
#######################################################
#                                                     #
#                        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   19 (  163),  selected   19 , name T0329TS677_1_3-D2
# Molecule2: number of CA atoms   92 (  716),  selected   92 , name T0329_D2.pdb
# PARAMETERS: T0329TS677_1_3-D2.T0329_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T      17           -
LGA    -       -      S      18           -
LGA    -       -      A      19           -
LGA    -       -      D      20           -
LGA    -       -      L      21           -
LGA    -       -      T      22           -
LGA    -       -      S      23           -
LGA    -       -      A      24           -
LGA    -       -      L      25           -
LGA    -       -      N      26           -
LGA    -       -      Y      27           -
LGA    -       -      A      28           -
LGA    -       -      F      29           -
LGA    -       -      E      30           -
LGA    -       -      Q      31           -
LGA    -       -      T      32           -
LGA    -       -      G      33           -
LGA    -       -      H      34           -
LGA    -       -      R      35           -
LGA    -       -      H      36           -
LGA    -       -      D      37           -
LGA    -       -      F      38           -
LGA    -       -      T      39           -
LGA    -       -      V      40           -
LGA    -       -      E      41           -
LGA    -       -      D      42           -
LGA    -       -      I      43           -
LGA    -       -      K      44           -
LGA    -       -      N      45           -
LGA    -       -      F      46           -
LGA    -       -      F      47           -
LGA    -       -      G      48           -
LGA    -       -      S      49           -
LGA    -       -      G      50           -
LGA    -       -      V      51           -
LGA    -       -      V      52           -
LGA    -       -      V      53           -
LGA    -       -      A      54           -
LGA    -       -      V      55           -
LGA    -       -      T      56           -
LGA    -       -      R      57           -
LGA    -       -      A      58           -
LGA    -       -      L      59           -
LGA    -       -      A      60           -
LGA    -       -      Y      61           -
LGA    -       -      E      62           -
LGA    -       -      A      63           -
LGA    -       -      G      64           -
LGA    -       -      S      65           -
LGA    -       -      S      66           -
LGA    -       -      R      67           -
LGA    -       -      E      68           -
LGA    -       -      S      69           -
LGA    -       -      L      70           -
LGA    -       -      V      71           -
LGA    -       -      A      72           -
LGA    -       -      F      73           -
LGA    -       -      G      74           -
LGA    -       -      T      75           -
LGA    -       -      K      76           -
LGA    -       -      D      77           -
LGA    -       -      E      78           -
LGA    -       -      Q      79           -
LGA    -       -      I      80           -
LGA    -       -      P      81           -
LGA    -       -      E      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      T      85           -
LGA    -       -      Q      86           -
LGA    -       -      T      87           -
LGA    -       -      E      88           -
LGA    -       -      V      89           -
LGA    N      90      N      90          0.654
LGA    R      91      R      91          1.166
LGA    V      92      V      92          0.528
LGA    L      93      L      93          0.955
LGA    E      94      E      94          1.431
LGA    V      95      V      95          0.670
LGA    F      96      F      96          0.516
LGA    K      97      K      97          0.929
LGA    P      98      P      98          0.833
LGA    Y      99      Y      99          0.548
LGA    Y     100      Y     100          0.318
LGA    A     101      A     101          0.041
LGA    D     102      D     102          0.908
LGA    H     103      H     103          1.617
LGA    C     104      -       -           -
LGA    Q     105      C     104          0.489
LGA    I     106      Q     105          1.197
LGA    K     107      I     106          1.676
LGA    T     108      K     107          1.719
LGA    -       -      T     108           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   19   92    5.0     18    1.02    77.78     19.060     1.613

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.597564 * X  +  -0.780753 * Y  +   0.182600 * Z  +  36.460121
  Y_new =  -0.340736 * X  +   0.453409 * Y  +   0.823601 * Z  + -15.496327
  Z_new =  -0.725821 * X  +   0.429936 * Y  +  -0.536971 * Z  +  46.770294 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.466444   -0.675149  [ DEG:   141.3168    -38.6832 ]
  Theta =   0.812228    2.329365  [ DEG:    46.5372    133.4628 ]
  Phi   =  -2.623367    0.518225  [ DEG:  -150.3079     29.6921 ]
 
# 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: T0329TS677_1_3-D2                             
REMARK     2: T0329_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0329TS677_1_3-D2.T0329_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   19   92   5.0   18   1.02   77.78  19.060
REMARK  ---------------------------------------------------------- 
MOLECULE T0329TS677_1_3-D2
REMARK PARENT number 3
PFRMAT     TS
TARGET     T0329
PARENT     2ah5A
ATOM    452  N   ASN    90     -14.393  26.844  32.048  1.00  0.35
ATOM    453  CA  ASN    90     -13.064  27.349  32.217  1.00  0.35
ATOM    454  C   ASN    90     -12.935  27.882  33.606  1.00  0.35
ATOM    455  O   ASN    90     -11.936  27.646  34.285  1.00  0.35
ATOM    456  CB  ASN    90     -12.743  28.498  31.247  1.00  0.35
ATOM    457  CG  ASN    90     -11.261  28.815  31.360  1.00  0.35
ATOM    458  OD1 ASN    90     -10.575  28.333  32.260  1.00  0.35
ATOM    459  ND2 ASN    90     -10.750  29.659  30.423  1.00  0.35
ATOM    460  N   ARG    91     -13.967  28.610  34.071  1.00  0.53
ATOM    461  CA  ARG    91     -13.923  29.219  35.367  1.00  0.53
ATOM    462  C   ARG    91     -13.853  28.159  36.421  1.00  0.53
ATOM    463  O   ARG    91     -13.086  28.280  37.375  1.00  0.53
ATOM    464  CB  ARG    91     -15.166  30.072  35.665  1.00  0.53
ATOM    465  CG  ARG    91     -15.339  31.254  34.710  1.00  0.53
ATOM    466  CD  ARG    91     -14.337  32.387  34.941  1.00  0.53
ATOM    467  NE  ARG    91     -14.630  33.448  33.937  1.00  0.53
ATOM    468  CZ  ARG    91     -13.680  34.376  33.625  1.00  0.53
ATOM    469  NH1 ARG    91     -12.453  34.327  34.222  1.00  0.53
ATOM    470  NH2 ARG    91     -13.956  35.353  32.711  1.00  0.53
ATOM    471  N   VAL    92     -14.641  27.076  36.271  1.00  0.69
ATOM    472  CA  VAL    92     -14.684  26.078  37.301  1.00  0.69
ATOM    473  C   VAL    92     -13.337  25.440  37.442  1.00  0.69
ATOM    474  O   VAL    92     -12.893  25.164  38.555  1.00  0.69
ATOM    475  CB  VAL    92     -15.684  24.984  37.058  1.00  0.69
ATOM    476  CG1 VAL    92     -17.079  25.615  36.924  1.00  0.69
ATOM    477  CG2 VAL    92     -15.231  24.143  35.859  1.00  0.69
ATOM    478  N   LEU    93     -12.645  25.184  36.318  1.00  0.68
ATOM    479  CA  LEU    93     -11.355  24.557  36.377  1.00  0.68
ATOM    480  C   LEU    93     -10.442  25.477  37.123  1.00  0.68
ATOM    481  O   LEU    93      -9.606  25.046  37.916  1.00  0.68
ATOM    482  CB  LEU    93     -10.736  24.342  34.987  1.00  0.68
ATOM    483  CG  LEU    93     -11.560  23.410  34.083  1.00  0.68
ATOM    484  CD1 LEU    93     -10.890  23.228  32.713  1.00  0.68
ATOM    485  CD2 LEU    93     -11.862  22.077  34.785  1.00  0.68
ATOM    486  N   GLU    94     -10.615  26.786  36.870  1.00  0.54
ATOM    487  CA  GLU    94      -9.838  27.871  37.395  1.00  0.54
ATOM    488  C   GLU    94     -10.021  27.989  38.872  1.00  0.54
ATOM    489  O   GLU    94      -9.168  28.543  39.553  1.00  0.54
ATOM    490  CB  GLU    94     -10.228  29.220  36.768  1.00  0.54
ATOM    491  CG  GLU    94      -9.890  29.300  35.278  1.00  0.54
ATOM    492  CD  GLU    94     -10.325  30.664  34.766  1.00  0.54
ATOM    493  OE1 GLU    94     -11.541  30.979  34.878  1.00  0.54
ATOM    494  OE2 GLU    94      -9.449  31.411  34.255  1.00  0.54
ATOM    495  N   VAL    95     -11.141  27.513  39.432  1.00  0.50
ATOM    496  CA  VAL    95     -11.315  27.687  40.846  1.00  0.50
ATOM    497  C   VAL    95     -10.897  26.417  41.520  1.00  0.50
ATOM    498  O   VAL    95     -10.293  26.432  42.592  1.00  0.50
ATOM    499  CB  VAL    95     -12.741  27.959  41.232  1.00  0.50
ATOM    500  CG1 VAL    95     -13.603  26.745  40.849  1.00  0.50
ATOM    501  CG2 VAL    95     -12.783  28.301  42.730  1.00  0.50
ATOM    502  N   PHE    96     -11.191  25.278  40.876  1.00  0.59
ATOM    503  CA  PHE    96     -10.897  23.981  41.407  1.00  0.59
ATOM    504  C   PHE    96      -9.430  23.882  41.690  1.00  0.59
ATOM    505  O   PHE    96      -9.029  23.410  42.754  1.00  0.59
ATOM    506  CB  PHE    96     -11.252  22.895  40.372  1.00  0.59
ATOM    507  CG  PHE    96     -10.827  21.551  40.853  1.00  0.59
ATOM    508  CD1 PHE    96      -9.530  21.123  40.695  1.00  0.59
ATOM    509  CD2 PHE    96     -11.731  20.703  41.440  1.00  0.59
ATOM    510  CE1 PHE    96      -9.129  19.884  41.131  1.00  0.59
ATOM    511  CE2 PHE    96     -11.339  19.460  41.877  1.00  0.59
ATOM    512  CZ  PHE    96     -10.038  19.048  41.726  1.00  0.59
ATOM    513  N   LYS    97      -8.584  24.331  40.745  1.00  0.71
ATOM    514  CA  LYS    97      -7.167  24.169  40.910  1.00  0.71
ATOM    515  C   LYS    97      -6.687  24.984  42.079  1.00  0.71
ATOM    516  O   LYS    97      -5.817  24.539  42.824  1.00  0.71
ATOM    517  CB  LYS    97      -6.350  24.575  39.663  1.00  0.71
ATOM    518  CG  LYS    97      -6.716  23.800  38.394  1.00  0.71
ATOM    519  CD  LYS    97      -6.524  22.286  38.502  1.00  0.71
ATOM    520  CE  LYS    97      -6.913  21.537  37.225  1.00  0.71
ATOM    521  NZ  LYS    97      -8.339  21.784  36.909  1.00  0.71
ATOM    522  N   PRO    98      -7.211  26.167  42.260  1.00  0.64
ATOM    523  CA  PRO    98      -6.760  26.986  43.353  1.00  0.64
ATOM    524  C   PRO    98      -7.137  26.482  44.698  1.00  0.64
ATOM    525  O   PRO    98      -6.615  26.992  45.687  1.00  0.64
ATOM    526  CB  PRO    98      -7.212  28.406  43.050  1.00  0.64
ATOM    527  CG  PRO    98      -7.158  28.439  41.520  1.00  0.64
ATOM    528  CD  PRO    98      -7.452  26.988  41.097  1.00  0.64
ATOM    529  N   TYR    99      -8.032  25.490  44.776  1.00  0.42
ATOM    530  CA  TYR    99      -8.355  24.993  46.074  1.00  0.42
ATOM    531  C   TYR    99      -7.493  23.778  46.228  1.00  0.42
ATOM    532  O   TYR    99      -6.910  23.534  47.284  1.00  0.42
ATOM    533  CB  TYR    99      -9.837  24.591  46.175  1.00  0.42
ATOM    534  CG  TYR    99     -10.161  24.289  47.597  1.00  0.42
ATOM    535  CD1 TYR    99     -10.297  25.300  48.519  1.00  0.42
ATOM    536  CD2 TYR    99     -10.358  22.994  48.006  1.00  0.42
ATOM    537  CE1 TYR    99     -10.604  25.016  49.830  1.00  0.42
ATOM    538  CE2 TYR    99     -10.665  22.700  49.311  1.00  0.42
ATOM    539  CZ  TYR    99     -10.787  23.714  50.228  1.00  0.42
ATOM    540  OH  TYR    99     -11.103  23.419  51.571  1.00  0.42
ATOM    541  N   TYR   100      -7.352  23.023  45.127  1.00  0.34
ATOM    542  CA  TYR   100      -6.619  21.788  45.067  1.00  0.34
ATOM    543  C   TYR   100      -5.172  22.028  45.405  1.00  0.34
ATOM    544  O   TYR   100      -4.587  21.314  46.220  1.00  0.34
ATOM    545  CB  TYR   100      -6.653  21.236  43.629  1.00  0.34
ATOM    546  CG  TYR   100      -6.169  19.828  43.558  1.00  0.34
ATOM    547  CD1 TYR   100      -4.827  19.521  43.616  1.00  0.34
ATOM    548  CD2 TYR   100      -7.081  18.805  43.437  1.00  0.34
ATOM    549  CE1 TYR   100      -4.405  18.213  43.542  1.00  0.34
ATOM    550  CE2 TYR   100      -6.664  17.497  43.361  1.00  0.34
ATOM    551  CZ  TYR   100      -5.324  17.199  43.411  1.00  0.34
ATOM    552  OH  TYR   100      -4.891  15.858  43.334  1.00  0.34
ATOM    553  N   ALA   101      -4.560  23.058  44.791  1.00  0.25
ATOM    554  CA  ALA   101      -3.149  23.300  44.924  1.00  0.25
ATOM    555  C   ALA   101      -2.768  23.635  46.330  1.00  0.25
ATOM    556  O   ALA   101      -1.770  23.127  46.837  1.00  0.25
ATOM    557  CB  ALA   101      -2.665  24.463  44.040  1.00  0.25
ATOM    558  N   ASP   102      -3.541  24.498  47.014  1.00  0.16
ATOM    559  CA  ASP   102      -3.068  24.894  48.310  1.00  0.16
ATOM    560  C   ASP   102      -3.850  24.254  49.408  1.00  0.16
ATOM    561  O   ASP   102      -3.643  24.588  50.574  1.00  0.16
ATOM    562  CB  ASP   102      -3.127  26.412  48.538  1.00  0.16
ATOM    563  CG  ASP   102      -2.017  27.039  47.709  1.00  0.16
ATOM    564  OD1 ASP   102      -1.223  26.268  47.107  1.00  0.16
ATOM    565  OD2 ASP   102      -1.943  28.296  47.672  1.00  0.16
ATOM    566  N   HIS   103      -4.755  23.307  49.104  1.00  0.17
ATOM    567  CA  HIS   103      -5.488  22.771  50.216  1.00  0.17
ATOM    568  C   HIS   103      -5.779  21.326  49.979  1.00  0.17
ATOM    569  O   HIS   103      -5.492  20.477  50.821  1.00  0.17
ATOM    570  CB  HIS   103      -6.847  23.463  50.417  1.00  0.17
ATOM    571  CG  HIS   103      -6.713  24.907  50.796  1.00  0.17
ATOM    572  ND1 HIS   103      -6.550  25.352  52.089  1.00  0.17
ATOM    573  CD2 HIS   103      -6.712  26.021  50.016  1.00  0.17
ATOM    574  CE1 HIS   103      -6.460  26.704  52.028  1.00  0.17
ATOM    575  NE2 HIS   103      -6.554  27.157  50.791  1.00  0.17
ATOM    576  N   CYS   104      -6.345  21.018  48.800  1.00  0.27
ATOM    577  CA  CYS   104      -6.813  19.701  48.478  1.00  0.27
ATOM    578  C   CYS   104      -5.710  18.699  48.536  1.00  0.27
ATOM    579  O   CYS   104      -5.888  17.618  49.095  1.00  0.27
ATOM    580  CB  CYS   104      -7.382  19.625  47.058  1.00  0.27
ATOM    581  SG  CYS   104      -8.944  20.518  46.902  1.00  0.27
ATOM    582  N   GLN   105      -4.534  19.046  47.985  1.00  0.43
ATOM    583  CA  GLN   105      -3.450  18.115  47.833  1.00  0.43
ATOM    584  C   GLN   105      -3.075  17.538  49.163  1.00  0.43
ATOM    585  O   GLN   105      -2.700  16.369  49.252  1.00  0.43
ATOM    586  CB  GLN   105      -2.195  18.772  47.231  1.00  0.43
ATOM    587  CG  GLN   105      -2.376  19.209  45.775  1.00  0.43
ATOM    588  CD  GLN   105      -1.072  19.841  45.308  1.00  0.43
ATOM    589  OE1 GLN   105      -0.385  20.498  46.088  1.00  0.43
ATOM    590  NE2 GLN   105      -0.720  19.638  44.009  1.00  0.43
ATOM    591  N   ILE   106      -3.140  18.361  50.225  1.00  0.62
ATOM    592  CA  ILE   106      -2.799  17.940  51.554  1.00  0.62
ATOM    593  C   ILE   106      -3.791  16.930  52.036  1.00  0.62
ATOM    594  O   ILE   106      -3.424  15.989  52.736  1.00  0.62
ATOM    595  CB  ILE   106      -2.807  19.076  52.543  1.00  0.62
ATOM    596  CG1 ILE   106      -1.758  20.138  52.166  1.00  0.62
ATOM    597  CG2 ILE   106      -2.598  18.485  53.948  1.00  0.62
ATOM    598  CD1 ILE   106      -2.087  20.899  50.882  1.00  0.62
ATOM    599  N   LYS   107      -5.082  17.098  51.682  1.00  0.83
ATOM    600  CA  LYS   107      -6.097  16.221  52.192  1.00  0.83
ATOM    601  C   LYS   107      -6.054  14.908  51.474  1.00  0.83
ATOM    602  O   LYS   107      -6.891  14.635  50.612  1.00  0.83
ATOM    603  CB  LYS   107      -7.517  16.792  52.053  1.00  0.83
ATOM    604  CG  LYS   107      -8.533  16.094  52.957  1.00  0.83
ATOM    605  CD  LYS   107      -8.309  16.365  54.444  1.00  0.83
ATOM    606  CE  LYS   107      -8.756  17.762  54.879  1.00  0.83
ATOM    607  NZ  LYS   107      -7.937  18.789  54.194  1.00  0.83
ATOM    608  N   THR   108      -5.067  14.057  51.837  1.00  0.67
ATOM    609  CA  THR   108      -4.907  12.752  51.259  1.00  0.67
ATOM    610  C   THR   108      -4.043  11.939  52.198  1.00  0.67
ATOM    611  O   THR   108      -3.188  12.480  52.896  1.00  0.67
ATOM    612  CB  THR   108      -4.185  12.766  49.940  1.00  0.67
ATOM    613  OG1 THR   108      -2.873  13.281  50.111  1.00  0.67
ATOM    614  CG2 THR   108      -4.966  13.629  48.933  1.00  0.67
TER
END
