
#######################################################
#                                                     #
#                        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   42 (  168),  selected   42 , name T0348TS383_2
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS383_2.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    E       7      E       7          3.051
LGA    I       8      I       8          3.333
LGA    L       9      L       9          1.747
LGA    V      10      V      10          0.598
LGA    C      11      C      11          0.987
LGA    P      12      P      12          1.251
LGA    L      13      L      13          1.064
LGA    C      14      C      14          2.167
LGA    K      15      K      15          2.917
LGA    G      16      G      16          1.903
LGA    P      17      P      17          2.175
LGA    L      18      L      18          0.957
LGA    V      19      V      19          0.220
LGA    F      20      F      20          0.890
LGA    D      21      D      21          1.043
LGA    K      22      K      22          1.031
LGA    S      23      S      23          1.103
LGA    K      24      K      24          1.219
LGA    D      25      D      25          0.860
LGA    E      26      E      26          0.836
LGA    L      27      L      27          0.868
LGA    I      28      I      28          1.087
LGA    C      29      C      29          0.654
LGA    K      30      K      30          2.008
LGA    G      31      G      31          1.139
LGA    D      32      D      32          0.419
LGA    R      33      R      33          1.418
LGA    L      34      L      34          1.733
LGA    A      35      A      35          1.913
LGA    I      38      F      36          2.437
LGA    K      39      P      37          2.317
LGA    D      40      I      38          3.288
LGA    G      41      K      39          2.939
LGA    I      42      D      40          3.322
LGA    P      43      G      41           -
LGA    E      49      I      42           -
LGA    A      50      P      43           -
LGA    R      51      M      44           -
LGA    E      52      M      45           -
LGA    L      53      L      46           -
LGA    A      54      E      47           -
LGA    P      55      S      48           -
LGA    -       -      E      49           -
LGA    -       -      A      50           -
LGA    -       -      R      51           -
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    -       -      A      54           -
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   42   61    5.0     34    1.84    85.29     50.856     1.750

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.027272 * X  +  -0.423575 * Y  +   0.905451 * Z  +  10.118751
  Y_new =  -0.883222 * X  +  -0.414003 * Y  +  -0.220275 * Z  +  29.584700
  Z_new =   0.468162 * X  +  -0.805721 * Y  +  -0.362820 * Z  +  50.689606 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.993903    1.147689  [ DEG:  -114.2422     65.7578 ]
  Theta =  -0.487210   -2.654383  [ DEG:   -27.9151   -152.0849 ]
  Phi   =  -1.601664    1.539928  [ DEG:   -91.7686     88.2314 ]
 
# 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: T0348TS383_2                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS383_2.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   42   61   5.0   34   1.84   85.29  50.856
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS383_2
PFRMAT TS
TARGET T0348
MODEL 2
PARENT 1pft_
ATOM      1  N   GLU     7       2.403  39.996  57.571  1.00  0.00
ATOM      2  CA  GLU     7       3.799  40.247  57.235  1.00  0.00
ATOM      3  C   GLU     7       4.335  39.144  56.328  1.00  0.00
ATOM      4  O   GLU     7       5.106  39.403  55.408  1.00  0.00
ATOM      5  N   ILE     8       3.998  37.908  56.677  1.00  0.00
ATOM      6  CA  ILE     8       4.569  36.739  56.022  1.00  0.00
ATOM      7  C   ILE     8       6.051  36.612  56.359  1.00  0.00
ATOM      8  O   ILE     8       6.912  37.024  55.585  1.00  0.00
ATOM      9  N   LEU     9       6.328  35.951  57.477  1.00  0.00
ATOM     10  CA  LEU     9       7.683  35.530  57.808  1.00  0.00
ATOM     11  C   LEU     9       7.656  34.526  58.958  1.00  0.00
ATOM     12  O   LEU     9       6.628  33.880  59.193  1.00  0.00
ATOM     13  N   VAL    10       8.852  34.131  59.391  1.00  0.00
ATOM     14  CA  VAL    10       9.001  33.226  60.515  1.00  0.00
ATOM     15  C   VAL    10       8.300  31.898  60.250  1.00  0.00
ATOM     16  O   VAL    10       7.882  31.606  59.131  1.00  0.00
ATOM     17  N   CYS    11       8.085  31.151  61.329  1.00  0.00
ATOM     18  CA  CYS    11       7.221  29.986  61.306  1.00  0.00
ATOM     19  C   CYS    11       5.875  30.330  62.000  1.00  0.00
ATOM     20  O   CYS    11       5.740  30.173  63.226  1.00  0.00
ATOM     21  N   PRO    12       4.819  30.350  61.151  1.00  0.00
ATOM     22  CA  PRO    12       3.415  30.401  61.621  1.00  0.00
ATOM     23  C   PRO    12       2.961  29.135  62.348  1.00  0.00
ATOM     24  O   PRO    12       1.813  29.047  62.787  1.00  0.00
ATOM     25  N   LEU    13       3.760  28.082  62.185  1.00  0.00
ATOM     26  CA  LEU    13       3.414  26.769  62.710  1.00  0.00
ATOM     27  C   LEU    13       3.783  26.669  64.184  1.00  0.00
ATOM     28  O   LEU    13       2.923  26.761  65.060  1.00  0.00
ATOM     29  N   CYS    14       5.084  26.539  64.452  1.00  0.00
ATOM     30  CA  CYS    14       5.533  26.092  65.767  1.00  0.00
ATOM     31  C   CYS    14       5.915  27.256  66.662  1.00  0.00
ATOM     32  O   CYS    14       6.356  27.054  67.801  1.00  0.00
ATOM     33  N   LYS    15       5.918  28.460  66.098  1.00  0.00
ATOM     34  CA  LYS    15       6.632  29.594  66.686  1.00  0.00
ATOM     35  C   LYS    15       8.121  29.282  66.790  1.00  0.00
ATOM     36  O   LYS    15       8.655  29.043  67.869  1.00  0.00
ATOM     37  N   GLY    16      11.276  31.179  64.769  1.00  0.00
ATOM     38  CA  GLY    16      11.557  32.230  63.798  1.00  0.00
ATOM     39  C   GLY    16      12.702  31.846  62.864  1.00  0.00
ATOM     40  O   GLY    16      13.032  32.591  61.940  1.00  0.00
ATOM     41  N   PRO    17      13.445  30.822  63.274  1.00  0.00
ATOM     42  CA  PRO    17      14.537  30.303  62.461  1.00  0.00
ATOM     43  C   PRO    17      13.981  29.444  61.324  1.00  0.00
ATOM     44  O   PRO    17      13.736  28.251  61.505  1.00  0.00
ATOM     45  N   LEU    18      14.002  30.012  60.124  1.00  0.00
ATOM     46  CA  LEU    18      13.770  29.249  58.904  1.00  0.00
ATOM     47  C   LEU    18      15.065  29.110  58.111  1.00  0.00
ATOM     48  O   LEU    18      16.083  29.711  58.448  1.00  0.00
ATOM     49  N   VAL    19      14.962  28.433  56.970  1.00  0.00
ATOM     50  CA  VAL    19      16.130  28.126  56.156  1.00  0.00
ATOM     51  C   VAL    19      15.715  27.834  54.718  1.00  0.00
ATOM     52  O   VAL    19      14.557  27.519  54.448  1.00  0.00
ATOM     53  N   PHE    20      16.639  28.084  53.797  1.00  0.00
ATOM     54  CA  PHE    20      16.333  28.072  52.373  1.00  0.00
ATOM     55  C   PHE    20      16.777  26.754  51.746  1.00  0.00
ATOM     56  O   PHE    20      17.479  25.964  52.374  1.00  0.00
ATOM     57  N   ASP    21      16.193  26.450  50.590  1.00  0.00
ATOM     58  CA  ASP    21      16.373  25.162  49.946  1.00  0.00
ATOM     59  C   ASP    21      16.493  25.352  48.420  1.00  0.00
ATOM     60  O   ASP    21      15.507  25.247  47.675  1.00  0.00
ATOM     61  N   LYS    22      17.707  25.744  47.985  1.00  0.00
ATOM     62  CA  LYS    22      17.959  26.149  46.579  1.00  0.00
ATOM     63  C   LYS    22      17.665  25.044  45.564  1.00  0.00
ATOM     64  O   LYS    22      17.723  25.272  44.357  1.00  0.00
ATOM     65  N   SER    23      17.617  23.817  46.073  1.00  0.00
ATOM     66  CA  SER    23      17.460  22.639  45.231  1.00  0.00
ATOM     67  C   SER    23      16.016  22.532  44.741  1.00  0.00
ATOM     68  O   SER    23      15.773  22.385  43.544  1.00  0.00
ATOM     69  N   LYS    24      15.096  22.900  45.630  1.00  0.00
ATOM     70  CA  LYS    24      13.678  22.891  45.310  1.00  0.00
ATOM     71  C   LYS    24      13.185  24.309  45.034  1.00  0.00
ATOM     72  O   LYS    24      12.115  24.502  44.460  1.00  0.00
ATOM     73  N   ASP    25      13.898  25.279  45.596  1.00  0.00
ATOM     74  CA  ASP    25      13.430  26.658  45.638  1.00  0.00
ATOM     75  C   ASP    25      12.525  26.874  46.848  1.00  0.00
ATOM     76  O   ASP    25      11.489  27.528  46.751  1.00  0.00
ATOM     77  N   GLU    26      12.869  26.204  47.943  1.00  0.00
ATOM     78  CA  GLU    26      11.983  26.109  49.098  1.00  0.00
ATOM     79  C   GLU    26      12.532  26.949  50.249  1.00  0.00
ATOM     80  O   GLU    26      13.729  27.229  50.305  1.00  0.00
ATOM     81  N   LEU    27      11.681  27.178  51.242  1.00  0.00
ATOM     82  CA  LEU    27      12.113  27.735  52.517  1.00  0.00
ATOM     83  C   LEU    27      11.369  27.062  53.667  1.00  0.00
ATOM     84  O   LEU    27      10.145  27.133  53.755  1.00  0.00
ATOM     85  N   ILE    28      12.125  26.364  54.505  1.00  0.00
ATOM     86  CA  ILE    28      11.549  25.486  55.512  1.00  0.00
ATOM     87  C   ILE    28      11.749  26.088  56.905  1.00  0.00
ATOM     88  O   ILE    28      12.633  26.921  57.100  1.00  0.00
ATOM     89  N   CYS    29      11.099  25.471  57.884  1.00  0.00
ATOM     90  CA  CYS    29      11.425  25.692  59.290  1.00  0.00
ATOM     91  C   CYS    29      12.755  25.024  59.630  1.00  0.00
ATOM     92  O   CYS    29      13.058  23.940  59.136  1.00  0.00
ATOM     93  N   LYS    30      13.446  25.603  60.606  1.00  0.00
ATOM     94  CA  LYS    30      14.644  24.997  61.166  1.00  0.00
ATOM     95  C   LYS    30      14.316  24.289  62.481  1.00  0.00
ATOM     96  O   LYS    30      15.179  24.141  63.344  1.00  0.00
ATOM     97  N   GLY    31      13.019  24.098  62.705  1.00  0.00
ATOM     98  CA  GLY    31      12.528  23.556  63.961  1.00  0.00
ATOM     99  C   GLY    31      11.604  22.372  63.717  1.00  0.00
ATOM    100  O   GLY    31      12.032  21.217  63.787  1.00  0.00
ATOM    101  N   ASP    32      10.426  22.666  63.157  1.00  0.00
ATOM    102  CA  ASP    32       9.384  21.652  63.043  1.00  0.00
ATOM    103  C   ASP    32       9.507  20.864  61.746  1.00  0.00
ATOM    104  O   ASP    32       8.722  19.945  61.496  1.00  0.00
ATOM    105  N   ARG    33      10.286  21.423  60.815  1.00  0.00
ATOM    106  CA  ARG    33      10.506  20.777  59.529  1.00  0.00
ATOM    107  C   ARG    33       9.636  21.398  58.436  1.00  0.00
ATOM    108  O   ARG    33       9.589  20.880  57.315  1.00  0.00
ATOM    109  N   LEU    34       8.695  22.228  58.887  1.00  0.00
ATOM    110  CA  LEU    34       7.623  22.718  58.033  1.00  0.00
ATOM    111  C   LEU    34       8.190  23.633  56.948  1.00  0.00
ATOM    112  O   LEU    34       8.693  24.716  57.252  1.00  0.00
ATOM    113  N   ALA    35       7.849  23.312  55.703  1.00  0.00
ATOM    114  CA  ALA    35       8.076  24.213  54.584  1.00  0.00
ATOM    115  C   ALA    35       7.301  25.517  54.790  1.00  0.00
ATOM    116  O   ALA    35       6.262  25.527  55.450  1.00  0.00
ATOM    117  N   ILE    38       7.634  26.491  53.950  1.00  0.00
ATOM    118  CA  ILE    38       6.906  27.752  53.897  1.00  0.00
ATOM    119  C   ILE    38       6.285  27.930  52.510  1.00  0.00
ATOM    120  O   ILE    38       5.137  27.547  52.286  1.00  0.00
ATOM    121  N   LYS    39       7.137  28.283  51.552  1.00  0.00
ATOM    122  CA  LYS    39       6.801  28.165  50.136  1.00  0.00
ATOM    123  C   LYS    39       7.860  27.331  49.417  1.00  0.00
ATOM    124  O   LYS    39       8.876  26.968  50.008  1.00  0.00
ATOM    125  N   ASP    40       7.466  26.807  48.260  1.00  0.00
ATOM    126  CA  ASP    40       8.332  25.934  47.479  1.00  0.00
ATOM    127  C   ASP    40       7.987  26.049  45.993  1.00  0.00
ATOM    128  O   ASP    40       8.079  25.065  45.255  1.00  0.00
ATOM    129  N   GLY    41       7.894  27.295  45.535  1.00  0.00
ATOM    130  CA  GLY    41       7.795  27.588  44.112  1.00  0.00
ATOM    131  C   GLY    41       8.218  29.028  43.836  1.00  0.00
ATOM    132  O   GLY    41       7.417  29.846  43.386  1.00  0.00
ATOM    133  N   ILE    42       9.221  31.244  41.996  1.00  0.00
ATOM    134  CA  ILE    42       9.374  31.728  40.631  1.00  0.00
ATOM    135  C   ILE    42       8.010  31.889  39.968  1.00  0.00
ATOM    136  O   ILE    42       7.085  31.124  40.236  1.00  0.00
ATOM    137  N   PRO    43      10.117  30.246  31.547  1.00  0.00
ATOM    138  CA  PRO    43      10.905  30.196  30.288  1.00  0.00
ATOM    139  C   PRO    43      10.546  29.017  29.390  1.00  0.00
ATOM    140  O   PRO    43       9.884  29.180  28.367  1.00  0.00
ATOM    141  N   GLU    49      10.815  27.817  29.899  1.00  0.00
ATOM    142  CA  GLU    49      10.609  26.599  29.124  1.00  0.00
ATOM    143  C   GLU    49      10.444  25.404  30.065  1.00  0.00
ATOM    144  O   GLU    49      11.420  24.735  30.403  1.00  0.00
ATOM    145  N   ALA    50       9.250  25.291  30.633  1.00  0.00
ATOM    146  CA  ALA    50       9.001  24.375  31.737  1.00  0.00
ATOM    147  C   ALA    50       7.546  23.916  31.731  1.00  0.00
ATOM    148  O   ALA    50       7.260  22.727  31.849  1.00  0.00
ATOM    149  N   ARG    51       6.655  24.860  31.447  1.00  0.00
ATOM    150  CA  ARG    51       5.251  24.548  31.214  1.00  0.00
ATOM    151  C   ARG    51       4.901  24.746  29.742  1.00  0.00
ATOM    152  O   ARG    51       5.291  25.740  29.131  1.00  0.00
ATOM    153  N   GLU    52       3.953  23.935  29.277  1.00  0.00
ATOM    154  CA  GLU    52       3.504  23.998  27.894  1.00  0.00
ATOM    155  C   GLU    52       4.658  23.686  26.946  1.00  0.00
ATOM    156  O   GLU    52       5.788  24.118  27.161  1.00  0.00
ATOM    157  N   LEU    53       4.385  22.801  25.991  1.00  0.00
ATOM    158  CA  LEU    53       5.351  22.482  24.949  1.00  0.00
ATOM    159  C   LEU    53       4.691  22.548  23.575  1.00  0.00
ATOM    160  O   LEU    53       3.471  22.446  23.455  1.00  0.00
ATOM    161  N   ALA    54       5.491  22.929  22.582  1.00  0.00
ATOM    162  CA  ALA    54       5.023  22.984  21.204  1.00  0.00
ATOM    163  C   ALA    54       6.200  23.164  20.250  1.00  0.00
ATOM    164  O   ALA    54       6.947  24.136  20.350  1.00  0.00
ATOM    165  N   PRO    55       6.256  22.298  19.245  1.00  0.00
ATOM    166  CA  PRO    55       7.183  22.465  18.133  1.00  0.00
ATOM    167  C   PRO    55       8.623  22.427  18.636  1.00  0.00
ATOM    168  O   PRO    55       9.555  22.418  17.818  1.00  0.00
TER
END
