
#######################################################
#                                                     #
#                        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 (  188),  selected   21 , name T0316TS277_5-D2
# Molecule2: number of CA atoms   60 (  457),  selected   60 , name T0316_D2.pdb
# PARAMETERS: T0316TS277_5-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     220      G     235          4.096
LGA    R     221      L     236          2.951
LGA    -       -      M     237           -
LGA    -       -      Y     238           -
LGA    M     222      Y     239          1.718
LGA    M     223      T     240          1.749
LGA    T     224      I     241          1.991
LGA    V     225      G     242          1.546
LGA    D     226      Q     243          2.444
LGA    G     227      R     244          1.557
LGA    R     228      G     245          3.878
LGA    D     229      G     246           -
LGA    -       -      L     247           -
LGA    -       -      G     248           -
LGA    -       -      I     249           -
LGA    -       -      G     250           -
LGA    -       -      G     251           -
LGA    -       -      D     256           -
LGA    M     230      N     257          3.869
LGA    G     231      A     258          3.230
LGA    E     232      P     259          3.054
LGA    H     233      W     260          2.785
LGA    A     234      F     261          4.588
LGA    G     235      V     262          1.931
LGA    -       -      V     263           -
LGA    L     236      G     264          3.016
LGA    M     237      K     265          1.450
LGA    Y     238      D     266          3.407
LGA    Y     239      L     267          3.614
LGA    -       -      S     268           -
LGA    -       -      K     269           -
LGA    T     240      N     270          2.234
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     20    2.91     5.00     20.939     0.664

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.572313 * X  +  -0.233952 * Y  +  -0.785954 * Z  +  92.605728
  Y_new =  -0.169323 * X  +  -0.971500 * Y  +   0.165886 * Z  +   1.110648
  Z_new =  -0.802364 * X  +   0.038141 * Y  +  -0.595615 * Z  +  10.411654 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.077643   -0.063950  [ DEG:   176.3360     -3.6640 ]
  Theta =   0.931245    2.210347  [ DEG:    53.3564    126.6436 ]
  Phi   =  -0.287651    2.853941  [ DEG:   -16.4812    163.5188 ]
 
# 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: T0316TS277_5-D2                               
REMARK     2: T0316_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS277_5-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   20   2.91    5.00  20.939
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS277_5-D2
PFRMAT TS 
TARGET T0316
MODEL 5
PARENT 1WY5_A
ATOM   4001  H   GLY   220      39.381  20.866 -18.577  1.00  0.00                              
ATOM   4003  N   GLY   220      40.305  20.948 -18.492  1.00  0.00                              
ATOM   4005  CA  GLY   220      40.858  21.707 -17.377  1.00  0.00                              
ATOM   4007  C   GLY   220      40.025  21.624 -16.089  1.00  0.00                              
ATOM   4009  O   GLY   220      40.357  22.272 -15.096  1.00  0.00                              
ATOM   4011  H   ARG   221      38.674  20.412 -16.912  1.00  0.00                              
ATOM   4013  N   ARG   221      38.921  20.862 -16.110  1.00  0.00                              
ATOM   4015  CA  ARG   221      38.097  20.679 -14.895  1.00  0.00                              
ATOM   4017  CB  ARG   221      38.987  20.449 -13.662  1.00  0.00                              
ATOM   4019  C   ARG   221      37.135  21.866 -14.644  1.00  0.00                              
ATOM   4021  O   ARG   221      37.377  22.987 -15.102  1.00  0.00                              
ATOM   4023  CG  ARG   221      38.220  20.039 -12.412  1.00  0.00                              
ATOM   4025  CD  ARG   221      39.153  19.579 -11.297  1.00  0.00                              
ATOM   4027  NE  ARG   221      40.106  20.622 -10.923  1.00  0.00                              
ATOM   4029  HE  ARG   221      40.962  20.603 -11.335  1.00  0.00                              
ATOM   4031  CZ  ARG   221      39.874  21.590 -10.033  1.00  0.00                              
ATOM   4033  NH1 ARG   221      38.706  21.651  -9.394  1.00  0.00                              
ATOM   4035  NH2 ARG   221      40.806  22.502  -9.780  1.00  0.00                              
ATOM   4037  H   MET   222      35.868  20.684 -13.662  1.00  0.00                              
ATOM   4039  N   MET   222      36.029  21.590 -13.924  1.00  0.00                              
ATOM   4041  CA  MET   222      35.036  22.622 -13.564  1.00  0.00                              
ATOM   4043  CB  MET   222      34.215  23.023 -14.778  1.00  0.00                              
ATOM   4045  C   MET   222      34.079  22.146 -12.410  1.00  0.00                              
ATOM   4047  O   MET   222      33.822  22.904 -11.464  1.00  0.00                              
ATOM   4049  CG  MET   222      32.795  23.426 -14.434  1.00  0.00                              
ATOM   4051  SD  MET   222      31.931  24.182 -15.837  1.00  0.00                              
ATOM   4053  CE  MET   222      30.947  25.423 -14.999  1.00  0.00                              
ATOM   4055  H   MET   223      33.728  20.346 -13.256  1.00  0.00                              
ATOM   4057  N   MET   223      33.522  20.901 -12.519  1.00  0.00                              
ATOM   4059  CA  MET   223      32.609  20.379 -11.461  1.00  0.00                              
ATOM   4061  CB  MET   223      32.031  21.517 -10.698  1.00  0.00                              
ATOM   4063  C   MET   223      31.455  19.458 -12.050  1.00  0.00                              
ATOM   4065  O   MET   223      31.739  18.454 -12.666  1.00  0.00                              
ATOM   4067  CG  MET   223      30.715  21.223 -10.132  1.00  0.00                              
ATOM   4069  SD  MET   223      30.476  22.025  -8.595  1.00  0.00                              
ATOM   4071  CE  MET   223      29.724  23.522  -9.153  1.00  0.00                              
ATOM   4073  H   THR   224      30.012  20.525 -11.230  1.00  0.00                              
ATOM   4075  N   THR   224      30.186  19.790 -11.784  1.00  0.00                              
ATOM   4077  CA  THR   224      29.023  19.031 -12.389  1.00  0.00                              
ATOM   4079  CB  THR   224      28.491  17.908 -11.456  1.00  0.00                              
ATOM   4081  C   THR   224      27.934  19.991 -12.678  1.00  0.00                              
ATOM   4083  O   THR   224      26.843  19.907 -12.111  1.00  0.00                              
ATOM   4085  CG2 THR   224      27.273  17.222 -12.054  1.00  0.00                              
ATOM   4087  OG1 THR   224      29.513  16.964 -11.257  1.00  0.00                              
ATOM   4089  H   VAL   225      29.006  20.807 -14.036  1.00  0.00                              
ATOM   4091  N   VAL   225      28.193  20.861 -13.569  1.00  0.00                              
ATOM   4093  CA  VAL   225      27.310  21.900 -13.871  1.00  0.00                              
ATOM   4095  CB  VAL   225      27.143  22.769 -12.605  1.00  0.00                              
ATOM   4097  C   VAL   225      27.956  22.733 -14.962  1.00  0.00                              
ATOM   4099  O   VAL   225      29.151  22.957 -14.929  1.00  0.00                              
ATOM   4101  CG1 VAL   225      28.367  23.643 -12.401  1.00  0.00                              
ATOM   4103  CG2 VAL   225      25.890  23.606 -12.672  1.00  0.00                              
ATOM   4105  H   ASP   226      26.295  22.889 -15.988  1.00  0.00                              
ATOM   4107  N   ASP   226      27.200  23.147 -15.947  1.00  0.00                              
ATOM   4109  CA  ASP   226      27.755  23.986 -17.009  1.00  0.00                              
ATOM   4111  CB  ASP   226      27.485  23.386 -18.374  1.00  0.00                              
ATOM   4113  C   ASP   226      27.215  25.399 -16.927  1.00  0.00                              
ATOM   4115  O   ASP   226      26.468  25.726 -16.002  1.00  0.00                              
ATOM   4117  CG  ASP   226      26.010  23.172 -18.651  1.00  0.00                              
ATOM   4119  OD1 ASP   226      25.213  24.104 -18.412  1.00  0.00                              
ATOM   4121  OD2 ASP   226      25.642  22.076 -19.127  1.00  0.00                              
ATOM   4123  H   GLY   227      28.137  25.974 -18.580  1.00  0.00                              
ATOM   4125  N   GLY   227      27.603  26.263 -17.874  1.00  0.00                              
ATOM   4127  CA  GLY   227      27.175  27.654 -17.814  1.00  0.00                              
ATOM   4129  C   GLY   227      27.555  28.485 -19.048  1.00  0.00                              
ATOM   4131  O   GLY   227      28.737  28.639 -19.359  1.00  0.00                              
ATOM   4133  H   ARG   228      25.639  28.920 -19.441  1.00  0.00                              
ATOM   4135  N   ARG   228      26.537  29.059 -19.733  1.00  0.00                              
ATOM   4137  CA  ARG   228      26.784  29.925 -20.901  1.00  0.00                              
ATOM   4139  CB  ARG   228      27.616  29.188 -21.964  1.00  0.00                              
ATOM   4141  C   ARG   228      25.458  30.440 -21.528  1.00  0.00                              
ATOM   4143  O   ARG   228      24.842  31.391 -21.019  1.00  0.00                              
ATOM   4145  CG  ARG   228      28.001  30.069 -23.178  1.00  0.00                              
ATOM   4147  CD  ARG   228      28.841  29.297 -24.236  1.00  0.00                              
ATOM   4149  NE  ARG   228      29.222  30.176 -25.377  1.00  0.00                              
ATOM   4151  HE  ARG   228      28.974  31.091 -25.321  1.00  0.00                              
ATOM   4153  CZ  ARG   228      29.884  29.780 -26.491  1.00  0.00                              
ATOM   4155  NH1 ARG   228      30.280  28.511 -26.640  1.00  0.00                              
ATOM   4157  NH2 ARG   228      30.129  30.656 -27.460  1.00  0.00                              
ATOM   4159  H   ASP   229      25.542  29.110 -23.003  1.00  0.00                              
ATOM   4161  N   ASP   229      25.050  29.841 -22.666  1.00  0.00                              
ATOM   4163  CA  ASP   229      23.831  30.292 -23.393  1.00  0.00                              
ATOM   4165  CB  ASP   229      24.102  31.607 -24.157  1.00  0.00                              
ATOM   4167  C   ASP   229      23.303  29.212 -24.375  1.00  0.00                              
ATOM   4169  O   ASP   229      22.201  28.688 -24.188  1.00  0.00                              
ATOM   4171  CG  ASP   229      22.843  32.202 -24.796  1.00  0.00                              
ATOM   4173  OD1 ASP   229      21.754  31.608 -24.641  1.00  0.00                              
ATOM   4175  OD2 ASP   229      22.941  33.287 -25.442  1.00  0.00                              
ATOM   4177  H   MET   230      24.932  29.317 -25.525  1.00  0.00                              
ATOM   4179  N   MET   230      24.080  28.916 -25.442  1.00  0.00                              
ATOM   4181  CA  MET   230      23.642  27.954 -26.482  1.00  0.00                              
ATOM   4183  CB  MET   230      24.360  28.227 -27.819  1.00  0.00                              
ATOM   4185  C   MET   230      23.872  26.504 -26.050  1.00  0.00                              
ATOM   4187  O   MET   230      23.058  25.937 -25.325  1.00  0.00                              
ATOM   4189  CG  MET   230      23.968  29.546 -28.470  1.00  0.00                              
ATOM   4191  SD  MET   230      22.248  29.554 -29.031  1.00  0.00                              
ATOM   4193  CE  MET   230      22.393  28.643 -30.563  1.00  0.00                              
ATOM   4195  H   GLY   231      25.562  26.358 -27.075  1.00  0.00                              
ATOM   4197  N   GLY   231      24.966  25.893 -26.530  1.00  0.00                              
ATOM   4199  CA  GLY   231      25.241  24.482 -26.219  1.00  0.00                              
ATOM   4201  C   GLY   231      25.274  24.179 -24.723  1.00  0.00                              
ATOM   4203  O   GLY   231      24.300  23.661 -24.167  1.00  0.00                              
ATOM   4205  H   GLU   232      27.150  24.771 -24.560  1.00  0.00                              
ATOM   4207  N   GLU   232      26.402  24.451 -24.077  1.00  0.00                              
ATOM   4209  CA  GLU   232      26.521  24.247 -22.632  1.00  0.00                              
ATOM   4211  CB  GLU   232      26.412  22.748 -22.277  1.00  0.00                              
ATOM   4213  C   GLU   232      27.827  24.848 -22.078  1.00  0.00                              
ATOM   4215  O   GLU   232      27.914  25.192 -20.875  1.00  0.00                              
ATOM   4217  CG  GLU   232      27.336  21.843 -23.088  1.00  0.00                              
ATOM   4219  CD  GLU   232      27.209  20.362 -22.721  1.00  0.00                              
ATOM   4221  OE1 GLU   232      26.645  20.056 -21.641  1.00  0.00                              
ATOM   4223  OE2 GLU   232      27.690  19.508 -23.501  1.00  0.00                              
ATOM   4225  H   HIS   233      28.728  24.705 -23.839  1.00  0.00                              
ATOM   4227  N   HIS   233      28.834  25.012 -22.951  1.00  0.00                              
ATOM   4229  CA  HIS   233      30.092  25.634 -22.553  1.00  0.00                              
ATOM   4231  CB  HIS   233      29.900  26.437 -21.256  1.00  0.00                              
ATOM   4233  C   HIS   233      31.176  24.598 -22.354  1.00  0.00                              
ATOM   4235  O   HIS   233      31.596  23.937 -23.309  1.00  0.00                              
ATOM   4237  CG  HIS   233      31.115  27.221 -20.843  1.00  0.00                              
ATOM   4239  ND1 HIS   233      31.277  27.738 -19.576  1.00  0.00                              
ATOM   4241  HD1 HIS   233      30.650  27.681 -18.867  1.00  0.00                              
ATOM   4243  CE1 HIS   233      32.417  28.404 -19.522  1.00  0.00                              
ATOM   4245  NE2 HIS   233      32.994  28.341 -20.705  1.00  0.00                              
ATOM   4247  HE2 HIS   233      33.808  28.778 -20.938  1.00  0.00                              
ATOM   4249  CD2 HIS   233      32.183  27.637 -21.562  1.00  0.00                              
ATOM   4251  H   ALA   234      31.357  25.052 -20.457  1.00  0.00                              
ATOM   4253  N   ALA   234      31.657  24.478 -21.129  1.00  0.00                              
ATOM   4255  CA  ALA   234      32.664  23.492 -20.809  1.00  0.00                              
ATOM   4257  CB  ALA   234      33.728  24.112 -19.918  1.00  0.00                              
ATOM   4259  C   ALA   234      32.040  22.285 -20.117  1.00  0.00                              
ATOM   4261  O   ALA   234      31.006  22.404 -19.471  1.00  0.00                              
ATOM   4263  H   GLY   235      33.484  21.107 -20.700  1.00  0.00                              
ATOM   4265  N   GLY   235      32.685  21.141 -20.221  1.00  0.00                              
ATOM   4267  CA  GLY   235      32.166  19.930 -19.617  1.00  0.00                              
ATOM   4269  C   GLY   235      32.562  19.770 -18.171  1.00  0.00                              
ATOM   4271  O   GLY   235      32.360  20.674 -17.368  1.00  0.00                              
ATOM   4273  H   LEU   236      33.369  18.010 -18.509  1.00  0.00                              
ATOM   4275  N   LEU   236      33.154  18.637 -17.835  1.00  0.00                              
ATOM   4277  CA  LEU   236      33.512  18.344 -16.447  1.00  0.00                              
ATOM   4279  CB  LEU   236      32.245  17.970 -15.620  1.00  0.00                              
ATOM   4281  C   LEU   236      34.639  17.247 -16.312  1.00  0.00                              
ATOM   4283  O   LEU   236      34.848  16.442 -17.223  1.00  0.00                              
ATOM   4285  CG  LEU   236      31.484  16.651 -15.964  1.00  0.00                              
ATOM   4287  CD1 LEU   236      30.905  16.079 -14.704  1.00  0.00                              
ATOM   4289  CD2 LEU   236      30.344  16.925 -16.961  1.00  0.00                              
ATOM   4291  H   MET   237      35.236  17.977 -14.544  1.00  0.00                              
ATOM   4293  N   MET   237      35.388  17.282 -15.159  1.00  0.00                              
ATOM   4295  CA  MET   237      36.445  16.297 -14.855  1.00  0.00                              
ATOM   4297  CB  MET   237      36.191  14.939 -15.504  1.00  0.00                              
ATOM   4299  C   MET   237      37.810  16.825 -15.191  1.00  0.00                              
ATOM   4301  O   MET   237      37.941  17.820 -15.923  1.00  0.00                              
ATOM   4303  CG  MET   237      35.100  14.166 -14.809  1.00  0.00                              
ATOM   4305  SD  MET   237      35.198  14.353 -13.007  1.00  0.00                              
ATOM   4307  CE  MET   237      33.593  15.020 -12.645  1.00  0.00                              
ATOM   4309  H   TYR   238      38.639  15.478 -14.078  1.00  0.00                              
ATOM   4311  N   TYR   238      38.807  16.226 -14.629  1.00  0.00                              
ATOM   4313  CA  TYR   238      40.168  16.659 -14.809  1.00  0.00                              
ATOM   4315  CB  TYR   238      40.964  16.224 -13.615  1.00  0.00                              
ATOM   4317  C   TYR   238      40.754  16.016 -16.062  1.00  0.00                              
ATOM   4319  O   TYR   238      40.140  15.125 -16.642  1.00  0.00                              
ATOM   4321  CG  TYR   238      40.897  14.758 -13.426  1.00  0.00                              
ATOM   4323  CD1 TYR   238      41.934  13.955 -13.829  1.00  0.00                              
ATOM   4325  CE1 TYR   238      41.854  12.593 -13.728  1.00  0.00                              
ATOM   4327  CZ  TYR   238      40.723  12.014 -13.168  1.00  0.00                              
ATOM   4329  CD2 TYR   238      39.752  14.147 -12.882  1.00  0.00                              
ATOM   4331  CE2 TYR   238      39.678  12.796 -12.740  1.00  0.00                              
ATOM   4333  OH  TYR   238      40.637  10.642 -13.063  1.00  0.00                              
ATOM   4335  H   TYR   239      42.407  17.096 -15.964  1.00  0.00                              
ATOM   4337  N   TYR   239      41.947  16.441 -16.464  1.00  0.00                              
ATOM   4339  CA  TYR   239      42.553  15.926 -17.694  1.00  0.00                              
ATOM   4341  CB  TYR   239      42.423  16.965 -18.833  1.00  0.00                              
ATOM   4343  C   TYR   239      44.038  15.551 -17.501  1.00  0.00                              
ATOM   4345  O   TYR   239      44.383  14.359 -17.449  1.00  0.00                              
ATOM   4347  CG  TYR   239      43.065  16.537 -20.148  1.00  0.00                              
ATOM   4349  CD1 TYR   239      43.251  15.214 -20.442  1.00  0.00                              
ATOM   4351  CE1 TYR   239      43.799  14.817 -21.667  1.00  0.00                              
ATOM   4353  CZ  TYR   239      44.107  15.776 -22.614  1.00  0.00                              
ATOM   4355  CD2 TYR   239      43.527  17.492 -21.065  1.00  0.00                              
ATOM   4357  CE2 TYR   239      44.049  17.111 -22.291  1.00  0.00                              
ATOM   4359  OH  TYR   239      44.618  15.391 -23.833  1.00  0.00                              
ATOM   4361  H   THR   240      44.592  17.466 -17.455  1.00  0.00                              
ATOM   4363  N   THR   240      44.922  16.588 -17.443  1.00  0.00                              
ATOM   4365  CA  THR   240      46.381  16.379 -17.356  1.00  0.00                              
ATOM   4367  CB  THR   240      47.026  17.326 -16.308  1.00  0.00                              
ATOM   4369  C   THR   240      46.728  14.923 -17.021  1.00  0.00                              
ATOM   4371  O   THR   240      47.802  14.420 -17.420  1.00  0.00                              
ATOM   4373  CG2 THR   240      48.545  17.387 -16.480  1.00  0.00                              
ATOM   4375  OG1 THR   240      46.488  18.645 -16.474  1.00  0.00                              
TER 
END
