
#######################################################
#                                                     #
#                        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   46 (  232),  selected   46 , name T0363TS437_4-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS437_4-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11           -
LGA    Q      12      -       -           -
LGA    I      13      -       -           -
LGA    N      14      -       -           -
LGA    I      15      -       -           -
LGA    E      16      -       -           -
LGA    I      17      -       -           -
LGA    A      18      -       -           -
LGA    Y      19      -       -           -
LGA    A      20      -       -           -
LGA    F      21      Q      12           #
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      I      13          5.363
LGA    -       -      N      14           -
LGA    Y      26      I      15          2.900
LGA    L      27      E      16          2.655
LGA    K      28      I      17          1.584
LGA    S      29      A      18          1.042
LGA    F      30      Y      19          1.069
LGA    Q      31      A      20          0.683
LGA    V      32      F      21          0.702
LGA    D      33      P      22          3.008
LGA    E      34      E      23          2.395
LGA    G      35      -       -           -
LGA    I      36      R      24          1.838
LGA    T      37      Y      25          1.809
LGA    V      38      Y      26          1.255
LGA    Q      39      L      27          1.991
LGA    T      40      K      28          2.998
LGA    A      41      S      29          2.333
LGA    I      42      F      30          2.568
LGA    T      43      Q      31          2.089
LGA    Q      44      -       -           -
LGA    S      45      -       -           -
LGA    G      46      V      32           #
LGA    I      47      D      33          3.723
LGA    L      48      E      34          4.711
LGA    -       -      G      35           -
LGA    S      49      I      36          1.253
LGA    Q      50      T      37          2.075
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    -       -      T      40           -
LGA    F      51      A      41          0.909
LGA    P      52      I      42          2.076
LGA    -       -      T      43           -
LGA    -       -      Q      44           -
LGA    E      53      S      45          4.931
LGA    -       -      G      46           -
LGA    I      54      I      47          0.867
LGA    D      55      L      48          2.727
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    L      56      F      51          2.531
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     28    2.59     7.14     43.446     1.040

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.656670 * X  +   0.539873 * Y  +   0.526614 * Z  + 163.717682
  Y_new =  -0.240896 * X  +  -0.811831 * Y  +   0.531883 * Z  +  10.366120
  Z_new =   0.714671 * X  +   0.222412 * Y  +   0.663158 * Z  + -111.392578 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.323594   -2.817998  [ DEG:    18.5406   -161.4594 ]
  Theta =  -0.796153   -2.345440  [ DEG:   -45.6162   -134.3838 ]
  Phi   =  -2.789991    0.351602  [ DEG:  -159.8547     20.1453 ]
 
# 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: T0363TS437_4-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS437_4-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   46   5.0   28   2.59    7.14  43.446
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS437_4-D1
PFRMAT TS
TARGET T0363
MODEL     4 REFINED
PARENT N/A
ATOM     88  N   ASN    11      26.406  26.521 -12.709  1.00   .00
ATOM     89  CA  ASN    11      25.295  27.378 -12.080  1.00   .00
ATOM     90  C   ASN    11      25.026  26.868 -10.501  1.00   .00
ATOM     91  O   ASN    11      25.903  26.231  -9.876  1.00   .00
ATOM     92  CB  ASN    11      24.079  27.188 -13.070  1.00   .00
ATOM     96  N   GLN    12      23.826  27.117  -9.884  1.00   .00
ATOM     97  CA  GLN    12      23.578  26.575  -8.426  1.00   .00
ATOM     98  C   GLN    12      23.192  24.945  -8.521  1.00   .00
ATOM     99  O   GLN    12      22.046  24.520  -8.272  1.00   .00
ATOM    100  CB  GLN    12      22.492  27.484  -7.807  1.00   .00
ATOM    105  N   ILE    13      24.205  24.123  -8.941  1.00   .00
ATOM    106  CA  ILE    13      24.007  22.624  -9.175  1.00   .00
ATOM    107  C   ILE    13      23.918  21.708  -7.824  1.00   .00
ATOM    108  O   ILE    13      24.921  21.457  -7.133  1.00   .00
ATOM    109  CB  ILE    13      25.169  22.187 -10.147  1.00   .00
ATOM    113  N   ASN    14      22.696  21.192  -7.499  1.00   .00
ATOM    114  CA  ASN    14      22.505  20.272  -6.284  1.00   .00
ATOM    115  C   ASN    14      23.007  18.740  -6.601  1.00   .00
ATOM    116  O   ASN    14      22.401  18.030  -7.420  1.00   .00
ATOM    117  CB  ASN    14      20.988  20.341  -5.934  1.00   .00
ATOM    121  N   ILE    15      24.101  18.292  -5.931  1.00   .00
ATOM    122  CA  ILE    15      24.661  16.871  -6.132  1.00   .00
ATOM    123  C   ILE    15      24.103  15.912  -4.936  1.00   .00
ATOM    124  O   ILE    15      24.492  16.048  -3.769  1.00   .00
ATOM    125  CB  ILE    15      26.217  16.994  -6.156  1.00   .00
ATOM    129  N   GLU    16      23.177  14.961  -5.260  1.00   .00
ATOM    130  CA  GLU    16      22.590  13.999  -4.191  1.00   .00
ATOM    131  C   GLU    16      23.464  12.625  -4.138  1.00   .00
ATOM    132  O   GLU    16      23.418  11.798  -5.057  1.00   .00
ATOM    133  CB  GLU    16      21.095  13.776  -4.588  1.00   .00
ATOM    138  N   ILE    17      24.263  12.438  -3.034  1.00   .00
ATOM    139  CA  ILE    17      25.155  11.181  -2.878  1.00   .00
ATOM    140  C   ILE    17      24.412  10.056  -1.975  1.00   .00
ATOM    141  O   ILE    17      24.439  10.112  -0.741  1.00   .00
ATOM    142  CB  ILE    17      26.524  11.667  -2.281  1.00   .00
ATOM    146  N   ALA    18      23.748   9.061  -2.639  1.00   .00
ATOM    147  CA  ALA    18      22.993   7.939  -1.892  1.00   .00
ATOM    148  C   ALA    18      23.903   6.584  -1.691  1.00   .00
ATOM    149  O   ALA    18      24.230   5.886  -2.655  1.00   .00
ATOM    150  CB  ALA    18      21.687   7.659  -2.704  1.00   .00
ATOM    151  N   TYR    19      24.258   6.239  -0.403  1.00   .00
ATOM    152  CA  TYR    19      25.073   4.936  -0.102  1.00   .00
ATOM    153  C   TYR    19      24.093   3.633  -0.359  1.00   .00
ATOM    154  O   TYR    19      23.963   3.157  -1.501  1.00   .00
ATOM    155  CB  TYR    19      25.672   5.136   1.334  1.00   .00
ATOM    163  N   ALA    20      23.344   3.118   0.687  1.00   .00
ATOM    164  CA  ALA    20      22.297   1.999   0.428  1.00   .00
ATOM    165  C   ALA    20      21.036   2.802  -0.300  1.00   .00
ATOM    166  O   ALA    20      20.484   3.773   0.271  1.00   .00
ATOM    167  CB  ALA    20      21.970   1.327   1.778  1.00   .00
ATOM    168  N   PHE    21      20.675   2.447  -1.574  1.00   .00
ATOM    169  CA  PHE    21      19.572   3.249  -2.368  1.00   .00
ATOM    170  C   PHE    21      17.983   2.745  -2.486  1.00   .00
ATOM    171  O   PHE    21      17.283   3.283  -3.361  1.00   .00
ATOM    172  CB  PHE    21      20.222   3.469  -3.785  1.00   .00
ATOM    179  N   PRO    22      17.363   1.748  -1.648  1.00   .00
ATOM    180  CA  PRO    22      15.853   1.368  -1.825  1.00   .00
ATOM    181  C   PRO    22      14.794   2.574  -1.365  1.00   .00
ATOM    182  O   PRO    22      13.758   2.770  -2.001  1.00   .00
ATOM    183  CB  PRO    22      15.801   0.074  -0.961  1.00   .00
ATOM    184  CG  PRO    22      16.893   0.232   0.125  1.00   .00
ATOM    185  CD  PRO    22      18.049   1.012  -0.534  1.00   .00
ATOM    186  N   GLU    23      15.121   3.335  -0.260  1.00   .00
ATOM    187  CA  GLU    23      14.215   4.490   0.278  1.00   .00
ATOM    188  C   GLU    23      15.136   5.757   0.797  1.00   .00
ATOM    189  O   GLU    23      15.340   5.946   1.995  1.00   .00
ATOM    190  CB  GLU    23      13.332   3.871   1.408  1.00   .00
ATOM    195  N   ARG    24      15.690   6.572  -0.177  1.00   .00
ATOM    196  CA  ARG    24      16.637   7.813   0.129  1.00   .00
ATOM    197  C   ARG    24      16.510   8.652   1.575  1.00   .00
ATOM    198  O   ARG    24      15.766   9.630   1.706  1.00   .00
ATOM    199  CB  ARG    24      16.467   8.749  -1.114  1.00   .00
ATOM    206  N   TYR    25      17.321   8.219   2.611  1.00   .00
ATOM    207  CA  TYR    25      17.320   8.913   3.986  1.00   .00
ATOM    208  C   TYR    25      18.475  10.068   4.094  1.00   .00
ATOM    209  O   TYR    25      19.660   9.768   4.362  1.00   .00
ATOM    210  CB  TYR    25      17.517   7.778   5.041  1.00   .00
ATOM    218  N   TYR    26      18.084  11.370   3.872  1.00   .00
ATOM    219  CA  TYR    26      19.095  12.566   3.932  1.00   .00
ATOM    220  C   TYR    26      19.873  12.763   5.397  1.00   .00
ATOM    221  O   TYR    26      19.247  12.882   6.461  1.00   .00
ATOM    222  CB  TYR    26      18.274  13.834   3.559  1.00   .00
ATOM    230  N   LEU    27      21.243  12.767   5.355  1.00   .00
ATOM    231  CA  LEU    27      22.133  12.914   6.593  1.00   .00
ATOM    232  C   LEU    27      22.962  14.323   6.720  1.00   .00
ATOM    233  O   LEU    27      22.957  14.940   7.785  1.00   .00
ATOM    234  CB  LEU    27      23.109  11.673   6.556  1.00   .00
ATOM    238  N   LYS    28      23.694  14.803   5.634  1.00   .00
ATOM    239  CA  LYS    28      24.529  16.131   5.721  1.00   .00
ATOM    240  C   LYS    28      24.608  16.982   4.332  1.00   .00
ATOM    241  O   LYS    28      24.890  16.445   3.240  1.00   .00
ATOM    242  CB  LYS    28      25.954  15.760   6.249  1.00   .00
ATOM    247  N   SER    29      24.386  18.338   4.433  1.00   .00
ATOM    248  CA  SER    29      24.442  19.298   3.221  1.00   .00
ATOM    249  C   SER    29      25.873  20.109   3.159  1.00   .00
ATOM    250  O   SER    29      26.127  21.050   3.937  1.00   .00
ATOM    251  CB  SER    29      23.219  20.272   3.417  1.00   .00
ATOM    253  N   PHE    30      26.785  19.696   2.218  1.00   .00
ATOM    254  CA  PHE    30      28.172  20.363   2.075  1.00   .00
ATOM    255  C   PHE    30      28.282  21.381   0.794  1.00   .00
ATOM    256  O   PHE    30      28.300  20.968  -0.365  1.00   .00
ATOM    257  CB  PHE    30      29.205  19.194   1.993  1.00   .00
ATOM    264  N   GLN    31      28.376  22.717   1.079  1.00   .00
ATOM    265  CA  GLN    31      28.530  23.782  -0.043  1.00   .00
ATOM    266  C   GLN    31      30.040  23.782  -0.704  1.00   .00
ATOM    267  O   GLN    31      31.050  23.900   0.011  1.00   .00
ATOM    268  CB  GLN    31      28.165  25.149   0.617  1.00   .00
ATOM    273  N   VAL    32      30.135  23.632  -2.062  1.00   .00
ATOM    274  CA  VAL    32      31.488  23.630  -2.786  1.00   .00
ATOM    275  C   VAL    32      31.890  25.134  -3.270  1.00   .00
ATOM    276  O   VAL    32      31.023  25.947  -3.663  1.00   .00
ATOM    277  CB  VAL    32      31.323  22.650  -3.991  1.00   .00
ATOM    280  N   ASP    33      33.210  25.496  -3.268  1.00   .00
ATOM    281  CA  ASP    33      33.684  26.954  -3.753  1.00   .00
ATOM    282  C   ASP    33      33.536  27.242  -5.395  1.00   .00
ATOM    283  O   ASP    33      34.424  27.805  -6.052  1.00   .00
ATOM    284  CB  ASP    33      35.150  27.114  -3.229  1.00   .00
ATOM    288  N   GLU    34      32.377  26.822  -5.962  1.00   .00
ATOM    289  CA  GLU    34      32.033  26.982  -7.456  1.00   .00
ATOM    290  C   GLU    34      30.398  26.833  -7.696  1.00   .00
ATOM    291  O   GLU    34      29.957  26.095  -8.587  1.00   .00
ATOM    292  CB  GLU    34      32.863  25.875  -8.232  1.00   .00
ATOM    297  N   GLY    35      29.537  27.526  -6.870  1.00   .00
ATOM    298  CA  GLY    35      27.945  27.401  -7.031  1.00   .00
ATOM    299  C   GLY    35      27.240  26.034  -6.527  1.00   .00
ATOM    300  O   GLY    35      26.167  26.064  -5.927  1.00   .00
ATOM    301  N   ILE    36      27.880  24.876  -6.814  1.00   .00
ATOM    302  CA  ILE    36      27.324  23.486  -6.429  1.00   .00
ATOM    303  C   ILE    36      27.139  23.150  -4.813  1.00   .00
ATOM    304  O   ILE    36      27.926  23.562  -3.940  1.00   .00
ATOM    305  CB  ILE    36      28.259  22.452  -7.146  1.00   .00
ATOM    309  N   THR    37      26.051  22.373  -4.492  1.00   .00
ATOM    310  CA  THR    37      25.735  21.944  -3.012  1.00   .00
ATOM    311  C   THR    37      25.653  20.334  -2.945  1.00   .00
ATOM    312  O   THR    37      24.805  19.718  -3.603  1.00   .00
ATOM    313  CB  THR    37      24.385  22.628  -2.587  1.00   .00
ATOM    316  N   VAL    38      26.564  19.667  -2.148  1.00   .00
ATOM    317  CA  VAL    38      26.564  18.122  -2.036  1.00   .00
ATOM    318  C   VAL    38      25.648  17.584  -0.800  1.00   .00
ATOM    319  O   VAL    38      25.971  17.782   0.380  1.00   .00
ATOM    320  CB  VAL    38      28.054  17.667  -1.927  1.00   .00
ATOM    323  N   GLN    39      24.514  16.896  -1.118  1.00   .00
ATOM    324  CA  GLN    39      23.566  16.308  -0.028  1.00   .00
ATOM    325  C   GLN    39      23.825  14.717   0.155  1.00   .00
ATOM    326  O   GLN    39      23.467  13.905  -0.712  1.00   .00
ATOM    327  CB  GLN    39      22.108  16.612  -0.501  1.00   .00
ATOM    332  N   THR    40      24.463  14.313   1.296  1.00   .00
ATOM    333  CA  THR    40      24.763  12.805   1.569  1.00   .00
ATOM    334  C   THR    40      23.467  12.028   2.169  1.00   .00
ATOM    335  O   THR    40      22.852  12.490   3.140  1.00   .00
ATOM    336  CB  THR    40      25.974  12.757   2.552  1.00   .00
ATOM    339  N   ALA    41      23.098  10.870   1.564  1.00   .00
ATOM    340  CA  ALA    41      21.876  10.026   2.058  1.00   .00
ATOM    341  C   ALA    41      22.298   8.450   2.354  1.00   .00
ATOM    342  O   ALA    41      23.111   7.856   1.622  1.00   .00
ATOM    343  CB  ALA    41      20.759  10.145   0.970  1.00   .00
ATOM    344  N   ILE    42      21.731   7.819   3.443  1.00   .00
ATOM    345  CA  ILE    42      22.096   6.319   3.798  1.00   .00
ATOM    346  C   ILE    42      20.791   5.421   4.178  1.00   .00
ATOM    347  O   ILE    42      20.390   5.338   5.356  1.00   .00
ATOM    348  CB  ILE    42      23.161   6.401   4.960  1.00   .00
ATOM    352  N   THR    43      20.136   4.756   3.140  1.00   .00
ATOM    353  CA  THR    43      18.865   3.912   3.414  1.00   .00
ATOM    354  C   THR    43      19.072   2.318   3.712  1.00   .00
ATOM    355  O   THR    43      18.780   1.432   2.874  1.00   .00
ATOM    356  CB  THR    43      17.923   4.181   2.199  1.00   .00
ATOM    359  N   GLN    44      19.528   1.993   4.956  1.00   .00
ATOM    360  CA  GLN    44      19.662   0.510   5.413  1.00   .00
ATOM    361  C   GLN    44      18.287   0.182   6.289  1.00   .00
ATOM    362  O   GLN    44      17.191   0.696   5.949  1.00   .00
ATOM    363  CB  GLN    44      21.034   0.421   6.167  1.00   .00
ATOM    368  N   SER    45      18.347  -0.606   7.416  1.00   .00
ATOM    369  CA  SER    45      17.048  -0.820   8.288  1.00   .00
ATOM    370  C   SER    45      16.862   0.469   9.319  1.00   .00
ATOM    371  O   SER    45      16.923   0.341  10.552  1.00   .00
ATOM    372  CB  SER    45      17.173  -2.199   8.994  1.00   .00
ATOM    374  N   GLY    46      16.686   1.704   8.710  1.00   .00
ATOM    375  CA  GLY    46      16.565   3.044   9.512  1.00   .00
ATOM    376  C   GLY    46      17.621   4.097   8.963  1.00   .00
ATOM    377  O   GLY    46      17.440   4.676   7.887  1.00   .00
ATOM    378  N   ILE    47      18.730   4.304   9.729  1.00   .00
ATOM    379  CA  ILE    47      19.876   5.299   9.305  1.00   .00
ATOM    380  C   ILE    47      21.219   4.996  10.212  1.00   .00
ATOM    381  O   ILE    47      21.130   4.595  11.371  1.00   .00
ATOM    382  CB  ILE    47      19.386   6.794   9.476  1.00   .00
ATOM    386  N   LEU    48      22.428   5.221   9.629  1.00   .00
ATOM    387  CA  LEU    48      23.767   5.013  10.425  1.00   .00
ATOM    388  C   LEU    48      24.035   6.250  11.498  1.00   .00
ATOM    389  O   LEU    48      23.851   7.422  11.161  1.00   .00
ATOM    390  CB  LEU    48      24.884   4.888   9.359  1.00   .00
ATOM    394  N   SER    49      24.458   5.915  12.775  1.00   .00
ATOM    395  CA  SER    49      24.718   6.996  13.903  1.00   .00
ATOM    396  C   SER    49      25.727   8.235  13.486  1.00   .00
ATOM    397  O   SER    49      25.254   9.346  13.197  1.00   .00
ATOM    398  CB  SER    49      25.137   6.193  15.187  1.00   .00
ATOM    400  N   GLN    50      27.085   8.011  13.450  1.00   .00
ATOM    401  CA  GLN    50      28.067   9.138  13.006  1.00   .00
ATOM    402  C   GLN    50      28.339   8.970  11.382  1.00   .00
ATOM    403  O   GLN    50      29.354   8.403  10.952  1.00   .00
ATOM    404  CB  GLN    50      29.343   9.060  13.907  1.00   .00
ATOM    409  N   PHE    51      27.370   9.471  10.551  1.00   .00
ATOM    410  CA  PHE    51      27.470   9.364   9.025  1.00   .00
ATOM    411  C   PHE    51      28.780  10.151   8.347  1.00   .00
ATOM    412  O   PHE    51      28.935  11.381   8.559  1.00   .00
ATOM    413  CB  PHE    51      26.111   9.877   8.471  1.00   .00
ATOM    420  N   PRO    52      29.733   9.434   7.531  1.00   .00
ATOM    421  CA  PRO    52      30.951  10.134   6.921  1.00   .00
ATOM    422  C   PRO    52      30.579  11.242   5.766  1.00   .00
ATOM    423  O   PRO    52      29.921  10.951   4.752  1.00   .00
ATOM    424  CB  PRO    52      31.751   8.892   6.390  1.00   .00
ATOM    425  CG  PRO    52      30.694   7.784   6.123  1.00   .00
ATOM    426  CD  PRO    52      29.632   7.962   7.222  1.00   .00
ATOM    427  N   GLU    53      31.050  12.504   5.986  1.00   .00
ATOM    428  CA  GLU    53      30.809  13.646   4.981  1.00   .00
ATOM    429  C   GLU    53      31.760  13.565   3.645  1.00   .00
ATOM    430  O   GLU    53      32.961  13.258   3.725  1.00   .00
ATOM    431  CB  GLU    53      31.037  14.982   5.790  1.00   .00
ATOM    436  N   ILE    54      31.175  13.866   2.427  1.00   .00
ATOM    437  CA  ILE    54      31.989  13.832   1.107  1.00   .00
ATOM    438  C   ILE    54      33.139  15.043   1.053  1.00   .00
ATOM    439  O   ILE    54      32.837  16.235   1.255  1.00   .00
ATOM    440  CB  ILE    54      30.946  13.986  -0.063  1.00   .00
ATOM    444  N   ASP    55      34.426  14.670   0.809  1.00   .00
ATOM    445  CA  ASP    55      35.601  15.708   0.785  1.00   .00
ATOM    446  C   ASP    55      35.546  16.812  -0.440  1.00   .00
ATOM    447  O   ASP    55      36.013  16.536  -1.548  1.00   .00
ATOM    448  CB  ASP    55      36.903  14.830   0.741  1.00   .00
ATOM    452  N   LEU    56      34.969  18.039  -0.181  1.00   .00
ATOM    453  CA  LEU    56      34.851  19.171  -1.274  1.00   .00
ATOM    454  C   LEU    56      36.095  20.247  -1.338  1.00   .00
ATOM    455  O   LEU    56      35.990  21.365  -0.858  1.00   .00
ATOM    456  CB  LEU    56      33.473  19.852  -0.977  1.00   .00
TER   
END
