
#######################################################
#                                                     #
#                        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 (  126),  selected   14 , name T0386TS009_2_2-D1
# Molecule2: number of CA atoms  206 ( 1668),  selected  206 , name T0386_D1.pdb
# PARAMETERS: T0386TS009_2_2-D1.T0386_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      I      13           -
LGA    -       -      I      14           -
LGA    -       -      S      15           -
LGA    -       -      P      16           -
LGA    -       -      H      17           -
LGA    -       -      H      18           -
LGA    -       -      Y      19           -
LGA    -       -      V      20           -
LGA    -       -      Y      21           -
LGA    -       -      P      22           -
LGA    -       -      N      23           -
LGA    -       -      T      24           -
LGA    -       -      T      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    Q      74      K      28          1.589
LGA    L      75      N      29          2.366
LGA    F      76      K      30          3.401
LGA    -       -      Y      31           -
LGA    K      77      G      32          4.224
LGA    N      78      I      33          2.390
LGA    -       -      K      34           -
LGA    T      79      N      35          1.930
LGA    F      80      L      36          3.967
LGA    E      81      N      37          1.751
LGA    W      82      A      38          1.493
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    A      83      E      41          0.971
LGA    G      84      K      42          1.284
LGA    Y      85      C      43          1.943
LGA    L      86      S      44          1.664
LGA    -       -      H      45           -
LGA    R      87      D      46          2.097
LGA    -       -      T      47           -
LGA    -       -      A      48           -
LGA    -       -      K      49           -
LGA    -       -      A      50           -
LGA    -       -      M      51           -
LGA    -       -      I      52           -
LGA    -       -      N      53           -
LGA    -       -      L      54           -
LGA    -       -      R      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      S      58           -
LGA    -       -      L      59           -
LGA    -       -      P      60           -
LGA    -       -      E      61           -
LGA    -       -      Y      62           -
LGA    -       -      F      63           -
LGA    -       -      D      64           -
LGA    -       -      T      65           -
LGA    -       -      A      66           -
LGA    -       -      Y      67           -
LGA    -       -      L      68           -
LGA    -       -      C      69           -
LGA    -       -      H      70           -
LGA    -       -      I      71           -
LGA    -       -      H      72           -
LGA    -       -      Q      73           -
LGA    -       -      Q      74           -
LGA    -       -      L      75           -
LGA    -       -      F      76           -
LGA    -       -      K      77           -
LGA    -       -      N      78           -
LGA    -       -      T      79           -
LGA    -       -      F      80           -
LGA    -       -      E      81           -
LGA    -       -      W      82           -
LGA    -       -      A      83           -
LGA    -       -      G      84           -
LGA    -       -      Y      85           -
LGA    -       -      L      86           -
LGA    -       -      R      87           -
LGA    -       -      H      88           -
LGA    -       -      I      89           -
LGA    -       -      P      90           -
LGA    -       -      F      91           -
LGA    -       -      T      92           -
LGA    -       -      F      93           -
LGA    -       -      A      94           -
LGA    -       -      D      95           -
LGA    -       -      G      96           -
LGA    -       -      T      97           -
LGA    -       -      T      98           -
LGA    -       -      A      99           -
LGA    -       -      A     100           -
LGA    -       -      M     101           -
LGA    -       -      P     102           -
LGA    -       -      E     103           -
LGA    -       -      M     104           -
LGA    -       -      K     105           -
LGA    -       -      R     106           -
LGA    -       -      T     107           -
LGA    -       -      G     108           -
LGA    -       -      W     109           -
LGA    -       -      K     110           -
LGA    -       -      N     111           -
LGA    -       -      A     112           -
LGA    -       -      F     113           -
LGA    -       -      A     114           -
LGA    -       -      I     115           -
LGA    -       -      G     116           -
LGA    -       -      D     117           -
LGA    -       -      E     118           -
LGA    -       -      I     119           -
LGA    -       -      Q     120           -
LGA    -       -      E     121           -
LGA    -       -      G     122           -
LGA    -       -      L     123           -
LGA    -       -      Q     124           -
LGA    -       -      R     125           -
LGA    -       -      L     126           -
LGA    -       -      D     127           -
LGA    -       -      Q     128           -
LGA    -       -      T     129           -
LGA    -       -      L     130           -
LGA    -       -      A     131           -
LGA    -       -      E     132           -
LGA    -       -      K     133           -
LGA    -       -      N     134           -
LGA    -       -      N     135           -
LGA    -       -      L     136           -
LGA    -       -      Q     137           -
LGA    -       -      G     138           -
LGA    -       -      L     139           -
LGA    -       -      T     140           -
LGA    -       -      R     141           -
LGA    -       -      E     142           -
LGA    -       -      E     143           -
LGA    -       -      F     144           -
LGA    -       -      N     145           -
LGA    -       -      S     146           -
LGA    -       -      E     147           -
LGA    -       -      A     148           -
LGA    -       -      I     149           -
LGA    -       -      E     150           -
LGA    -       -      L     151           -
LGA    -       -      F     152           -
LGA    -       -      N     153           -
LGA    -       -      S     154           -
LGA    -       -      L     155           -
LGA    -       -      N     156           -
LGA    -       -      Q     157           -
LGA    -       -      L     158           -
LGA    -       -      H     159           -
LGA    -       -      P     160           -
LGA    -       -      F     161           -
LGA    -       -      R     162           -
LGA    -       -      E     163           -
LGA    -       -      G     164           -
LGA    -       -      N     165           -
LGA    -       -      G     166           -
LGA    -       -      R     167           -
LGA    -       -      T     168           -
LGA    -       -      Q     169           -
LGA    -       -      R     170           -
LGA    -       -      L     171           -
LGA    -       -      F     172           -
LGA    -       -      F     173           -
LGA    -       -      E     174           -
LGA    -       -      N     175           -
LGA    -       -      L     176           -
LGA    -       -      A     177           -
LGA    -       -      K     178           -
LGA    -       -      A     179           -
LGA    -       -      A     180           -
LGA    -       -      G     181           -
LGA    -       -      H     182           -
LGA    -       -      Q     183           -
LGA    -       -      L     184           -
LGA    -       -      N     185           -
LGA    -       -      F     186           -
LGA    -       -      S     187           -
LGA    -       -      L     188           -
LGA    -       -      I     189           -
LGA    -       -      T     190           -
LGA    -       -      K     191           -
LGA    -       -      E     192           -
LGA    -       -      R     193           -
LGA    -       -      M     194           -
LGA    -       -      M     195           -
LGA    -       -      V     196           -
LGA    -       -      A     197           -
LGA    -       -      S     198           -
LGA    -       -      V     199           -
LGA    -       -      A     200           -
LGA    -       -      V     201           -
LGA    -       -      A     202           -
LGA    -       -      E     203           -
LGA    -       -      N     204           -
LGA    -       -      G     205           -
LGA    -       -      D     206           -
LGA    -       -      L     207           -
LGA    -       -      E     208           -
LGA    -       -      P     209           -
LGA    -       -      M     210           -
LGA    -       -      Q     211           -
LGA    -       -      H     212           -
LGA    -       -      L     213           -
LGA    -       -      F     214           -
LGA    -       -      E     215           -
LGA    -       -      D     216           -
LGA    -       -      I     217           -
LGA    -       -      S     218           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   14  206    5.0     14    2.41     0.00      5.166     0.557

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.180024 * X  +   0.982486 * Y  +   0.048091 * Z  +  51.209679
  Y_new =  -0.960342 * X  +  -0.164963 * Y  +  -0.224788 * Z  +  87.624413
  Z_new =  -0.212918 * X  +  -0.086651 * Y  +   0.973220 * Z  +  48.321693 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.088801    3.052791  [ DEG:    -5.0879    174.9121 ]
  Theta =   0.214560    2.927032  [ DEG:    12.2934    167.7066 ]
  Phi   =  -1.756104    1.385489  [ DEG:  -100.6173     79.3827 ]
 
# 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: T0386TS009_2_2-D1                             
REMARK     2: T0386_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS009_2_2-D1.T0386_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   14  206   5.0   14   2.41    0.00   5.166
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS009_2_2-D1
REMARK PARENT number 2
PFRMAT TS                                                                       
TARGET T0386                                                                    
PARENT N/A                                                                      
ATOM    595  N   GLN    74      21.494  70.466  40.156  1.00  0.00             
ATOM    596  CA  GLN    74      20.056  70.586  40.361  1.00  0.00             
ATOM    597  C   GLN    74      19.742  71.306  41.668  1.00  0.00             
ATOM    598  O   GLN    74      18.929  72.229  41.700  1.00  0.00             
ATOM    599  CB  GLN    74      19.408  71.322  39.186  1.00  0.00             
ATOM    600  CG  GLN    74      20.149  72.577  38.756  1.00  0.00             
ATOM    601  CD  GLN    74      20.652  72.496  37.328  1.00  0.00             
ATOM    602  OE1 GLN    74      20.322  73.339  36.494  1.00  0.00             
ATOM    603  NE2 GLN    74      21.456  71.478  37.043  1.00  0.00             
ATOM    604  N   LEU    75      20.394  70.876  42.745  1.00  0.00             
ATOM    605  CA  LEU    75      20.185  71.479  44.056  1.00  0.00             
ATOM    606  C   LEU    75      20.213  73.001  43.974  1.00  0.00             
ATOM    607  O   LEU    75      20.661  73.675  44.902  1.00  0.00             
ATOM    608  CB  LEU    75      18.861  71.008  44.658  1.00  0.00             
ATOM    609  CG  LEU    75      18.755  71.053  46.184  1.00  0.00             
ATOM    610  CD1 LEU    75      17.357  71.468  46.614  1.00  0.00             
ATOM    611  CD2 LEU    75      19.801  71.991  46.767  1.00  0.00             
ATOM    612  N   PHE    76      19.730  73.538  42.858  1.00  0.00             
ATOM    613  CA  PHE    76      19.698  74.981  42.653  1.00  0.00             
ATOM    614  C   PHE    76      21.023  75.624  43.050  1.00  0.00             
ATOM    615  O   PHE    76      21.958  75.682  42.252  1.00  0.00             
ATOM    616  CB  PHE    76      19.370  75.307  41.194  1.00  0.00             
ATOM    617  CG  PHE    76      19.340  76.780  40.895  1.00  0.00             
ATOM    618  CD1 PHE    76      20.512  77.515  40.846  1.00  0.00             
ATOM    619  CD2 PHE    76      18.140  77.429  40.662  1.00  0.00             
ATOM    620  CE1 PHE    76      20.484  78.869  40.571  1.00  0.00             
ATOM    621  CE2 PHE    76      18.113  78.783  40.386  1.00  0.00             
ATOM    622  CZ  PHE    76      19.278  79.502  40.341  1.00  0.00             
ATOM    623  N   LYS    77      21.093  76.107  44.286  1.00  0.00             
ATOM    624  CA  LYS    77      22.303  76.746  44.790  1.00  0.00             
ATOM    625  C   LYS    77      23.550  75.979  44.365  1.00  0.00             
ATOM    626  O   LYS    77      24.515  75.874  45.124  1.00  0.00             
ATOM    627  CB  LYS    77      22.385  78.195  44.305  1.00  0.00             
ATOM    628  CG  LYS    77      23.011  79.151  45.306  1.00  0.00             
ATOM    629  CD  LYS    77      22.109  80.347  45.565  1.00  0.00             
ATOM    630  CE  LYS    77      22.921  81.603  45.835  1.00  0.00             
ATOM    631  NZ  LYS    77      22.178  82.837  45.461  1.00  0.00             
ATOM    632  N   ASN    78      23.525  75.445  43.149  1.00  0.00             
ATOM    633  CA  ASN    78      24.653  74.687  42.621  1.00  0.00             
ATOM    634  C   ASN    78      25.485  74.080  43.747  1.00  0.00             
ATOM    635  O   ASN    78      25.658  72.864  43.818  1.00  0.00             
ATOM    636  CB  ASN    78      24.164  73.586  41.678  1.00  0.00             
ATOM    637  CG  ASN    78      25.119  73.341  40.525  1.00  0.00             
ATOM    638  OD1 ASN    78      25.080  72.288  39.887  1.00  0.00             
ATOM    639  ND2 ASN    78      25.981  74.314  40.255  1.00  0.00             
ATOM    640  N   THR    79      25.998  74.937  44.624  1.00  0.00             
ATOM    641  CA  THR    79      26.830  74.479  45.772  1.00  0.00             
ATOM    642  C   THR    79      25.969  74.189  46.997  1.00  0.00             
ATOM    643  O   THR    79      26.231  74.696  48.087  1.00  0.00             
ATOM    644  CB  THR    79      27.640  73.218  45.415  1.00  0.00             
ATOM    645  OG1 THR    79      26.745  72.165  45.035  1.00  0.00             
ATOM    646  CG2 THR    79      28.594  73.505  44.266  1.00  0.00             
ATOM    647  N   PHE    80      24.940  73.368  46.809  1.00  0.00             
ATOM    648  CA  PHE    80      24.039  73.009  47.898  1.00  0.00             
ATOM    649  C   PHE    80      24.470  73.660  49.208  1.00  0.00             
ATOM    650  O   PHE    80      23.635  74.117  49.989  1.00  0.00             
ATOM    651  CB  PHE    80      22.602  73.411  47.558  1.00  0.00             
ATOM    652  CG  PHE    80      21.589  72.341  47.848  1.00  0.00             
ATOM    653  CD1 PHE    80      21.543  71.728  49.089  1.00  0.00             
ATOM    654  CD2 PHE    80      20.681  71.946  46.881  1.00  0.00             
ATOM    655  CE1 PHE    80      20.611  70.744  49.355  1.00  0.00             
ATOM    656  CE2 PHE    80      19.748  70.962  47.148  1.00  0.00             
ATOM    657  CZ  PHE    80      19.711  70.361  48.378  1.00  0.00             
ATOM    658  N   GLU    81      25.777  73.698  49.442  1.00  0.00             
ATOM    659  CA  GLU    81      26.320  74.293  50.658  1.00  0.00             
ATOM    660  C   GLU    81      25.606  75.596  51.001  1.00  0.00             
ATOM    661  O   GLU    81      25.876  76.209  52.034  1.00  0.00             
ATOM    662  CB  GLU    81      26.216  73.312  51.827  1.00  0.00             
ATOM    663  CG  GLU    81      27.087  72.075  51.679  1.00  0.00             
ATOM    664  CD  GLU    81      27.311  71.359  52.997  1.00  0.00             
ATOM    665  OE1 GLU    81      26.601  71.677  53.974  1.00  0.00             
ATOM    666  OE2 GLU    81      28.198  70.481  53.052  1.00  0.00             
ATOM    667  N   TRP    82      24.695  76.014  50.128  1.00  0.00             
ATOM    668  CA  TRP    82      23.941  77.243  50.338  1.00  0.00             
ATOM    669  C   TRP    82      22.932  77.086  51.469  1.00  0.00             
ATOM    670  O   TRP    82      21.817  77.604  51.396  1.00  0.00             
ATOM    671  CB  TRP    82      24.888  78.409  50.635  1.00  0.00             
ATOM    672  CG  TRP    82      24.831  79.504  49.614  1.00  0.00             
ATOM    673  CD1 TRP    82      25.516  80.684  49.640  1.00  0.00             
ATOM    674  CD2 TRP    82      24.045  79.520  48.417  1.00  0.00             
ATOM    675  NE1 TRP    82      25.207  81.436  48.533  1.00  0.00             
ATOM    676  CE2 TRP    82      24.305  80.743  47.765  1.00  0.00             
ATOM    677  CE3 TRP    82      23.148  78.620  47.832  1.00  0.00             
ATOM    678  CZ2 TRP    82      23.700  81.089  46.558  1.00  0.00             
ATOM    679  CZ3 TRP    82      22.550  78.965  46.635  1.00  0.00             
ATOM    680  CH2 TRP    82      22.827  80.191  46.009  1.00  0.00             
ATOM    681  N   ALA    83      23.330  76.369  52.515  1.00  0.00             
ATOM    682  CA  ALA    83      22.461  76.142  53.664  1.00  0.00             
ATOM    683  C   ALA    83      20.995  76.335  53.293  1.00  0.00             
ATOM    684  O   ALA    83      20.157  75.476  53.568  1.00  0.00             
ATOM    685  CB  ALA    83      22.681  74.747  54.227  1.00  0.00             
ATOM    686  N   GLY    84      20.691  77.468  52.667  1.00  0.00             
ATOM    687  CA  GLY    84      19.324  77.749  52.270  1.00  0.00             
ATOM    688  C   GLY    84      18.668  76.572  51.574  1.00  0.00             
ATOM    689  O   GLY    84      17.448  76.415  51.616  1.00  0.00             
ATOM    690  N   TYR    85      19.479  75.739  50.931  1.00  0.00             
ATOM    691  CA  TYR    85      18.972  74.569  50.223  1.00  0.00             
ATOM    692  C   TYR    85      17.860  73.886  51.012  1.00  0.00             
ATOM    693  O   TYR    85      16.782  73.621  50.481  1.00  0.00             
ATOM    694  CB  TYR    85      18.466  74.963  48.834  1.00  0.00             
ATOM    695  CG  TYR    85      16.993  75.299  48.791  1.00  0.00             
ATOM    696  CD1 TYR    85      16.558  76.609  48.945  1.00  0.00             
ATOM    697  CD2 TYR    85      16.042  74.306  48.597  1.00  0.00             
ATOM    698  CE1 TYR    85      15.213  76.927  48.908  1.00  0.00             
ATOM    699  CE2 TYR    85      14.693  74.604  48.557  1.00  0.00             
ATOM    700  CZ  TYR    85      14.283  75.927  48.715  1.00  0.00             
ATOM    701  OH  TYR    85      12.943  76.236  48.677  1.00  0.00             
ATOM    702  N   LEU    86      18.131  73.604  52.283  1.00  0.00             
ATOM    703  CA  LEU    86      17.155  72.952  53.147  1.00  0.00             
ATOM    704  C   LEU    86      15.746  73.469  52.876  1.00  0.00             
ATOM    705  O   LEU    86      14.821  73.212  53.647  1.00  0.00             
ATOM    706  CB  LEU    86      17.203  71.434  52.960  1.00  0.00             
ATOM    707  CG  LEU    86      16.038  70.641  53.553  1.00  0.00             
ATOM    708  CD1 LEU    86      16.490  69.247  53.966  1.00  0.00             
ATOM    709  CD2 LEU    86      14.882  70.563  52.568  1.00  0.00             
ATOM    710  N   ARG    87      15.590  74.199  51.777  1.00  0.00             
ATOM    711  CA  ARG    87      14.294  74.754  51.403  1.00  0.00             
ATOM    712  C   ARG    87      13.311  74.690  52.567  1.00  0.00             
ATOM    713  O   ARG    87      12.147  74.331  52.390  1.00  0.00             
ATOM    714  CB  ARG    87      14.448  76.198  50.922  1.00  0.00             
ATOM    715  CG  ARG    87      13.163  76.818  50.400  1.00  0.00             
ATOM    716  CD  ARG    87      12.805  76.273  49.027  1.00  0.00             
ATOM    717  NE  ARG    87      13.554  76.935  47.963  1.00  0.00             
ATOM    718  CZ  ARG    87      14.211  76.295  47.001  1.00  0.00             
ATOM    719  NH1 ARG    87      14.212  74.969  46.969  1.00  0.00             
ATOM    720  NH2 ARG    87      14.866  76.981  46.075  1.00  0.00             
TER
END
