
#######################################################
#                                                     #
#                        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   31 (  124),  selected   31 , name T0316TS383_2-D2
# Molecule2: number of CA atoms   60 (  457),  selected   60 , name T0316_D2.pdb
# PARAMETERS: T0316TS383_2-D2.T0316_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V     225      G     220           -
LGA    D     226      R     221           -
LGA    G     227      M     222           -
LGA    R     228      M     223           -
LGA    D     229      T     224           -
LGA    M     230      V     225           -
LGA    G     231      D     226           -
LGA    E     232      G     227           -
LGA    -       -      R     228           -
LGA    -       -      D     229           -
LGA    -       -      M     230           -
LGA    -       -      G     231           -
LGA    -       -      E     232           -
LGA    -       -      H     233           -
LGA    -       -      A     234           -
LGA    H     233      G     235          3.949
LGA    A     234      L     236          3.584
LGA    G     235      M     237          2.342
LGA    L     236      Y     238          0.960
LGA    M     237      Y     239          3.911
LGA    Y     238      T     240          3.314
LGA    Y     239      I     241           #
LGA    -       -      G     242           -
LGA    -       -      Q     243           -
LGA    -       -      R     244           -
LGA    -       -      G     245           -
LGA    T     240      G     246          4.097
LGA    -       -      L     247           -
LGA    -       -      G     248           -
LGA    -       -      I     249           -
LGA    -       -      G     250           -
LGA    -       -      G     251           -
LGA    -       -      D     256           -
LGA    -       -      N     257           -
LGA    -       -      A     258           -
LGA    -       -      P     259           -
LGA    -       -      W     260           -
LGA    I     241      F     261           #
LGA    G     242      V     262          2.566
LGA    Q     243      V     263           -
LGA    -       -      G     264           -
LGA    -       -      K     265           -
LGA    -       -      D     266           -
LGA    -       -      L     267           -
LGA    -       -      S     268           -
LGA    -       -      K     269           -
LGA    -       -      N     270           -
LGA    -       -      I     271           -
LGA    -       -      L     272           -
LGA    R     244      Y     273          4.725
LGA    G     245      V     274          1.771
LGA    G     246      G     275          2.278
LGA    Q     252      Q     276          0.422
LGA    H     253      G     277          2.643
LGA    -       -      F     278           -
LGA    G     254      Y     279          2.807
LGA    G     255      H     280          4.964
LGA    D     256      D     281          2.037
LGA    N     257      S     282          2.639
LGA    A     258      L     283          2.027
LGA    P     259      -       -           -
LGA    W     260      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   31   60    5.0     18    3.07    16.67     18.893     0.567

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.841404 * X  +  -0.236409 * Y  +   0.485953 * Z  +   0.628789
  Y_new =   0.019935 * X  +   0.912202 * Y  +   0.409256 * Z  + -15.022499
  Z_new =  -0.540039 * X  +  -0.334662 * Y  +   0.772242 * Z  +   9.040417 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.408934    2.732659  [ DEG:   -23.4302    156.5698 ]
  Theta =   0.570484    2.571109  [ DEG:    32.6863    147.3137 ]
  Phi   =   0.023688   -3.117905  [ DEG:     1.3572   -178.6428 ]
 
# 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: T0316TS383_2-D2                               
REMARK     2: T0316_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS383_2-D2.T0316_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   31   60   5.0   18   3.07   16.67  18.893
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS383_2-D2
PFRMAT TS
TARGET T0316
MODEL 2
PARENT 1wxeA
ATOM    693  N   VAL   225      53.815  22.548  -8.379  1.00  0.00
ATOM    694  CA  VAL   225      53.562  23.974  -8.231  1.00  0.00
ATOM    695  C   VAL   225      52.959  24.223  -6.855  1.00  0.00
ATOM    696  O   VAL   225      52.515  23.286  -6.188  1.00  0.00
ATOM    697  N   ASP   226      52.958  25.484  -6.396  1.00  0.00
ATOM    698  CA  ASP   226      52.379  25.771  -5.079  1.00  0.00
ATOM    699  C   ASP   226      50.951  25.216  -5.036  1.00  0.00
ATOM    700  O   ASP   226      50.222  25.288  -6.024  1.00  0.00
ATOM    701  N   GLY   227      50.551  24.657  -3.900  1.00  0.00
ATOM    702  CA  GLY   227      49.221  24.073  -3.785  1.00  0.00
ATOM    703  C   GLY   227      48.087  25.057  -4.061  1.00  0.00
ATOM    704  O   GLY   227      47.078  24.688  -4.661  1.00  0.00
ATOM    705  N   ARG   228      48.246  26.304  -3.627  1.00  0.00
ATOM    706  CA  ARG   228      47.208  27.310  -3.855  1.00  0.00
ATOM    707  C   ARG   228      47.042  27.545  -5.355  1.00  0.00
ATOM    708  O   ARG   228      45.940  27.807  -5.836  1.00  0.00
ATOM    709  N   ASP   229      48.148  27.444  -6.087  1.00  0.00
ATOM    710  CA  ASP   229      48.141  27.630  -7.536  1.00  0.00
ATOM    711  C   ASP   229      47.430  26.451  -8.200  1.00  0.00
ATOM    712  O   ASP   229      46.625  26.632  -9.119  1.00  0.00
ATOM    713  N   MET   230      47.731  25.244  -7.729  1.00  0.00
ATOM    714  CA  MET   230      47.101  24.043  -8.261  1.00  0.00
ATOM    715  C   MET   230      45.588  24.095  -8.039  1.00  0.00
ATOM    716  O   MET   230      44.816  23.743  -8.931  1.00  0.00
ATOM    717  N   GLY   231      45.166  24.537  -6.855  1.00  0.00
ATOM    718  CA  GLY   231      43.740  24.621  -6.545  1.00  0.00
ATOM    719  C   GLY   231      43.015  25.606  -7.458  1.00  0.00
ATOM    720  O   GLY   231      41.888  25.354  -7.879  1.00  0.00
ATOM    721  N   GLU   232      43.659  26.728  -7.759  1.00  0.00
ATOM    722  CA  GLU   232      43.055  27.739  -8.622  1.00  0.00
ATOM    723  C   GLU   232      42.840  27.179 -10.022  1.00  0.00
ATOM    724  O   GLU   232      41.751  27.287 -10.589  1.00  0.00
ATOM    725  N   HIS   233      43.883  26.568 -10.569  1.00  0.00
ATOM    726  CA  HIS   233      43.816  25.990 -11.906  1.00  0.00
ATOM    727  C   HIS   233      42.748  24.909 -11.982  1.00  0.00
ATOM    728  O   HIS   233      41.970  24.856 -12.934  1.00  0.00
ATOM    729  N   ALA   234      42.708  24.056 -10.967  1.00  0.00
ATOM    730  CA  ALA   234      41.736  22.979 -10.929  1.00  0.00
ATOM    731  C   ALA   234      40.315  23.508 -10.772  1.00  0.00
ATOM    732  O   ALA   234      39.378  22.947 -11.333  1.00  0.00
ATOM    733  N   GLY   235      40.158  24.600 -10.030  1.00  0.00
ATOM    734  CA  GLY   235      38.838  25.193  -9.834  1.00  0.00
ATOM    735  C   GLY   235      38.293  25.650 -11.185  1.00  0.00
ATOM    736  O   GLY   235      37.127  25.407 -11.514  1.00  0.00
ATOM    737  N   LEU   236      39.144  26.312 -11.965  1.00  0.00
ATOM    738  CA  LEU   236      38.762  26.787 -13.289  1.00  0.00
ATOM    739  C   LEU   236      38.403  25.613 -14.190  1.00  0.00
ATOM    740  O   LEU   236      37.428  25.665 -14.938  1.00  0.00
ATOM    741  N   MET   237      39.207  24.558 -14.125  1.00  0.00
ATOM    742  CA  MET   237      38.972  23.378 -14.943  1.00  0.00
ATOM    743  C   MET   237      37.599  22.780 -14.664  1.00  0.00
ATOM    744  O   MET   237      36.825  22.529 -15.585  1.00  0.00
ATOM    745  N   TYR   238      37.308  22.555 -13.387  1.00  0.00
ATOM    746  CA  TYR   238      36.036  21.978 -12.974  1.00  0.00
ATOM    747  C   TYR   238      34.860  22.882 -13.327  1.00  0.00
ATOM    748  O   TYR   238      33.815  22.420 -13.790  1.00  0.00
ATOM    749  N   TYR   239      35.043  24.178 -13.114  1.00  0.00
ATOM    750  CA  TYR   239      34.005  25.161 -13.393  1.00  0.00
ATOM    751  C   TYR   239      33.634  25.267 -14.870  1.00  0.00
ATOM    752  O   TYR   239      32.495  25.596 -15.203  1.00  0.00
ATOM    753  N   THR   240      34.578  24.971 -15.755  1.00  0.00
ATOM    754  CA  THR   240      34.322  25.104 -17.185  1.00  0.00
ATOM    755  C   THR   240      34.201  23.829 -18.015  1.00  0.00
ATOM    756  O   THR   240      34.384  23.863 -19.230  1.00  0.00
ATOM    757  N   ILE   241      33.873  22.710 -17.379  1.00  0.00
ATOM    758  CA  ILE   241      33.726  21.460 -18.118  1.00  0.00
ATOM    759  C   ILE   241      32.618  21.578 -19.177  1.00  0.00
ATOM    760  O   ILE   241      32.708  20.975 -20.250  1.00  0.00
ATOM    761  N   GLY   242      31.586  22.366 -18.888  1.00  0.00
ATOM    762  CA  GLY   242      30.490  22.537 -19.842  1.00  0.00
ATOM    763  C   GLY   242      30.959  23.120 -21.185  1.00  0.00
ATOM    764  O   GLY   242      30.309  22.929 -22.213  1.00  0.00
ATOM    765  N   GLN   243      32.083  23.834 -21.183  1.00  0.00
ATOM    766  CA  GLN   243      32.608  24.426 -22.415  1.00  0.00
ATOM    767  C   GLN   243      33.350  23.423 -23.296  1.00  0.00
ATOM    768  O   GLN   243      33.533  23.651 -24.493  1.00  0.00
ATOM    769  N   ARG   244      33.785  22.317 -22.702  1.00  0.00
ATOM    770  CA  ARG   244      34.539  21.313 -23.439  1.00  0.00
ATOM    771  C   ARG   244      33.721  20.075 -23.810  1.00  0.00
ATOM    772  O   ARG   244      34.278  19.082 -24.275  1.00  0.00
ATOM    773  N   GLY   245      32.407  20.147 -23.609  1.00  0.00
ATOM    774  CA  GLY   245      31.495  19.043 -23.911  1.00  0.00
ATOM    775  C   GLY   245      30.268  19.549 -24.669  1.00  0.00
ATOM    776  O   GLY   245      29.949  20.733 -24.619  1.00  0.00
ATOM    777  N   GLY   246      29.574  18.656 -25.397  1.00  0.00
ATOM    778  CA  GLY   246      28.375  19.053 -26.147  1.00  0.00
ATOM    779  C   GLY   246      27.299  19.442 -25.130  1.00  0.00
ATOM    780  O   GLY   246      27.459  19.199 -23.933  1.00  0.00
ATOM    781  N   GLN   252      26.187  20.043 -25.591  1.00  0.00
ATOM    782  CA  GLN   252      25.101  20.449 -24.689  1.00  0.00
ATOM    783  C   GLN   252      24.681  19.329 -23.733  1.00  0.00
ATOM    784  O   GLN   252      24.609  18.164 -24.120  1.00  0.00
ATOM    785  N   HIS   253      24.391  19.698 -22.489  1.00  0.00
ATOM    786  CA  HIS   253      24.007  18.741 -21.458  1.00  0.00
ATOM    787  C   HIS   253      22.618  18.135 -21.654  1.00  0.00
ATOM    788  O   HIS   253      21.656  18.843 -21.938  1.00  0.00
ATOM    789  N   GLY   254      22.523  16.819 -21.481  1.00  0.00
ATOM    790  CA  GLY   254      21.257  16.104 -21.634  1.00  0.00
ATOM    791  C   GLY   254      20.951  15.287 -20.384  1.00  0.00
ATOM    792  O   GLY   254      21.785  15.185 -19.485  1.00  0.00
ATOM    793  N   GLY   255      19.764  14.684 -20.341  1.00  0.00
ATOM    794  CA  GLY   255      19.360  13.884 -19.186  1.00  0.00
ATOM    795  C   GLY   255      20.272  12.684 -18.953  1.00  0.00
ATOM    796  O   GLY   255      20.249  12.088 -17.883  1.00  0.00
ATOM    797  N   ASP   256      21.087  12.341 -19.946  1.00  0.00
ATOM    798  CA  ASP   256      21.984  11.194 -19.827  1.00  0.00
ATOM    799  C   ASP   256      23.329  11.510 -19.178  1.00  0.00
ATOM    800  O   ASP   256      24.036  10.599 -18.739  1.00  0.00
ATOM    801  N   ASN   257      23.682  12.791 -19.114  1.00  0.00
ATOM    802  CA  ASN   257      24.955  13.192 -18.519  1.00  0.00
ATOM    803  C   ASN   257      24.948  13.141 -16.999  1.00  0.00
ATOM    804  O   ASN   257      23.923  13.372 -16.364  1.00  0.00
ATOM    805  N   ALA   258      26.105  12.844 -16.416  1.00  0.00
ATOM    806  CA  ALA   258      26.205  12.783 -14.967  1.00  0.00
ATOM    807  C   ALA   258      27.490  13.432 -14.467  1.00  0.00
ATOM    808  O   ALA   258      27.719  13.508 -13.258  1.00  0.00
ATOM    809  N   PRO   259      28.320  13.916 -15.389  1.00  0.00
ATOM    810  CA  PRO   259      29.578  14.542 -14.993  1.00  0.00
ATOM    811  C   PRO   259      29.348  15.753 -14.088  1.00  0.00
ATOM    812  O   PRO   259      30.170  16.057 -13.220  1.00  0.00
ATOM    813  N   TRP   260      28.229  16.442 -14.290  1.00  0.00
ATOM    814  CA  TRP   260      27.923  17.620 -13.486  1.00  0.00
ATOM    815  C   TRP   260      27.415  17.281 -12.091  1.00  0.00
ATOM    816  O   TRP   260      27.265  18.163 -11.246  1.00  0.00
TER
END
