
#######################################################
#                                                     #
#                        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 (  189),  selected   21 , name T0316TS276_4-D2
# Molecule2: number of CA atoms   60 (  457),  selected   60 , name T0316_D2.pdb
# PARAMETERS: T0316TS276_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           -
LGA    -       -      R     221           -
LGA    -       -      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    G     220      L     236          2.847
LGA    R     221      M     237          4.720
LGA    -       -      Y     238           -
LGA    M     222      Y     239          3.234
LGA    M     223      T     240          1.478
LGA    T     224      I     241          1.669
LGA    V     225      G     242          2.188
LGA    D     226      Q     243          2.169
LGA    G     227      R     244          4.107
LGA    R     228      G     245           #
LGA    -       -      G     246           -
LGA    -       -      L     247           -
LGA    D     229      G     248           #
LGA    -       -      I     249           -
LGA    -       -      G     250           -
LGA    M     230      G     251           #
LGA    -       -      D     256           -
LGA    -       -      N     257           -
LGA    -       -      A     258           -
LGA    G     231      P     259          2.545
LGA    E     232      W     260          1.536
LGA    H     233      F     261          4.592
LGA    A     234      V     262          3.606
LGA    G     235      V     263          3.251
LGA    L     236      G     264          3.104
LGA    M     237      K     265          1.189
LGA    Y     238      D     266          3.307
LGA    Y     239      L     267          2.031
LGA    -       -      S     268           -
LGA    -       -      K     269           -
LGA    T     240      N     270          3.955
LGA    -       -      I     271           -
LGA    -       -      L     272           -
LGA    -       -      Y     273           -
LGA    -       -      V     274           -
LGA    -       -      G     275           -
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)   21   60    5.0     18    3.05     0.00     19.484     0.571

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.564883 * X  +  -0.220788 * Y  +  -0.795084 * Z  +  94.026360
  Y_new =  -0.133177 * X  +  -0.975301 * Y  +   0.176215 * Z  +   0.559731
  Z_new =  -0.814353 * X  +   0.006346 * Y  +  -0.580335 * Z  +  10.210391 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.130657   -0.010935  [ DEG:   179.3735     -0.6265 ]
  Theta =   0.951613    2.189979  [ DEG:    54.5234    125.4766 ]
  Phi   =  -0.231533    2.910060  [ DEG:   -13.2658    166.7342 ]
 
# 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: T0316TS276_4-D2                               
REMARK     2: T0316_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS276_4-D2.T0316_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   60   5.0   18   3.05    0.00  19.484
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS276_4-D2
PFRMAT TS 
TARGET T0316
MODEL 4
PARENT 1WY5_A
ATOM   3999  H   GLY   220      40.957  20.479 -18.076  1.00  0.00               
ATOM   4001  N   GLY   220      41.830  20.473 -17.752  1.00  0.00               
ATOM   4003  CA  GLY   220      42.084  20.849 -16.362  1.00  0.00               
ATOM   4005  C   GLY   220      41.186  20.133 -15.364  1.00  0.00               
ATOM   4007  O   GLY   220      41.456  18.990 -14.985  1.00  0.00               
ATOM   4009  H   ARG   221      39.927  21.607 -15.266  1.00  0.00               
ATOM   4011  N   ARG   221      40.152  20.820 -14.888  1.00  0.00               
ATOM   4013  CA  ARG   221      39.280  20.283 -13.925  1.00  0.00               
ATOM   4015  CB  ARG   221      39.894  20.398 -12.519  1.00  0.00               
ATOM   4017  C   ARG   221      37.939  21.016 -13.979  1.00  0.00               
ATOM   4019  O   ARG   221      37.843  22.097 -14.464  1.00  0.00               
ATOM   4021  CG  ARG   221      41.157  19.568 -12.331  1.00  0.00               
ATOM   4023  CD  ARG   221      41.704  19.682 -10.914  1.00  0.00               
ATOM   4025  NE  ARG   221      42.938  18.916 -10.752  1.00  0.00               
ATOM   4027  HE  ARG   221      43.260  18.437 -11.507  1.00  0.00               
ATOM   4029  CZ  ARG   221      43.648  18.848  -9.632  1.00  0.00               
ATOM   4031  NH1 ARG   221      43.218  19.453  -8.532  1.00  0.00               
ATOM   4033  NH2 ARG   221      44.806  18.196  -9.616  1.00  0.00               
ATOM   4035  H   MET   222      36.999  19.466 -13.727  1.00  0.00               
ATOM   4037  N   MET   222      36.922  20.366 -13.648  1.00  0.00               
ATOM   4039  CA  MET   222      35.648  21.054 -13.419  1.00  0.00               
ATOM   4041  CB  MET   222      34.846  21.182 -14.698  1.00  0.00               
ATOM   4043  C   MET   222      34.786  20.475 -12.306  1.00  0.00               
ATOM   4045  O   MET   222      35.117  19.458 -11.695  1.00  0.00               
ATOM   4047  CG  MET   222      33.578  22.005 -14.530  1.00  0.00               
ATOM   4049  SD  MET   222      32.723  22.228 -16.100  1.00  0.00               
ATOM   4051  CE  MET   222      33.826  23.377 -16.901  1.00  0.00               
ATOM   4053  H   MET   223      33.644  22.088 -12.344  1.00  0.00               
ATOM   4055  N   MET   223      33.721  21.210 -11.995  1.00  0.00               
ATOM   4057  CA  MET   223      32.680  20.746 -11.091  1.00  0.00               
ATOM   4059  CB  MET   223      32.230  21.892 -10.200  1.00  0.00               
ATOM   4061  C   MET   223      31.475  20.187 -11.871  1.00  0.00               
ATOM   4063  O   MET   223      31.105  20.746 -12.908  1.00  0.00               
ATOM   4065  CG  MET   223      33.317  22.381  -9.275  1.00  0.00               
ATOM   4067  SD  MET   223      33.849  21.101  -8.114  1.00  0.00               
ATOM   4069  CE  MET   223      32.401  20.979  -7.074  1.00  0.00               
ATOM   4071  H   THR   224      31.298  18.588 -10.724  1.00  0.00               
ATOM   4073  N   THR   224      30.896  19.069 -11.422  1.00  0.00               
ATOM   4075  CA  THR   224      29.647  18.569 -12.017  1.00  0.00               
ATOM   4077  CB  THR   224      29.220  17.217 -11.400  1.00  0.00               
ATOM   4079  C   THR   224      28.521  19.587 -11.804  1.00  0.00               
ATOM   4081  O   THR   224      27.802  19.522 -10.803  1.00  0.00               
ATOM   4083  CG2 THR   224      30.236  16.125 -11.695  1.00  0.00               
ATOM   4085  OG1 THR   224      29.085  17.366  -9.983  1.00  0.00               
ATOM   4087  H   VAL   225      28.904  20.499 -13.506  1.00  0.00               
ATOM   4089  N   VAL   225      28.389  20.544 -12.724  1.00  0.00               
ATOM   4091  CA  VAL   225      27.428  21.638 -12.564  1.00  0.00               
ATOM   4093  CB  VAL   225      27.905  22.636 -11.497  1.00  0.00               
ATOM   4095  C   VAL   225      27.251  22.387 -13.889  1.00  0.00               
ATOM   4097  O   VAL   225      27.648  21.897 -14.950  1.00  0.00               
ATOM   4099  CG1 VAL   225      29.210  23.285 -11.948  1.00  0.00               
ATOM   4101  CG2 VAL   225      26.842  23.705 -11.275  1.00  0.00               
ATOM   4103  H   ASP   226      26.429  23.943 -12.972  1.00  0.00               
ATOM   4105  N   ASP   226      26.710  23.613 -13.810  1.00  0.00               
ATOM   4107  CA  ASP   226      26.543  24.462 -14.994  1.00  0.00               
ATOM   4109  CB  ASP   226      26.224  23.604 -16.212  1.00  0.00               
ATOM   4111  C   ASP   226      25.432  25.501 -14.784  1.00  0.00               
ATOM   4113  O   ASP   226      25.127  25.870 -13.647  1.00  0.00               
ATOM   4115  CG  ASP   226      24.919  22.852 -16.069  1.00  0.00               
ATOM   4117  OD1 ASP   226      24.165  23.137 -15.114  1.00  0.00               
ATOM   4119  OD2 ASP   226      24.630  21.987 -16.923  1.00  0.00               
ATOM   4121  H   GLY   227      25.023  25.587 -16.713  1.00  0.00               
ATOM   4123  N   GLY   227      24.798  25.941 -15.882  1.00  0.00               
ATOM   4125  CA  GLY   227      23.768  26.983 -15.808  1.00  0.00               
ATOM   4127  C   GLY   227      24.296  28.365 -16.173  1.00  0.00               
ATOM   4129  O   GLY   227      25.461  28.668 -15.903  1.00  0.00               
ATOM   4131  H   ARG   228      22.568  28.940 -16.998  1.00  0.00               
ATOM   4133  N   ARG   228      23.462  29.209 -16.812  1.00  0.00               
ATOM   4135  CA  ARG   228      23.930  30.533 -17.240  1.00  0.00               
ATOM   4137  CB  ARG   228      25.322  30.762 -16.630  1.00  0.00               
ATOM   4139  C   ARG   228      24.100  30.628 -18.749  1.00  0.00               
ATOM   4141  O   ARG   228      24.522  31.672 -19.249  1.00  0.00               
ATOM   4143  CG  ARG   228      26.000  32.064 -17.066  1.00  0.00               
ATOM   4145  CD  ARG   228      27.429  32.171 -16.517  1.00  0.00               
ATOM   4147  NE  ARG   228      28.148  33.328 -17.071  1.00  0.00               
ATOM   4149  HE  ARG   228      27.673  33.891 -17.670  1.00  0.00               
ATOM   4151  CZ  ARG   228      29.438  33.617 -16.849  1.00  0.00               
ATOM   4153  NH1 ARG   228      30.173  32.851 -16.046  1.00  0.00               
ATOM   4155  NH2 ARG   228      30.008  34.643 -17.475  1.00  0.00               
ATOM   4157  H   ASP   229      23.349  28.834 -19.099  1.00  0.00               
ATOM   4159  N   ASP   229      23.785  29.574 -19.487  1.00  0.00               
ATOM   4161  CA  ASP   229      24.181  29.551 -20.876  1.00  0.00               
ATOM   4163  CB  ASP   229      25.699  29.352 -20.982  1.00  0.00               
ATOM   4165  C   ASP   229      23.453  28.543 -21.765  1.00  0.00               
ATOM   4167  O   ASP   229      22.556  27.806 -21.346  1.00  0.00               
ATOM   4169  CG  ASP   229      26.235  29.523 -22.393  1.00  0.00               
ATOM   4171  OD1 ASP   229      25.462  29.918 -23.288  1.00  0.00               
ATOM   4173  OD2 ASP   229      27.423  29.216 -22.619  1.00  0.00               
ATOM   4175  H   MET   230      24.362  29.349 -23.290  1.00  0.00               
ATOM   4177  N   MET   230      23.850  28.602 -23.021  1.00  0.00               
ATOM   4179  CA  MET   230      23.525  27.624 -24.042  1.00  0.00               
ATOM   4181  CB  MET   230      23.982  28.074 -25.439  1.00  0.00               
ATOM   4183  C   MET   230      24.259  26.382 -23.602  1.00  0.00               
ATOM   4185  O   MET   230      24.979  26.469 -22.609  1.00  0.00               
ATOM   4187  CG  MET   230      23.265  29.319 -25.953  1.00  0.00               
ATOM   4189  SD  MET   230      21.489  29.059 -26.166  1.00  0.00               
ATOM   4191  CE  MET   230      21.478  27.976 -27.587  1.00  0.00               
ATOM   4193  H   GLY   231      23.802  25.165 -25.091  1.00  0.00               
ATOM   4195  N   GLY   231      24.174  25.241 -24.237  1.00  0.00               
ATOM   4197  CA  GLY   231      24.665  24.086 -23.529  1.00  0.00               
ATOM   4199  C   GLY   231      26.155  24.124 -23.398  1.00  0.00               
ATOM   4201  O   GLY   231      26.879  24.629 -24.261  1.00  0.00               
ATOM   4203  H   GLU   232      26.033  22.882 -21.871  1.00  0.00               
ATOM   4205  N   GLU   232      26.603  23.506 -22.302  1.00  0.00               
ATOM   4207  CA  GLU   232      27.940  23.683 -21.779  1.00  0.00               
ATOM   4209  CB  GLU   232      27.929  23.217 -20.313  1.00  0.00               
ATOM   4211  C   GLU   232      29.069  23.011 -22.490  1.00  0.00               
ATOM   4213  O   GLU   232      28.989  21.858 -22.923  1.00  0.00               
ATOM   4215  CG  GLU   232      29.227  23.431 -19.546  1.00  0.00               
ATOM   4217  CD  GLU   232      29.138  22.899 -18.122  1.00  0.00               
ATOM   4219  OE1 GLU   232      28.118  22.249 -17.806  1.00  0.00               
ATOM   4221  OE2 GLU   232      30.068  23.167 -17.303  1.00  0.00               
ATOM   4223  H   HIS   233      30.014  24.738 -22.474  1.00  0.00               
ATOM   4225  N   HIS   233      30.123  23.815 -22.660  1.00  0.00               
ATOM   4227  CA  HIS   233      31.400  23.359 -23.124  1.00  0.00               
ATOM   4229  CB  HIS   233      32.229  24.593 -23.558  1.00  0.00               
ATOM   4231  C   HIS   233      32.127  22.727 -21.945  1.00  0.00               
ATOM   4233  O   HIS   233      32.277  23.377 -20.911  1.00  0.00               
ATOM   4235  CG  HIS   233      31.574  25.462 -24.599  1.00  0.00               
ATOM   4237  ND1 HIS   233      31.518  25.126 -25.931  1.00  0.00               
ATOM   4239  HD1 HIS   233      31.919  24.366 -26.331  1.00  0.00               
ATOM   4241  CE1 HIS   233      30.955  26.122 -26.605  1.00  0.00               
ATOM   4243  NE2 HIS   233      30.657  27.090 -25.753  1.00  0.00               
ATOM   4245  HE2 HIS   233      30.313  27.944 -26.001  1.00  0.00               
ATOM   4247  CD2 HIS   233      31.081  26.727 -24.501  1.00  0.00               
ATOM   4249  H   ALA   234      32.396  21.006 -22.846  1.00  0.00               
ATOM   4251  N   ALA   234      32.579  21.497 -22.070  1.00  0.00               
ATOM   4253  CA  ALA   234      33.402  20.898 -21.014  1.00  0.00               
ATOM   4255  CB  ALA   234      34.732  21.630 -20.940  1.00  0.00               
ATOM   4257  C   ALA   234      32.724  20.961 -19.641  1.00  0.00               
ATOM   4259  O   ALA   234      33.238  21.607 -18.721  1.00  0.00               
ATOM   4261  H   GLY   235      31.312  19.711 -20.179  1.00  0.00               
ATOM   4263  N   GLY   235      31.634  20.228 -19.471  1.00  0.00               
ATOM   4265  CA  GLY   235      30.897  20.257 -18.216  1.00  0.00               
ATOM   4267  C   GLY   235      31.746  19.920 -16.986  1.00  0.00               
ATOM   4269  O   GLY   235      31.929  20.760 -16.106  1.00  0.00               
ATOM   4271  H   LEU   236      32.011  18.066 -17.593  1.00  0.00               
ATOM   4273  N   LEU   236      32.186  18.670 -16.887  1.00  0.00               
ATOM   4275  CA  LEU   236      32.891  18.173 -15.693  1.00  0.00               
ATOM   4277  CB  LEU   236      31.946  17.389 -14.768  1.00  0.00               
ATOM   4279  C   LEU   236      34.084  17.293 -16.069  1.00  0.00               
ATOM   4281  O   LEU   236      33.878  16.229 -16.666  1.00  0.00               
ATOM   4283  CG  LEU   236      31.277  16.134 -15.348  1.00  0.00               
ATOM   4285  CD1 LEU   236      32.219  14.943 -15.224  1.00  0.00               
ATOM   4287  CD2 LEU   236      29.974  15.848 -14.601  1.00  0.00               
ATOM   4289  H   MET   237      35.529  18.622 -15.422  1.00  0.00               
ATOM   4291  N   MET   237      35.344  17.695 -15.754  1.00  0.00               
ATOM   4293  CA  MET   237      36.461  16.793 -16.051  1.00  0.00               
ATOM   4295  CB  MET   237      36.841  16.872 -17.524  1.00  0.00               
ATOM   4297  C   MET   237      37.668  17.063 -15.198  1.00  0.00               
ATOM   4299  O   MET   237      37.770  18.107 -14.619  1.00  0.00               
ATOM   4301  CG  MET   237      35.750  16.376 -18.449  1.00  0.00               
ATOM   4303  SD  MET   237      35.332  14.649 -18.125  1.00  0.00               
ATOM   4305  CE  MET   237      36.840  13.846 -18.645  1.00  0.00               
ATOM   4307  H   TYR   238      38.217  15.177 -15.296  1.00  0.00               
ATOM   4309  N   TYR   238      38.486  16.029 -14.996  1.00  0.00               
ATOM   4311  CA  TYR   238      39.776  16.152 -14.314  1.00  0.00               
ATOM   4313  CB  TYR   238      39.799  15.277 -13.062  1.00  0.00               
ATOM   4315  C   TYR   238      40.928  15.785 -15.260  1.00  0.00               
ATOM   4317  O   TYR   238      40.725  15.042 -16.221  1.00  0.00               
ATOM   4319  CG  TYR   238      38.839  15.760 -11.999  1.00  0.00               
ATOM   4321  CD1 TYR   238      37.560  15.218 -11.890  1.00  0.00               
ATOM   4323  CE1 TYR   238      36.642  15.720 -10.970  1.00  0.00               
ATOM   4325  CZ  TYR   238      36.999  16.790 -10.165  1.00  0.00               
ATOM   4327  CD2 TYR   238      39.190  16.804 -11.140  1.00  0.00               
ATOM   4329  CE2 TYR   238      38.283  17.303 -10.207  1.00  0.00               
ATOM   4331  OH  TYR   238      36.088  17.304  -9.267  1.00  0.00               
ATOM   4333  H   TYR   239      42.275  16.782 -14.194  1.00  0.00               
ATOM   4335  N   TYR   239      42.141  16.279 -14.980  1.00  0.00               
ATOM   4337  CA  TYR   239      43.273  16.060 -15.890  1.00  0.00               
ATOM   4339  CB  TYR   239      43.325  17.159 -16.955  1.00  0.00               
ATOM   4341  C   TYR   239      44.601  16.068 -15.140  1.00  0.00               
ATOM   4343  O   TYR   239      44.646  16.345 -13.938  1.00  0.00               
ATOM   4345  CG  TYR   239      42.101  17.249 -17.831  1.00  0.00               
ATOM   4347  CD1 TYR   239      41.100  18.174 -17.552  1.00  0.00               
ATOM   4349  CE1 TYR   239      40.011  18.331 -18.399  1.00  0.00               
ATOM   4351  CZ  TYR   239      39.927  17.567 -19.546  1.00  0.00               
ATOM   4353  CD2 TYR   239      41.968  16.455 -18.966  1.00  0.00               
ATOM   4355  CE2 TYR   239      40.878  16.600 -19.816  1.00  0.00               
ATOM   4357  OH  TYR   239      38.875  17.755 -20.414  1.00  0.00               
ATOM   4359  H   THR   240      45.573  15.557 -16.772  1.00  0.00               
ATOM   4361  N   THR   240      45.680  15.774 -15.866  1.00  0.00               
ATOM   4363  CA  THR   240      47.033  15.820 -15.311  1.00  0.00               
ATOM   4365  CB  THR   240      47.228  17.038 -14.382  1.00  0.00               
ATOM   4367  C   THR   240      47.384  14.539 -14.574  1.00  0.00               
ATOM   4369  O   THR   240      48.594  14.243 -14.498  1.00  0.00               
ATOM   4371  OXT THR   240      46.470  13.703 -14.418  1.00  0.00               
ATOM   4373  CG2 THR   240      48.641  17.072 -13.821  1.00  0.00               
ATOM   4375  OG1 THR   240      47.005  18.235 -15.126  1.00  0.00               
TER 
END
