      66           -
LGA    -       -      F      67           -
LGA    I     316      G      68          4.902
LGA    Y     317      T      69          2.354
LGA    H     318      P      70          1.520
LGA    S     319      K      71          2.177
LGA    -       -      R      72           -
LGA    -       -      V      73           -
LGA    T     320      A      74          0.191
LGA    Y     321      M      75          1.371
LGA    -       -      G      76           -
LGA    -       -      M      77           -
LGA    T     322      G      78          1.889
LGA    G     323      Q      79          1.931
LGA    -       -      E      80           -
LGA    -       -      D      81           -
LGA    -       -      V      82           -
LGA    -       -      S      83           -
LGA    R     324      A      84          3.092
LGA    P     325      L      85          1.367
LGA    -       -      R      86           -
LGA    -       -      E      87           -
LGA    -       -      V      88           -
LGA    -       -      G      89           -
LGA    -       -      K      90           -
LGA    -       -      L      91           -
LGA    -       -      L      92           -
LGA    -       -      A      93           -
LGA    -       -      F      94           -
LGA    -       -      L      95           -
LGA    -       -      K      96           -
LGA    -       -      D     314           -
LGA    -       -      A     315           -
LGA    -       -      I     316           -
LGA    -       -      Y     317           -
LGA    -       -      H     318           -
LGA    -       -      S     319           -
LGA    -       -      T     320           -
LGA    -       -      Y     321           -
LGA    -       -      T     322           -
LGA    -       -      G     323           -
LGA    -       -      R     324           -
LGA    -       -      P     325           -
LGA    -       -      P     326           -
LGA    -       -      D     327           -
LGA    -       -      E     328           -
LGA    -       -      P     329           -
LGA    -       -      A     330           -
LGA    -       -      V     331           -
LGA    -       -      L     332           -
LGA    -       -      G     333           -
LGA    -       -      V     334           -
LGA    P     326      A     335          3.983
LGA    D     327      L     336          3.163
LGA    -       -      N     337           -
LGA    -       -      E     338           -
LGA    -       -      V     339           -
LGA    -       -      F     340           -
LGA    -       -      V     341           -
LGA    -       -      P     342           -
LGA    -       -      I     343           -
LGA    -       -      L     344           -
LGA    -       -      Q     345           -
LGA    -       -      K     346           -
LGA    -       -      Q     347           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   14  124    5.0     14    2.54     0.00      8.398     0.531

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.051283 * X  +   0.975678 * Y  +  -0.213126 * Z  + -70.129700
  Y_new =   0.895968 * X  +   0.049319 * Y  +   0.441371 * Z  +  63.219658
  Z_new =   0.441147 * X  +  -0.213589 * Y  +  -0.871647 * Z  + 138.821228 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.901287    0.240306  [ DEG:  -166.2315     13.7685 ]
  Theta =  -0.456877   -2.684716  [ DEG:   -26.1771   -153.8229 ]
  Phi   =   1.513621   -1.627972  [ DEG:    86.7241    -93.2759 ]
 
# 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: T0356TS249_5_3-D1                             
REMARK     2: T0356_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS249_5_3-D1.T0356_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   14  124   5.0   14   2.54    0.00   8.398
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS249_5_3-D1
REMARK PARENT number 3
PFRMAT TS
TARGET T0356
PARENT 1fx7_D
ATOM    417  N   ASP   314      50.997  73.779  87.805  1.00  9.99
ATOM    418  CA  ASP   314      50.516  73.941  86.464  1.00  9.99
ATOM    419  CB  ASP   314      49.432  75.027  86.288  1.00  9.99
ATOM    420  CG  ASP   314      50.027  76.416  86.496  1.00  9.99
ATOM    421  OD1 ASP   314      50.829  76.878  85.640  1.00  9.99
ATOM    422  OD2 ASP   314      49.666  77.047  87.523  1.00  9.99
ATOM    423  C   ASP   314      51.599  74.255  85.466  1.00  9.99
ATOM    424  O   ASP   314      51.257  74.703  84.376  1.00  9.99
ATOM    425  N   ALA   315      52.905  74.200  85.799  1.00  9.99
ATOM    426  CA  ALA   315      53.833  74.665  84.785  1.00  9.99
ATOM    427  CB  ALA   315      55.099  75.291  85.388  1.00  9.99
ATOM    428  C   ALA   315      54.297  73.585  83.818  1.00  9.99
ATOM    429  O   ALA   315      55.358  72.983  83.987  1.00  9.99
ATOM    430  N   ILE   316      53.501  73.334  82.752  1.00  9.99
ATOM    431  CA  ILE   316      53.692  72.339  81.712  1.00  9.99
ATOM    432  CB  ILE   316      52.402  71.778  81.183  1.00  9.99
ATOM    433  CG2 ILE   316      52.794  70.411  80.592  1.00  9.99
ATOM    434  CG1 ILE   316      51.383  71.530  82.309  1.00  9.99
ATOM    435  CD1 ILE   316      51.812  70.466  83.316  1.00  9.99
ATOM    436  C   ILE   316      54.566  72.682  80.494  1.00  9.99
ATOM    437  O   ILE   316      55.062  71.769  79.837  1.00  9.99
ATOM    438  N   TYR   317      54.651  73.968  80.080  1.00  9.99
ATOM    439  CA  TYR   317      55.224  74.522  78.857  1.00  9.99
ATOM    440  CB  TYR   317      55.120  76.053  78.783  1.00  9.99
ATOM    441  CG  TYR   317      53.710  76.449  78.546  1.00  9.99
ATOM    442  CD1 TYR   317      52.803  76.517  79.578  1.00  9.99
ATOM    443  CD2 TYR   317      53.301  76.770  77.274  1.00  9.99
ATOM    444  CE1 TYR   317      51.502  76.897  79.333  1.00  9.99
ATOM    445  CE2 TYR   317      52.004  77.150  77.025  1.00  9.99
ATOM    446  CZ  TYR   317      51.099  77.215  78.056  1.00  9.99
ATOM    447  OH  TYR   317      49.767  77.608  77.800  1.00  9.99
ATOM    448  C   TYR   317      56.666  74.251  78.550  1.00  9.99
ATOM    449  O   TYR   317      57.465  73.851  79.388  1.00  9.99
ATOM    450  N   HIS   318      57.027  74.440  77.259  1.00  9.99
ATOM    451  CA  HIS   318      58.396  74.327  76.860  1.00  9.99
ATOM    452  ND1 HIS   318      59.245  71.094  76.587  1.00  9.99
ATOM    453  CG  HIS   318      58.303  71.947  76.057  1.00  9.99
ATOM    454  CB  HIS   318      58.598  73.368  75.675  1.00  9.99
ATOM    455  NE2 HIS   318      57.340  69.951  76.486  1.00  9.99
ATOM    456  CD2 HIS   318      57.144  71.233  76.004  1.00  9.99
ATOM    457  CE1 HIS   318      58.617  69.916  76.824  1.00  9.99
ATOM    458  C   HIS   318      58.830  75.685  76.454  1.00  9.99
ATOM    459  O   HIS   318      58.440  76.149  75.401  1.00  9.99
ATOM    460  N   SER   319      59.645  76.394  77.249  1.00  9.99
ATOM    461  CA  SER   319      59.976  77.717  76.774  1.00  9.99
ATOM    462  CB  SER   319      60.075  78.776  77.885  1.00  9.99
ATOM    463  OG  SER   319      58.816  78.927  78.525  1.00  9.99
ATOM    464  C   SER   319      61.296  77.635  76.088  1.00  9.99
ATOM    465  O   SER   319      62.091  76.773  76.408  1.00  9.99
ATOM    466  N   THR   320      61.591  78.486  75.091  1.00  9.99
ATOM    467  CA  THR   320      62.907  78.366  74.516  1.00  9.99
ATOM    468  CB  THR   320      62.900  78.237  73.027  1.00  9.99
ATOM    469  OG1 THR   320      62.263  77.020  72.683  1.00  9.99
ATOM    470  CG2 THR   320      64.344  78.249  72.505  1.00  9.99
ATOM    471  C   THR   320      63.652  79.585  74.936  1.00  9.99
ATOM    472  O   THR   320      63.107  80.670  74.856  1.00  9.99
ATOM    473  N   TYR   321      64.907  79.444  75.412  1.00  9.99
ATOM    474  CA  TYR   321      65.640  80.513  76.060  1.00  9.99
ATOM    475  CB  TYR   321      66.995  80.062  76.618  1.00  9.99
ATOM    476  CG  TYR   321      66.836  79.307  77.891  1.00  9.99
ATOM    477  CD1 TYR   321      66.568  77.956  77.907  1.00  9.99
ATOM    478  CD2 TYR   321      66.988  79.973  79.085  1.00  9.99
ATOM    479  CE1 TYR   321      66.443  77.286  79.105  1.00  9.99
ATOM    480  CE2 TYR   321      66.866  79.312  80.284  1.00  9.99
ATOM    481  CZ  TYR   321      66.593  77.964  80.291  1.00  9.99
ATOM    482  OH  TYR   321      66.469  77.279  81.519  1.00  9.99
ATOM    483  C   TYR   321      65.987  81.731  75.265  1.00  9.99
ATOM    484  O   TYR   321      65.726  82.839  75.719  1.00  9.99
ATOM    485  N   THR   322      66.597  81.588  74.080  1.00  9.99
ATOM    486  CA  THR   322      67.043  82.724  73.316  1.00  9.99
ATOM    487  CB  THR   322      68.015  82.351  72.233  1.00  9.99
ATOM    488  OG1 THR   322      69.015  81.494  72.751  1.00  9.99
ATOM    489  CG2 THR   322      68.689  83.630  71.710  1.00  9.99
ATOM    490  C   THR   322      65.810  83.075  72.591  1.00  9.99
ATOM    491  O   THR   322      64.726  82.857  73.107  1.00  9.99
ATOM    492  N   GLY   323      65.893  83.656  71.393  1.00  9.99
ATOM    493  CA  GLY   323      64.631  83.783  70.749  1.00  9.99
ATOM    494  C   GLY   323      64.547  82.594  69.853  1.00  9.99
ATOM    495  O   GLY   323      64.890  82.674  68.676  1.00  9.99
ATOM    496  N   ARG   324      64.048  81.451  70.368  1.00  9.99
ATOM    497  CA  ARG   324      64.079  80.306  69.508  1.00  9.99
ATOM    498  CB  ARG   324      65.276  79.390  69.790  1.00  9.99
ATOM    499  CG  ARG   324      66.608  80.110  69.586  1.00  9.99
ATOM    500  CD  ARG   324      67.846  79.262  69.871  1.00  9.99
ATOM    501  NE  ARG   324      68.488  78.988  68.561  1.00  9.99
ATOM    502  CZ  ARG   324      69.848  78.990  68.462  1.00  9.99
ATOM    503  NH1 ARG   324      70.616  79.248  69.560  1.00  9.99
ATOM    504  NH2 ARG   324      70.440  78.728  67.260  1.00  9.99
ATOM    505  C   ARG   324      62.835  79.484  69.633  1.00  9.99
ATOM    506  O   ARG   324      62.164  79.418  70.659  1.00  9.99
ATOM    507  N   PRO   325      62.562  78.860  68.519  1.00  9.99
ATOM    508  CA  PRO   325      61.418  77.989  68.363  1.00  9.99
ATOM    509  CD  PRO   325      62.908  79.525  67.269  1.00  9.99
ATOM    510  CB  PRO   325      61.241  77.821  66.852  1.00  9.99
ATOM    511  CG  PRO   325      61.837  79.106  66.255  1.00  9.99
ATOM    512  C   PRO   325      61.349  76.656  69.092  1.00  9.99
ATOM    513  O   PRO   325      60.257  76.087  69.024  1.00  9.99
ATOM    514  N   PRO   326      62.337  76.107  69.756  1.00  9.99
ATOM    515  CA  PRO   326      62.242  74.741  70.233  1.00  9.99
ATOM    516  CD  PRO   326      63.721  76.450  69.456  1.00  9.99
ATOM    517  CB  PRO   326      63.672  74.202  70.271  1.00  9.99
ATOM    518  CG  PRO   326      64.573  75.441  70.226  1.00  9.99
ATOM    519  C   PRO   326      61.519  74.285  71.462  1.00  9.99
ATOM    520  O   PRO   326      60.759  75.010  72.109  1.00  9.99
ATOM    521  N   ASP   327      61.743  72.977  71.713  1.00  9.99
ATOM    522  CA  ASP   327      61.324  72.196  72.835  1.00  9.99
ATOM    523  CB  ASP   327      61.055  70.731  72.418  1.00  9.99
ATOM    524  CG  ASP   327      60.679  69.835  73.593  1.00  9.99
ATOM    525  OD1 ASP   327      61.121  70.093  74.745  1.00  9.99
ATOM    526  OD2 ASP   327      59.946  68.844  73.331  1.00  9.99
ATOM    527  C   ASP   327      62.550  72.195  73.751  1.00  9.99
ATOM    528  O   ASP   327      63.615  71.697  73.294  1.00  9.99
ATOM    529  OXT ASP   327      62.440  72.684  74.908  1.00  9.99
TER
END
