
#######################################################
#                                                     #
#                        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 (  228),  selected   46 , name T0363TS245_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS245_1-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      Q      12          3.869
LGA    I      13      I      13          3.239
LGA    N      14      N      14          2.264
LGA    I      15      I      15          1.716
LGA    E      16      E      16          2.555
LGA    I      17      I      17          2.987
LGA    A      18      A      18          3.099
LGA    Y      19      Y      19          2.120
LGA    A      20      A      20          2.915
LGA    F      21      F      21          4.635
LGA    P      22      P      22           -
LGA    E      23      E      23           -
LGA    R      24      R      24          0.646
LGA    Y      25      Y      25          1.982
LGA    Y      26      Y      26          5.437
LGA    L      27      L      27          3.017
LGA    K      28      K      28          0.757
LGA    S      29      S      29          0.698
LGA    F      30      F      30          1.618
LGA    Q      31      Q      31          1.995
LGA    V      32      V      32          2.003
LGA    D      33      D      33          1.956
LGA    E      34      E      34          2.519
LGA    G      35      G      35          0.836
LGA    I      36      I      36          0.335
LGA    T      37      T      37          0.348
LGA    V      38      V      38          0.631
LGA    Q      39      Q      39          0.898
LGA    T      40      T      40          0.329
LGA    A      41      A      41          1.267
LGA    I      42      I      42          1.684
LGA    T      43      T      43          0.647
LGA    Q      44      Q      44          1.466
LGA    S      45      S      45          1.303
LGA    G      46      G      46          3.023
LGA    I      47      I      47          3.279
LGA    L      48      L      48          3.035
LGA    S      49      -       -           -
LGA    Q      50      -       -           -
LGA    F      51      S      49          3.911
LGA    P      52      Q      50          4.172
LGA    E      53      F      51          3.588
LGA    I      54      P      52          3.369
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    D      55      D      55           #
LGA    L      56      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     39    2.56    89.74     61.875     1.468

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.489388 * X  +  -0.837530 * Y  +  -0.242985 * Z  +  50.561649
  Y_new =   0.806421 * X  +   0.328570 * Y  +   0.491657 * Z  + -24.295422
  Z_new =  -0.331940 * X  +  -0.436560 * Y  +   0.836200 * Z  +  36.225674 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.481152    2.660441  [ DEG:   -27.5680    152.4320 ]
  Theta =   0.338360    2.803233  [ DEG:    19.3866    160.6134 ]
  Phi   =   1.025344   -2.116248  [ DEG:    58.7479   -121.2521 ]
 
# 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: T0363TS245_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS245_1-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   39   2.56   89.74  61.875
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS245_1-D1
PFRMAT TS
TARGET T0363
MODEL 1
PARENT 1vjkA
ATOM     31  N   ASN    11      19.433   0.860   4.790  1.00  0.00
ATOM     32  CA  ASN    11      19.497   2.269   4.923  1.00  0.00
ATOM     33  C   ASN    11      18.122   2.664   4.988  1.00  0.00
ATOM     34  O   ASN    11      19.121   1.926   4.840  1.00  0.00
ATOM     35  CB  ASN    11      20.177   2.929   3.721  1.00  0.00
ATOM     36  N   GLN    12      17.495   2.420   5.144  1.00  0.00
ATOM     37  CA  GLN    12      18.878   2.315   4.858  1.00  0.00
ATOM     38  C   GLN    12      18.409   3.695   4.696  1.00  0.00
ATOM     39  O   GLN    12      17.200   3.941   4.501  1.00  0.00
ATOM     40  CB  GLN    12      19.445   1.794   3.536  1.00  0.00
ATOM     41  N   ILE    13      19.333   4.636   5.443  1.00  0.00
ATOM     42  CA  ILE    13      19.151   5.932   6.082  1.00  0.00
ATOM     43  C   ILE    13      19.400   7.051   5.090  1.00  0.00
ATOM     44  O   ILE    13      20.149   6.753   4.135  1.00  0.00
ATOM     45  CB  ILE    13      20.127   6.042   7.255  1.00  0.00
ATOM     46  N   ASN    14      18.921   8.221   5.260  1.00  0.00
ATOM     47  CA  ASN    14      19.172   9.356   4.386  1.00  0.00
ATOM     48  C   ASN    14      19.419  10.600   5.213  1.00  0.00
ATOM     49  O   ASN    14      18.573  10.734   6.123  1.00  0.00
ATOM     50  CB  ASN    14      17.957   9.561   3.479  1.00  0.00
ATOM     51  N   ILE    15      20.218  11.478   4.910  1.00  0.00
ATOM     52  CA  ILE    15      20.392  12.807   5.472  1.00  0.00
ATOM     53  C   ILE    15      20.454  13.823   4.347  1.00  0.00
ATOM     54  O   ILE    15      21.378  13.698   3.515  1.00  0.00
ATOM     55  CB  ILE    15      21.687  12.844   6.286  1.00  0.00
ATOM     56  N   GLU    16      19.656  14.921   4.408  1.00  0.00
ATOM     57  CA  GLU    16      19.861  16.017   3.473  1.00  0.00
ATOM     58  C   GLU    16      20.839  16.995   4.109  1.00  0.00
ATOM     59  O   GLU    16      20.465  17.598   5.138  1.00  0.00
ATOM     60  CB  GLU    16      18.531  16.714   3.186  1.00  0.00
ATOM     61  N   ILE    17      21.981  17.204   3.548  1.00  0.00
ATOM     62  CA  ILE    17      22.976  18.152   4.021  1.00  0.00
ATOM     63  C   ILE    17      23.071  19.338   3.082  1.00  0.00
ATOM     64  O   ILE    17      23.221  19.076   1.869  1.00  0.00
ATOM     65  CB  ILE    17      24.327  17.439   4.106  1.00  0.00
ATOM     66  N   ALA    18      23.114  20.531   3.550  1.00  0.00
ATOM     67  CA  ALA    18      23.342  21.714   2.734  1.00  0.00
ATOM     68  C   ALA    18      24.763  22.188   2.979  1.00  0.00
ATOM     69  O   ALA    18      25.012  22.425   4.181  1.00  0.00
ATOM     70  CB  ALA    18      22.347  22.811   3.120  1.00  0.00
ATOM     71  N   TYR    19      25.552  22.340   2.121  1.00  0.00
ATOM     72  CA  TYR    19      26.937  22.792   2.068  1.00  0.00
ATOM     73  C   TYR    19      27.094  24.241   1.728  1.00  0.00
ATOM     74  O   TYR    19      27.800  24.199   0.699  1.00  0.00
ATOM     75  CB  TYR    19      27.644  21.928   1.023  1.00  0.00
ATOM     76  N   ALA    20      26.775  25.816   2.680  1.00  0.00
ATOM     77  CA  ALA    20      27.607  26.526   1.706  1.00  0.00
ATOM     78  C   ALA    20      28.200  25.556   0.697  1.00  0.00
ATOM     79  O   ALA    20      27.097  24.974   0.784  1.00  0.00
ATOM     80  CB  ALA    20      28.726  27.249   2.460  1.00  0.00
ATOM     81  N   PHE    21      34.687  22.319  -3.229  1.00  0.00
ATOM     82  CA  PHE    21      34.482  21.017  -3.824  1.00  0.00
ATOM     83  C   PHE    21      33.594  20.220  -2.899  1.00  0.00
ATOM     84  O   PHE    21      34.628  20.286  -2.199  1.00  0.00
ATOM     85  CB  PHE    21      35.825  20.308  -4.004  1.00  0.00
ATOM     86  N   PRO    22      24.898  19.584   0.786  1.00  0.00
ATOM     87  CA  PRO    22      24.139  19.521   1.973  1.00  0.00
ATOM     88  C   PRO    22      22.852  19.409   1.479  1.00  0.00
ATOM     89  O   PRO    22      23.198  18.391   2.116  1.00  0.00
ATOM     90  CB  PRO    22      24.264  20.782   2.830  1.00  0.00
ATOM     91  N   GLU    23      19.548  19.706  -0.239  1.00  0.00
ATOM     92  CA  GLU    23      20.674  19.270   0.501  1.00  0.00
ATOM     93  C   GLU    23      20.940  19.225  -0.940  1.00  0.00
ATOM     94  O   GLU    23      20.157  20.018  -0.374  1.00  0.00
ATOM     95  CB  GLU    23      20.816  17.872   1.106  1.00  0.00
ATOM     96  N   ARG    24      27.821  21.986  -6.293  1.00  0.00
ATOM     97  CA  ARG    24      28.470  23.222  -6.836  1.00  0.00
ATOM     98  C   ARG    24      29.296  22.826  -8.058  1.00  0.00
ATOM     99  O   ARG    24      29.171  22.333  -9.200  1.00  0.00
ATOM    100  CB  ARG    24      29.374  23.846  -5.770  1.00  0.00
ATOM    101  N   TYR    25      27.092  21.966  -5.260  1.00  0.00
ATOM    102  CA  TYR    25      25.951  21.177  -4.821  1.00  0.00
ATOM    103  C   TYR    25      25.696  21.930  -3.529  1.00  0.00
ATOM    104  O   TYR    25      25.788  21.200  -2.518  1.00  0.00
ATOM    105  CB  TYR    25      26.254  19.708  -4.522  1.00  0.00
ATOM    106  N   TYR    26      24.888  23.229  -3.547  1.00  0.00
ATOM    107  CA  TYR    26      24.273  23.474  -2.278  1.00  0.00
ATOM    108  C   TYR    26      23.091  22.599  -1.872  1.00  0.00
ATOM    109  O   TYR    26      22.047  23.282  -1.784  1.00  0.00
ATOM    110  CB  TYR    26      23.848  24.943  -2.333  1.00  0.00
ATOM    111  N   LEU    27      23.149  21.537  -1.544  1.00  0.00
ATOM    112  CA  LEU    27      22.386  20.424  -0.957  1.00  0.00
ATOM    113  C   LEU    27      22.763  19.052  -1.540  1.00  0.00
ATOM    114  O   LEU    27      23.012  19.562  -2.654  1.00  0.00
ATOM    115  CB  LEU    27      20.904  20.711  -1.206  1.00  0.00
ATOM    116  N   LYS    28      22.797  15.226  -0.914  1.00  0.00
ATOM    117  CA  LYS    28      22.970  13.844  -1.343  1.00  0.00
ATOM    118  C   LYS    28      22.397  12.835  -0.398  1.00  0.00
ATOM    119  O   LYS    28      22.846  13.361   0.644  1.00  0.00
ATOM    120  CB  LYS    28      24.475  13.618  -1.505  1.00  0.00
ATOM    121  N   SER    29      21.736  12.033  -0.388  1.00  0.00
ATOM    122  CA  SER    29      21.122  11.269   0.687  1.00  0.00
ATOM    123  C   SER    29      22.091  10.163   1.071  1.00  0.00
ATOM    124  O   SER    29      22.634   9.463   0.189  1.00  0.00
ATOM    125  CB  SER    29      19.796  10.666   0.215  1.00  0.00
ATOM    126  N   PHE    30      22.368  10.054   2.316  1.00  0.00
ATOM    127  CA  PHE    30      23.346   9.098   2.811  1.00  0.00
ATOM    128  C   PHE    30      22.580   8.156   3.722  1.00  0.00
ATOM    129  O   PHE    30      21.978   8.592   4.728  1.00  0.00
ATOM    130  CB  PHE    30      24.453   9.804   3.597  1.00  0.00
ATOM    131  N   GLN    31      22.688   6.842   3.443  1.00  0.00
ATOM    132  CA  GLN    31      22.089   5.855   4.329  1.00  0.00
ATOM    133  C   GLN    31      23.166   5.374   5.286  1.00  0.00
ATOM    134  O   GLN    31      24.170   4.825   4.782  1.00  0.00
ATOM    135  CB  GLN    31      21.549   4.680   3.512  1.00  0.00
ATOM    136  N   VAL    32      22.997   5.484   6.524  1.00  0.00
ATOM    137  CA  VAL    32      23.896   5.013   7.565  1.00  0.00
ATOM    138  C   VAL    32      23.289   3.907   8.404  1.00  0.00
ATOM    139  O   VAL    32      22.043   3.799   8.398  1.00  0.00
ATOM    140  CB  VAL    32      24.245   6.212   8.449  1.00  0.00
ATOM    141  N   ASP    33      24.041   3.136   9.053  1.00  0.00
ATOM    142  CA  ASP    33      23.707   2.003   9.904  1.00  0.00
ATOM    143  C   ASP    33      23.056   2.517  11.180  1.00  0.00
ATOM    144  O   ASP    33      24.278   2.449  11.436  1.00  0.00
ATOM    145  CB  ASP    33      24.983   1.227  10.241  1.00  0.00
ATOM    146  N   GLU    34      22.347   2.334  11.859  1.00  0.00
ATOM    147  CA  GLU    34      21.587   2.018  13.031  1.00  0.00
ATOM    148  C   GLU    34      22.523   2.509  14.080  1.00  0.00
ATOM    149  O   GLU    34      22.947   3.153  13.097  1.00  0.00
ATOM    150  CB  GLU    34      21.328   0.521  13.215  1.00  0.00
ATOM    151  N   GLY    35      22.633   2.884  15.183  1.00  0.00
ATOM    152  CA  GLY    35      23.212   4.070  15.800  1.00  0.00
ATOM    153  C   GLY    35      24.312   4.944  15.242  1.00  0.00
ATOM    154  O   GLY    35      25.437   4.859  15.779  1.00  0.00
ATOM    156  N   ILE    36      24.104   5.590  14.160  1.00  0.00
ATOM    157  CA  ILE    36      25.146   6.299  13.432  1.00  0.00
ATOM    158  C   ILE    36      25.261   7.692  14.022  1.00  0.00
ATOM    159  O   ILE    36      24.354   8.021  14.817  1.00  0.00
ATOM    160  CB  ILE    36      24.781   6.385  11.949  1.00  0.00
ATOM    161  N   THR    37      26.432   8.311  13.967  1.00  0.00
ATOM    162  CA  THR    37      26.655   9.422  14.886  1.00  0.00
ATOM    163  C   THR    37      27.179  10.346  13.799  1.00  0.00
ATOM    164  O   THR    37      27.453   9.974  12.637  1.00  0.00
ATOM    165  CB  THR    37      27.725   9.215  15.960  1.00  0.00
ATOM    166  N   VAL    38      27.330  11.673  14.232  1.00  0.00
ATOM    167  CA  VAL    38      27.826  12.696  13.319  1.00  0.00
ATOM    168  C   VAL    38      29.231  12.373  12.836  1.00  0.00
ATOM    169  O   VAL    38      29.549  12.638  11.657  1.00  0.00
ATOM    170  CB  VAL    38      27.818  14.037  14.055  1.00  0.00
ATOM    171  N   GLN    39      30.063  11.773  13.700  1.00  0.00
ATOM    172  CA  GLN    39      31.418  11.380  13.329  1.00  0.00
ATOM    173  C   GLN    39      31.383  10.326  12.230  1.00  0.00
ATOM    174  O   GLN    39      32.228  10.399  11.312  1.00  0.00
ATOM    175  CB  GLN    39      32.123  10.824  14.567  1.00  0.00
ATOM    176  N   THR    40      30.436   9.359  12.286  1.00  0.00
ATOM    177  CA  THR    40      30.304   8.306  11.286  1.00  0.00
ATOM    178  C   THR    40      29.926   8.900   9.936  1.00  0.00
ATOM    179  O   THR    40      30.447   8.485   8.877  1.00  0.00
ATOM    180  CB  THR    40      29.225   7.324  11.748  1.00  0.00
ATOM    181  N   ALA    41      29.062   9.882   9.968  1.00  0.00
ATOM    182  CA  ALA    41      28.656  10.557   8.740  1.00  0.00
ATOM    183  C   ALA    41      29.844  11.272   8.109  1.00  0.00
ATOM    184  O   ALA    41      30.004  11.208   6.871  1.00  0.00
ATOM    185  CB  ALA    41      27.554  11.564   9.077  1.00  0.00
ATOM    186  N   ILE    42      30.675  11.919   8.913  1.00  0.00
ATOM    187  CA  ILE    42      31.854  12.612   8.408  1.00  0.00
ATOM    188  C   ILE    42      32.802  11.628   7.737  1.00  0.00
ATOM    189  O   ILE    42      33.348  11.928   6.652  1.00  0.00
ATOM    190  CB  ILE    42      32.556  13.302   9.579  1.00  0.00
ATOM    191  N   THR    43      32.967  10.437   8.332  1.00  0.00
ATOM    192  CA  THR    43      33.802   9.398   7.748  1.00  0.00
ATOM    193  C   THR    43      33.197   8.781   6.509  1.00  0.00
ATOM    194  O   THR    43      33.722   7.790   5.957  1.00  0.00
ATOM    195  CB  THR    43      34.014   8.327   8.820  1.00  0.00
ATOM    196  N   GLN    44      31.249   9.467   6.039  1.00  0.00
ATOM    197  CA  GLN    44      31.298   8.346   5.118  1.00  0.00
ATOM    198  C   GLN    44      30.273   8.825   4.096  1.00  0.00
ATOM    199  O   GLN    44      29.864   8.691   2.923  1.00  0.00
ATOM    200  CB  GLN    44      30.850   7.016   5.728  1.00  0.00
ATOM    201  N   SER    45      29.434   8.641   5.242  1.00  0.00
ATOM    202  CA  SER    45      29.742   8.684   3.825  1.00  0.00
ATOM    203  C   SER    45      31.217   8.315   3.530  1.00  0.00
ATOM    204  O   SER    45      30.711   9.409   3.862  1.00  0.00
ATOM    205  CB  SER    45      29.444  10.099   3.327  1.00  0.00
ATOM    206  N   GLY    46      32.160   8.186   3.434  1.00  0.00
ATOM    207  CA  GLY    46      33.576   8.676   3.475  1.00  0.00
ATOM    208  C   GLY    46      33.553  10.199   3.367  1.00  0.00
ATOM    209  O   GLY    46      34.264  11.145   2.966  1.00  0.00
ATOM    211  N   ILE    47      31.644  10.375   3.704  1.00  0.00
ATOM    212  CA  ILE    47      31.534  11.752   3.353  1.00  0.00
ATOM    213  C   ILE    47      32.974  12.196   2.994  1.00  0.00
ATOM    214  O   ILE    47      33.214  12.834   1.948  1.00  0.00
ATOM    215  CB  ILE    47      31.003  12.583   4.523  1.00  0.00
ATOM    216  N   LEU    48      33.935  11.428   3.654  1.00  0.00
ATOM    217  CA  LEU    48      35.316  11.273   3.220  1.00  0.00
ATOM    218  C   LEU    48      35.487  10.039   2.348  1.00  0.00
ATOM    219  O   LEU    48      36.288  10.082   1.389  1.00  0.00
ATOM    220  CB  LEU    48      36.199  11.163   4.465  1.00  0.00
ATOM    221  N   SER    49      34.785   8.963   2.651  1.00  0.00
ATOM    222  CA  SER    49      34.881   7.723   1.887  1.00  0.00
ATOM    223  C   SER    49      34.302   7.928   0.494  1.00  0.00
ATOM    224  O   SER    49      34.887   7.375  -0.463  1.00  0.00
ATOM    225  CB  SER    49      34.109   6.625   2.621  1.00  0.00
ATOM    226  N   GLN    50      33.227   8.605   0.358  1.00  0.00
ATOM    227  CA  GLN    50      32.529   8.836  -0.896  1.00  0.00
ATOM    228  C   GLN    50      33.182   9.917  -1.732  1.00  0.00
ATOM    229  O   GLN    50      32.997   9.951  -2.968  1.00  0.00
ATOM    230  CB  GLN    50      31.089   9.230  -0.558  1.00  0.00
ATOM    231  N   PHE    51      33.873  10.849  -1.076  1.00  0.00
ATOM    232  CA  PHE    51      34.452  11.969  -1.797  1.00  0.00
ATOM    233  C   PHE    51      35.797  11.886  -1.104  1.00  0.00
ATOM    234  O   PHE    51      35.883  12.137   0.117  1.00  0.00
ATOM    235  CB  PHE    51      33.813  13.336  -1.540  1.00  0.00
ATOM    236  N   PRO    52      36.827  11.609  -1.843  1.00  0.00
ATOM    237  CA  PRO    52      38.174  11.573  -1.285  1.00  0.00
ATOM    238  C   PRO    52      38.779  12.946  -1.072  1.00  0.00
ATOM    239  O   PRO    52      39.195  13.145   0.090  1.00  0.00
ATOM    240  CB  PRO    52      39.039  10.761  -2.252  1.00  0.00
ATOM    241  N   GLU    53      38.606  13.924  -1.954  1.00  0.00
ATOM    242  CA  GLU    53      38.884  15.315  -1.647  1.00  0.00
ATOM    243  C   GLU    53      38.090  15.818  -0.461  1.00  0.00
ATOM    244  O   GLU    53      37.611  16.943  -0.725  1.00  0.00
ATOM    245  CB  GLU    53      38.548  16.138  -2.892  1.00  0.00
ATOM    246  N   ILE    54      37.971  15.282   0.636  1.00  0.00
ATOM    247  CA  ILE    54      37.318  15.734   1.823  1.00  0.00
ATOM    248  C   ILE    54      37.544  17.193   2.215  1.00  0.00
ATOM    249  O   ILE    54      36.837  17.173   1.184  1.00  0.00
ATOM    250  CB  ILE    54      37.812  14.808   2.937  1.00  0.00
ATOM    251  N   ASP    55      36.831  27.826  12.106  1.00  0.00
ATOM    252  CA  ASP    55      36.380  29.063  12.731  1.00  0.00
ATOM    253  C   ASP    55      37.319  29.602  13.765  1.00  0.00
ATOM    254  O   ASP    55      37.386  30.816  13.475  1.00  0.00
ATOM    255  CB  ASP    55      35.018  28.768  13.362  1.00  0.00
ATOM    256  N   LEU    56      38.732  28.144  13.044  1.00  0.00
ATOM    257  CA  LEU    56      39.811  27.409  12.418  1.00  0.00
ATOM    258  C   LEU    56      39.766  26.114  11.651  1.00  0.00
ATOM    259  O   LEU    56      40.748  25.381  11.900  1.00  0.00
ATOM    260  CB  LEU    56      40.720  27.265  13.641  1.00  0.00
TER
END
