
#######################################################
#                                                     #
#                        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   38 (  183),  selected   38 , name T0316TS102_4-D2
# Molecule2: number of CA atoms   60 (  457),  selected   60 , name T0316_D2.pdb
# PARAMETERS: T0316TS102_4-D2.T0316_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G     220      G     220           -
LGA    R     221      R     221           -
LGA    M     222      M     222           -
LGA    -       -      M     223           -
LGA    -       -      T     224           -
LGA    -       -      V     225           -
LGA    -       -      D     226           -
LGA    -       -      G     227           -
LGA    -       -      R     228           -
LGA    -       -      D     229           -
LGA    -       -      M     230           -
LGA    -       -      G     231           -
LGA    -       -      E     232           -
LGA    -       -      H     233           -
LGA    -       -      A     234           -
LGA    -       -      G     235           -
LGA    -       -      L     236           -
LGA    -       -      M     237           -
LGA    -       -      Y     238           -
LGA    -       -      Y     239           -
LGA    M     223      T     240          4.875
LGA    T     224      I     241          3.052
LGA    -       -      G     242           -
LGA    V     225      Q     243          1.553
LGA    D     226      R     244          0.990
LGA    L     236      G     245          0.476
LGA    M     237      G     246           #
LGA    Y     238      L     247           -
LGA    Y     239      -       -           -
LGA    T     240      G     248          3.918
LGA    I     241      I     249          3.556
LGA    G     242      G     250          5.066
LGA    Q     243      G     251          2.543
LGA    R     244      D     256          3.666
LGA    G     245      N     257          3.494
LGA    G     246      A     258          4.452
LGA    L     247      P     259          3.011
LGA    G     248      W     260          3.184
LGA    I     249      F     261          3.334
LGA    Q     252      V     262          4.755
LGA    F     261      V     263          2.814
LGA    V     262      G     264          1.984
LGA    V     263      -       -           -
LGA    G     264      K     265          2.609
LGA    K     265      D     266          1.747
LGA    D     266      L     267          3.340
LGA    L     267      S     268          3.498
LGA    S     268      K     269          4.033
LGA    K     269      N     270          3.817
LGA    N     270      -       -           -
LGA    I     271      I     271          1.921
LGA    L     272      L     272          1.462
LGA    Y     273      Y     273          2.099
LGA    V     274      V     274          2.868
LGA    G     275      -       -           -
LGA    Q     276      G     275          2.234
LGA    -       -      Q     276           -
LGA    -       -      G     277           -
LGA    -       -      F     278           -
LGA    -       -      Y     279           -
LGA    -       -      H     280           -
LGA    -       -      D     281           -
LGA    -       -      S     282           -
LGA    -       -      L     283           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   38   60    5.0     29    3.19    20.69     27.792     0.882

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.317131 * X  +   0.083103 * Y  +  -0.944734 * Z  +  51.520229
  Y_new =  -0.628183 * X  +   0.727886 * Y  +   0.274898 * Z  +  -0.119254
  Z_new =   0.710503 * X  +   0.680644 * Y  +  -0.178631 * Z  + -56.510532 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.827452   -1.314141  [ DEG:   104.7053    -75.2947 ]
  Theta =  -0.790213   -2.351380  [ DEG:   -45.2759   -134.7241 ]
  Phi   =  -2.038307    1.103286  [ DEG:  -116.7864     63.2136 ]
 
# 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: T0316TS102_4-D2                               
REMARK     2: T0316_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS102_4-D2.T0316_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   38   60   5.0   29   3.19   20.69  27.792
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS102_4-D2
PFRMAT TS
TARGET T0316
MODEL 4
PARENT 2btw_A
ATOM    650  N   GLY   220      30.309   9.266  -5.327  1.00  1.00
ATOM    651  CA  GLY   220      29.200   9.938  -4.651  1.00  1.00
ATOM    652  C   GLY   220      29.239  11.459  -4.623  1.00  1.00
ATOM    653  O   GLY   220      28.500  12.082  -3.873  1.00  1.00
ATOM    654  N   ARG   221      30.127  12.025  -5.432  1.00  1.00
ATOM    655  CA  ARG   221      30.358  13.455  -5.596  1.00  1.00
ATOM    656  C   ARG   221      30.409  13.686  -7.118  1.00  1.00
ATOM    657  O   ARG   221      31.146  12.965  -7.830  1.00  1.00
ATOM    658  CB  ARG   221      31.695  13.872  -4.944  1.00  1.00
ATOM    659  N   MET   222      29.578  14.594  -7.624  1.00  1.00
ATOM    660  CA  MET   222      29.540  14.890  -9.060  1.00  1.00
ATOM    661  C   MET   222      29.686  16.369  -9.267  1.00  1.00
ATOM    662  O   MET   222      29.432  17.162  -8.337  1.00  1.00
ATOM    663  CB  MET   222      28.257  14.333  -9.687  1.00  1.00
ATOM    664  N   MET   223      30.133  16.749 -10.457  1.00  1.00
ATOM    665  CA  MET   223      30.225  18.149 -10.828  1.00  1.00
ATOM    666  C   MET   223      29.487  18.402 -12.158  1.00  1.00
ATOM    667  O   MET   223      29.602  17.620 -13.129  1.00  1.00
ATOM    668  CB  MET   223      31.719  18.657 -10.853  1.00  1.00
ATOM    669  N   THR   224      28.719  19.495 -12.168  1.00  1.00
ATOM    670  CA  THR   224      28.038  19.930 -13.375  1.00  1.00
ATOM    671  C   THR   224      28.574  21.344 -13.637  1.00  1.00
ATOM    672  O   THR   224      28.689  22.163 -12.708  1.00  1.00
ATOM    673  CB  THR   224      26.502  19.918 -13.201  1.00  1.00
ATOM    674  N   VAL   225      28.958  21.593 -14.884  1.00  1.00
ATOM    675  CA  VAL   225      29.456  22.902 -15.280  1.00  1.00
ATOM    676  C   VAL   225      28.450  23.665 -16.154  1.00  1.00
ATOM    677  O   VAL   225      27.667  23.068 -16.913  1.00  1.00
ATOM    678  CB  VAL   225      30.835  22.806 -16.024  1.00  1.00
ATOM    679  N   ASP   226      28.472  24.990 -16.017  1.00  1.00
ATOM    680  CA  ASP   226      27.635  25.909 -16.752  1.00  1.00
ATOM    681  C   ASP   226      28.584  26.914 -17.451  1.00  1.00
ATOM    682  O   ASP   226      29.397  27.531 -16.814  1.00  1.00
ATOM    683  CB  ASP   226      26.646  26.573 -15.793  1.00  1.00
ATOM    684  N   LEU   236      28.547  26.997 -18.778  1.00  1.00
ATOM    685  CA  LEU   236      29.592  27.739 -19.485  1.00  1.00
ATOM    686  C   LEU   236      29.032  28.266 -20.818  1.00  1.00
ATOM    687  O   LEU   236      28.045  27.750 -21.335  1.00  1.00
ATOM    688  CB  LEU   236      30.837  26.857 -19.720  1.00  1.00
ATOM    689  N   MET   237      29.709  29.263 -21.391  1.00  1.00
ATOM    690  CA  MET   237      29.341  29.810 -22.698  1.00  1.00
ATOM    691  C   MET   237      30.103  29.032 -23.763  1.00  1.00
ATOM    692  O   MET   237      31.344  29.037 -23.793  1.00  1.00
ATOM    693  CB  MET   237      29.661  31.324 -22.725  1.00  1.00
ATOM    694  N   TYR   238      29.383  28.323 -24.631  1.00  1.00
ATOM    695  CA  TYR   238      30.039  27.431 -25.580  1.00  1.00
ATOM    696  C   TYR   238      31.093  28.135 -26.466  1.00  1.00
ATOM    697  O   TYR   238      32.171  27.580 -26.771  1.00  1.00
ATOM    698  CB  TYR   238      28.991  26.769 -26.474  1.00  1.00
ATOM    699  N   TYR   239      30.763  29.347 -26.894  1.00  1.00
ATOM    700  CA  TYR   239      31.573  30.028 -27.887  1.00  1.00
ATOM    701  C   TYR   239      32.971  30.288 -27.317  1.00  1.00
ATOM    702  O   TYR   239      33.941  30.244 -28.057  1.00  1.00
ATOM    703  CB  TYR   239      30.847  31.293 -28.383  1.00  1.00
ATOM    704  N   THR   240      33.082  30.488 -25.994  1.00  1.00
ATOM    705  CA  THR   240      34.413  30.563 -25.332  1.00  1.00
ATOM    706  C   THR   240      35.273  29.290 -25.402  1.00  1.00
ATOM    707  O   THR   240      36.473  29.327 -25.155  1.00  1.00
ATOM    708  CB  THR   240      34.315  31.007 -23.871  1.00  1.00
ATOM    709  N   ILE   241      34.691  28.151 -25.714  1.00  1.00
ATOM    710  CA  ILE   241      35.512  26.996 -25.941  1.00  1.00
ATOM    711  C   ILE   241      35.549  26.637 -27.427  1.00  1.00
ATOM    712  O   ILE   241      36.021  25.551 -27.809  1.00  1.00
ATOM    713  CB  ILE   241      35.130  25.794 -25.015  1.00  1.00
ATOM    714  N   GLY   242      35.055  27.550 -28.255  1.00  1.00
ATOM    715  CA  GLY   242      35.088  27.351 -29.703  1.00  1.00
ATOM    716  C   GLY   242      33.893  26.577 -30.176  1.00  1.00
ATOM    717  O   GLY   242      33.879  26.050 -31.300  1.00  1.00
ATOM    718  N   GLN   243      32.848  26.511 -29.356  1.00  1.00
ATOM    719  CA  GLN   243      31.679  25.781 -29.813  1.00  1.00
ATOM    720  C   GLN   243      30.523  26.701 -30.136  1.00  1.00
ATOM    721  O   GLN   243      30.544  27.903 -29.800  1.00  1.00
ATOM    722  CB  GLN   243      31.263  24.671 -28.814  1.00  1.00
ATOM    723  N   ARG   244      29.482  26.116 -30.728  1.00  1.00
ATOM    724  CA  ARG   244      28.379  26.898 -31.226  1.00  1.00
ATOM    725  C   ARG   244      27.404  27.260 -30.147  1.00  1.00
ATOM    726  O   ARG   244      26.525  26.495 -29.776  1.00  1.00
ATOM    727  CB  ARG   244      27.714  26.297 -32.468  1.00  1.00
ATOM    728  N   GLY   245      27.822  28.367 -29.543  1.00  1.00
ATOM    729  CA  GLY   245      27.076  29.533 -29.170  1.00  1.00
ATOM    730  C   GLY   245      26.834  29.785 -27.687  1.00  1.00
ATOM    731  O   GLY   245      27.768  30.175 -26.969  1.00  1.00
ATOM    732  N   GLY   246      25.602  29.604 -27.248  1.00  1.00
ATOM    733  CA  GLY   246      25.181  30.202 -25.992  1.00  1.00
ATOM    734  C   GLY   246      25.563  29.351 -24.808  1.00  1.00
ATOM    735  O   GLY   246      26.446  28.494 -24.911  1.00  1.00
ATOM    736  N   LEU   247      24.895  29.610 -23.689  1.00  1.00
ATOM    737  CA  LEU   247      25.226  28.991 -22.420  1.00  1.00
ATOM    738  C   LEU   247      24.811  27.538 -22.491  1.00  1.00
ATOM    739  O   LEU   247      23.862  27.188 -23.192  1.00  1.00
ATOM    740  CB  LEU   247      24.432  29.686 -21.299  1.00  1.00
ATOM    741  N   GLY   248      25.578  26.671 -21.851  1.00  1.00
ATOM    742  CA  GLY   248      25.250  25.242 -21.847  1.00  1.00
ATOM    743  C   GLY   248      25.473  24.726 -20.436  1.00  1.00
ATOM    744  O   GLY   248      26.166  25.349 -19.656  1.00  1.00
ATOM    745  N   ILE   249      24.916  23.548 -20.140  1.00  1.00
ATOM    746  CA  ILE   249      25.154  22.874 -18.860  1.00  1.00
ATOM    747  C   ILE   249      25.401  21.435 -19.235  1.00  1.00
ATOM    748  O   ILE   249      24.682  20.885 -20.096  1.00  1.00
ATOM    749  CB  ILE   249      23.904  22.955 -17.913  1.00  1.00
ATOM    750  N   GLN   252      26.409  20.834 -18.596  1.00  1.00
ATOM    751  CA  GLN   252      26.701  19.385 -18.731  1.00  1.00
ATOM    752  C   GLN   252      27.577  18.909 -17.603  1.00  1.00
ATOM    753  O   GLN   252      28.335  19.688 -17.049  1.00  1.00
ATOM    754  CB  GLN   252      27.330  19.034 -20.070  1.00  1.00
ATOM    755  N   PHE   261      27.449  17.625 -17.245  1.00  1.00
ATOM    756  CA  PHE   261      28.344  17.085 -16.210  1.00  1.00
ATOM    757  C   PHE   261      29.786  16.932 -16.686  1.00  1.00
ATOM    758  O   PHE   261      30.052  16.793 -17.887  1.00  1.00
ATOM    759  CB  PHE   261      27.729  15.702 -15.886  1.00  1.00
ATOM    760  N   VAL   262      30.714  16.985 -15.736  1.00  1.00
ATOM    761  CA  VAL   262      32.119  16.559 -15.969  1.00  1.00
ATOM    762  C   VAL   262      32.317  15.112 -15.571  1.00  1.00
ATOM    763  O   VAL   262      31.757  14.674 -14.562  1.00  1.00
ATOM    764  CB  VAL   262      33.098  17.449 -15.217  1.00  1.00
ATOM    765  N   VAL   263      33.108  14.376 -16.365  1.00  1.00
ATOM    766  CA  VAL   263      33.307  12.945 -16.147  1.00  1.00
ATOM    767  C   VAL   263      34.719  12.628 -15.701  1.00  1.00
ATOM    768  O   VAL   263      34.927  11.618 -15.056  1.00  1.00
ATOM    769  CB  VAL   263      33.034  12.151 -17.412  1.00  1.00
ATOM    770  N   GLY   264      35.678  13.460 -16.115  1.00  1.00
ATOM    771  CA  GLY   264      37.069  13.156 -15.850  1.00  1.00
ATOM    772  C   GLY   264      37.975  14.359 -16.003  1.00  1.00
ATOM    773  O   GLY   264      37.619  15.366 -16.609  1.00  1.00
ATOM    774  N   LYS   265      39.144  14.232 -15.407  1.00  1.00
ATOM    775  CA  LYS   265      40.210  15.186 -15.581  1.00  1.00
ATOM    776  C   LYS   265      41.489  14.452 -16.004  1.00  1.00
ATOM    777  O   LYS   265      41.888  13.407 -15.428  1.00  1.00
ATOM    778  CB  LYS   265      40.443  15.964 -14.282  1.00  1.00
ATOM    779  N   ASP   266      42.115  14.999 -17.034  1.00  1.00
ATOM    780  CA  ASP   266      43.356  14.437 -17.510  1.00  1.00
ATOM    781  C   ASP   266      44.501  15.368 -17.092  1.00  1.00
ATOM    782  O   ASP   266      44.631  16.501 -17.581  1.00  1.00
ATOM    783  CB  ASP   266      43.339  14.145 -19.015  1.00  1.00
ATOM    784  N   LEU   267      45.261  14.883 -16.119  1.00  1.00
ATOM    785  CA  LEU   267      46.407  15.621 -15.520  1.00  1.00
ATOM    786  C   LEU   267      47.476  16.044 -16.560  1.00  1.00
ATOM    787  O   LEU   267      47.895  17.210 -16.601  1.00  1.00
ATOM    788  CB  LEU   267      47.048  14.727 -14.452  1.00  1.00
ATOM    789  N   SER   268      47.893  15.087 -17.403  1.00  1.00
ATOM    790  CA  SER   268      48.918  15.296 -18.443  1.00  1.00
ATOM    791  C   SER   268      48.617  16.470 -19.385  1.00  1.00
ATOM    792  O   SER   268      49.508  17.215 -19.783  1.00  1.00
ATOM    793  CB  SER   268      49.097  14.012 -19.291  1.00  1.00
ATOM    794  N   LYS   269      47.353  16.614 -19.764  1.00  1.00
ATOM    795  CA  LYS   269      46.960  17.651 -20.703  1.00  1.00
ATOM    796  C   LYS   269      46.165  18.803 -20.057  1.00  1.00
ATOM    797  O   LYS   269      45.847  19.785 -20.732  1.00  1.00
ATOM    798  CB  LYS   269      46.106  17.068 -21.844  1.00  1.00
ATOM    799  N   ASN   270      45.821  18.668 -18.780  1.00  1.00
ATOM    800  CA  ASN   270      45.047  19.694 -18.076  1.00  1.00
ATOM    801  C   ASN   270      43.736  19.941 -18.852  1.00  1.00
ATOM    802  O   ASN   270      43.446  21.058 -19.274  1.00  1.00
ATOM    803  CB  ASN   270      45.876  20.995 -17.914  1.00  1.00
ATOM    804  N   ILE   271      43.005  18.857 -19.091  1.00  1.00
ATOM    805  CA  ILE   271      41.775  18.911 -19.792  1.00  1.00
ATOM    806  C   ILE   271      40.750  18.204 -18.940  1.00  1.00
ATOM    807  O   ILE   271      41.063  17.215 -18.287  1.00  1.00
ATOM    808  CB  ILE   271      41.863  18.206 -21.153  1.00  1.00
ATOM    809  N   LEU   272      39.529  18.704 -19.019  1.00  1.00
ATOM    810  CA  LEU   272      38.363  18.111 -18.391  1.00  1.00
ATOM    811  C   LEU   272      37.465  17.492 -19.453  1.00  1.00
ATOM    812  O   LEU   272      37.326  18.036 -20.580  1.00  1.00
ATOM    813  CB  LEU   272      37.619  19.212 -17.627  1.00  1.00
ATOM    814  N   TYR   273      36.843  16.363 -19.097  1.00  1.00
ATOM    815  CA  TYR   273      35.873  15.720 -19.982  1.00  1.00
ATOM    816  C   TYR   273      34.438  16.183 -19.689  1.00  1.00
ATOM    817  O   TYR   273      33.877  15.940 -18.614  1.00  1.00
ATOM    818  CB  TYR   273      35.974  14.182 -19.909  1.00  1.00
ATOM    819  N   VAL   274      33.849  16.835 -20.670  1.00  1.00
ATOM    820  CA  VAL   274      32.465  17.271 -20.575  1.00  1.00
ATOM    821  C   VAL   274      31.573  16.219 -21.269  1.00  1.00
ATOM    822  O   VAL   274      31.734  15.931 -22.451  1.00  1.00
ATOM    823  CB  VAL   274      32.249  18.636 -21.269  1.00  1.00
ATOM    824  N   GLY   275      30.663  15.657 -20.492  1.00  1.00
ATOM    825  CA  GLY   275      29.640  14.718 -20.953  1.00  1.00
ATOM    826  C   GLY   275      28.490  15.537 -21.549  1.00  1.00
ATOM    827  O   GLY   275      27.418  15.721 -20.934  1.00  1.00
ATOM    828  N   GLN   276      28.706  15.992 -22.788  1.00  1.00
ATOM    829  CA  GLN   276      27.801  16.921 -23.426  1.00  1.00
ATOM    830  C   GLN   276      26.446  16.251 -23.751  1.00  1.00
ATOM    831  O   GLN   276      26.367  15.383 -24.605  1.00  1.00
ATOM    832  CB  GLN   276      28.476  17.498 -24.678  1.00  1.00
TER
END
