
#######################################################
#                                                     #
#                        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   36 (  144),  selected   36 , name T0335TS383_2-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS383_2-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      A       5           -
LGA    -       -      K       6           -
LGA    -       -      I       7           -
LGA    -       -      A       8           -
LGA    -       -      R       9           -
LGA    -       -      I      10           -
LGA    -       -      N      11           -
LGA    -       -      E      12           -
LGA    -       -      L      13           -
LGA    -       -      A      14           -
LGA    -       -      A      15           -
LGA    -       -      K      16           -
LGA    -       -      A      17           -
LGA    -       -      K      18           -
LGA    -       -      A      19           -
LGA    -       -      G      20           -
LGA    A       5      V      21          5.791
LGA    K       6      -       -           -
LGA    I       7      -       -           -
LGA    A       8      I      22          5.218
LGA    R       9      T      23          1.854
LGA    I      10      E      24          1.705
LGA    N      11      E      25          1.930
LGA    E      12      E      26          2.171
LGA    L      13      K      27          1.568
LGA    A      14      A      28          1.372
LGA    A      15      E      29          1.436
LGA    K      16      Q      30          1.486
LGA    A      17      Q      31          1.119
LGA    K      18      K      32          0.848
LGA    A      19      L      33          0.837
LGA    G      20      R      34          1.222
LGA    V      21      Q      35          1.160
LGA    I      22      E      36          0.722
LGA    T      23      Y      37          0.493
LGA    E      24      L      38          1.742
LGA    E      25      K      39          1.927
LGA    E      26      G      40          1.467
LGA    K      27      -       -           -
LGA    A      28      -       -           -
LGA    E      29      -       -           -
LGA    Q      30      -       -           -
LGA    Q      31      -       -           -
LGA    K      32      -       -           -
LGA    L      33      -       -           -
LGA    R      34      -       -           -
LGA    Q      35      -       -           -
LGA    E      36      -       -           -
LGA    Y      37      -       -           -
LGA    L      38      -       -           -
LGA    K      39      -       -           -
LGA    G      40      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     20    2.23    15.00     51.498     0.859

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.455725 * X  +  -0.867347 * Y  +   0.200060 * Z  +  15.182880
  Y_new =  -0.479062 * X  +  -0.428424 * Y  +  -0.766128 * Z  +  69.262260
  Z_new =   0.750210 * X  +   0.253302 * Y  +  -0.610756 * Z  +  48.556110 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.748448   -0.393145  [ DEG:   157.4745    -22.5255 ]
  Theta =  -0.848379   -2.293214  [ DEG:   -48.6085   -131.3915 ]
  Phi   =  -0.810358    2.331234  [ DEG:   -46.4301    133.5699 ]
 
# 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: T0335TS383_2-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS383_2-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   20   2.23   15.00  51.498
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS383_2-D1
PFRMAT TS
TARGET T0335
MODEL 2
PARENT 1dg3A
ATOM     17  N   ALA     5      -5.213   3.718  17.115  1.00  0.00
ATOM     18  CA  ALA     5      -5.898   3.784  15.835  1.00  0.00
ATOM     19  C   ALA     5      -5.268   4.789  14.874  1.00  0.00
ATOM     20  O   ALA     5      -5.146   4.518  13.676  1.00  0.00
ATOM     21  N   LYS     6      -4.872   5.951  15.377  1.00  0.00
ATOM     22  CA  LYS     6      -4.263   6.920  14.482  1.00  0.00
ATOM     23  C   LYS     6      -2.906   6.463  13.960  1.00  0.00
ATOM     24  O   LYS     6      -2.595   6.671  12.790  1.00  0.00
ATOM     25  N   ILE     7      -2.096   5.836  14.809  1.00  0.00
ATOM     26  CA  ILE     7      -0.791   5.380  14.335  1.00  0.00
ATOM     27  C   ILE     7      -0.928   4.225  13.350  1.00  0.00
ATOM     28  O   ILE     7      -0.144   4.101  12.409  1.00  0.00
ATOM     29  N   ALA     8      -1.916   3.368  13.574  1.00  0.00
ATOM     30  CA  ALA     8      -2.152   2.251  12.678  1.00  0.00
ATOM     31  C   ALA     8      -2.523   2.800  11.308  1.00  0.00
ATOM     32  O   ALA     8      -2.127   2.247  10.279  1.00  0.00
ATOM     33  N   ARG     9      -3.286   3.890  11.300  1.00  0.00
ATOM     34  CA  ARG     9      -3.699   4.514  10.048  1.00  0.00
ATOM     35  C   ARG     9      -2.468   5.061   9.338  1.00  0.00
ATOM     36  O   ARG     9      -2.323   4.896   8.123  1.00  0.00
ATOM     37  N   ILE    10      -1.585   5.705  10.101  1.00  0.00
ATOM     38  CA  ILE    10      -0.356   6.262   9.541  1.00  0.00
ATOM     39  C   ILE    10       0.499   5.142   8.944  1.00  0.00
ATOM     40  O   ILE    10       1.045   5.287   7.850  1.00  0.00
ATOM     41  N   ASN    11       0.617   4.030   9.667  1.00  0.00
ATOM     42  CA  ASN    11       1.409   2.893   9.196  1.00  0.00
ATOM     43  C   ASN    11       0.880   2.367   7.866  1.00  0.00
ATOM     44  O   ASN    11       1.657   2.083   6.947  1.00  0.00
ATOM     45  N   GLU    12      -0.441   2.229   7.771  1.00  0.00
ATOM     46  CA  GLU    12      -1.076   1.738   6.552  1.00  0.00
ATOM     47  C   GLU    12      -0.750   2.658   5.383  1.00  0.00
ATOM     48  O   GLU    12      -0.405   2.195   4.296  1.00  0.00
ATOM     49  N   LEU    13      -0.861   3.964   5.617  1.00  0.00
ATOM     50  CA  LEU    13      -0.580   4.943   4.578  1.00  0.00
ATOM     51  C   LEU    13       0.884   4.916   4.137  1.00  0.00
ATOM     52  O   LEU    13       1.184   5.018   2.950  1.00  0.00
ATOM     53  N   ALA    14       1.793   4.783   5.096  1.00  0.00
ATOM     54  CA  ALA    14       3.208   4.743   4.767  1.00  0.00
ATOM     55  C   ALA    14       3.550   3.460   3.996  1.00  0.00
ATOM     56  O   ALA    14       4.389   3.475   3.102  1.00  0.00
ATOM     57  N   ALA    15       2.894   2.352   4.322  1.00  0.00
ATOM     58  CA  ALA    15       3.182   1.118   3.599  1.00  0.00
ATOM     59  C   ALA    15       2.748   1.254   2.142  1.00  0.00
ATOM     60  O   ALA    15       3.457   0.809   1.236  1.00  0.00
ATOM     61  N   LYS    16       1.589   1.874   1.924  1.00  0.00
ATOM     62  CA  LYS    16       1.068   2.081   0.571  1.00  0.00
ATOM     63  C   LYS    16       2.029   2.972  -0.211  1.00  0.00
ATOM     64  O   LYS    16       2.239   2.780  -1.413  1.00  0.00
ATOM     65  N   ALA    17       2.596   3.957   0.478  1.00  0.00
ATOM     66  CA  ALA    17       3.553   4.876  -0.138  1.00  0.00
ATOM     67  C   ALA    17       4.759   4.094  -0.648  1.00  0.00
ATOM     68  O   ALA    17       5.237   4.312  -1.763  1.00  0.00
ATOM     69  N   LYS    18       5.259   3.195   0.193  1.00  0.00
ATOM     70  CA  LYS    18       6.408   2.373  -0.156  1.00  0.00
ATOM     71  C   LYS    18       6.115   1.553  -1.408  1.00  0.00
ATOM     72  O   LYS    18       6.915   1.527  -2.340  1.00  0.00
ATOM     73  N   ALA    19       4.967   0.885  -1.425  1.00  0.00
ATOM     74  CA  ALA    19       4.588   0.057  -2.568  1.00  0.00
ATOM     75  C   ALA    19       4.494   0.866  -3.858  1.00  0.00
ATOM     76  O   ALA    19       4.962   0.429  -4.912  1.00  0.00
ATOM     77  N   GLY    20       3.889   2.046  -3.776  1.00  0.00
ATOM     78  CA  GLY    20       3.755   2.897  -4.946  1.00  0.00
ATOM     79  C   GLY    20       5.124   3.287  -5.484  1.00  0.00
ATOM     80  O   GLY    20       5.362   3.222  -6.695  1.00  0.00
ATOM     81  N   VAL    21       6.024   3.681  -4.586  1.00  0.00
ATOM     82  CA  VAL    21       7.374   4.072  -4.989  1.00  0.00
ATOM     83  C   VAL    21       8.124   2.906  -5.627  1.00  0.00
ATOM     84  O   VAL    21       8.928   3.107  -6.536  1.00  0.00
ATOM     85  N   ILE    22       7.875   1.688  -5.150  1.00  0.00
ATOM     86  CA  ILE    22       8.538   0.516  -5.723  1.00  0.00
ATOM     87  C   ILE    22       8.013   0.242  -7.136  1.00  0.00
ATOM     88  O   ILE    22       8.776  -0.141  -8.024  1.00  0.00
ATOM     89  N   THR    23       6.714   0.444  -7.344  1.00  0.00
ATOM     90  CA  THR    23       6.110   0.238  -8.660  1.00  0.00
ATOM     91  C   THR    23       6.650   1.270  -9.637  1.00  0.00
ATOM     92  O   THR    23       6.985   0.946 -10.780  1.00  0.00
ATOM     93  N   GLU    24       6.731   2.514  -9.181  1.00  0.00
ATOM     94  CA  GLU    24       7.233   3.597 -10.017  1.00  0.00
ATOM     95  C   GLU    24       8.701   3.377 -10.365  1.00  0.00
ATOM     96  O   GLU    24       9.135   3.646 -11.488  1.00  0.00
ATOM     97  N   GLU    25       9.461   2.897  -9.390  1.00  0.00
ATOM     98  CA  GLU    25      10.876   2.637  -9.593  1.00  0.00
ATOM     99  C   GLU    25      11.050   1.596 -10.702  1.00  0.00
ATOM    100  O   GLU    25      11.918   1.740 -11.566  1.00  0.00
ATOM    101  N   GLU    26      10.207   0.567 -10.688  1.00  0.00
ATOM    102  CA  GLU    26      10.257  -0.485 -11.697  1.00  0.00
ATOM    103  C   GLU    26       9.925   0.072 -13.090  1.00  0.00
ATOM    104  O   GLU    26      10.610  -0.233 -14.072  1.00  0.00
ATOM    105  N   LYS    27       8.878   0.892 -13.164  1.00  0.00
ATOM    106  CA  LYS    27       8.446   1.501 -14.423  1.00  0.00
ATOM    107  C   LYS    27       9.522   2.424 -14.990  1.00  0.00
ATOM    108  O   LYS    27       9.773   2.428 -16.199  1.00  0.00
ATOM    109  N   ALA    28      10.140   3.211 -14.115  1.00  0.00
ATOM    110  CA  ALA    28      11.187   4.139 -14.528  1.00  0.00
ATOM    111  C   ALA    28      12.394   3.381 -15.064  1.00  0.00
ATOM    112  O   ALA    28      12.966   3.752 -16.086  1.00  0.00
ATOM    113  N   GLU    29      12.800   2.331 -14.360  1.00  0.00
ATOM    114  CA  GLU    29      13.935   1.531 -14.818  1.00  0.00
ATOM    115  C   GLU    29      13.631   0.915 -16.181  1.00  0.00
ATOM    116  O   GLU    29      14.477   0.927 -17.073  1.00  0.00
ATOM    117  N   GLN    30      12.429   0.366 -16.341  1.00  0.00
ATOM    118  CA  GLN    30      12.048  -0.235 -17.615  1.00  0.00
ATOM    119  C   GLN    30      12.176   0.784 -18.754  1.00  0.00
ATOM    120  O   GLN    30      12.746   0.476 -19.802  1.00  0.00
ATOM    121  N   GLN    31      11.659   1.994 -18.544  1.00  0.00
ATOM    122  CA  GLN    31      11.726   3.041 -19.570  1.00  0.00
ATOM    123  C   GLN    31      13.162   3.398 -19.937  1.00  0.00
ATOM    124  O   GLN    31      13.511   3.476 -21.115  1.00  0.00
ATOM    125  N   LYS    32      13.980   3.641 -18.919  1.00  0.00
ATOM    126  CA  LYS    32      15.377   3.988 -19.122  1.00  0.00
ATOM    127  C   LYS    32      16.113   2.912 -19.918  1.00  0.00
ATOM    128  O   LYS    32      16.769   3.202 -20.924  1.00  0.00
ATOM    129  N   LEU    33      16.001   1.668 -19.468  1.00  0.00
ATOM    130  CA  LEU    33      16.680   0.565 -20.141  1.00  0.00
ATOM    131  C   LEU    33      16.175   0.320 -21.552  1.00  0.00
ATOM    132  O   LEU    33      16.975   0.090 -22.457  1.00  0.00
ATOM    133  N   ARG    34      14.859   0.372 -21.747  1.00  0.00
ATOM    134  CA  ARG    34      14.286   0.147 -23.072  1.00  0.00
ATOM    135  C   ARG    34      14.802   1.190 -24.056  1.00  0.00
ATOM    136  O   ARG    34      15.025   0.889 -25.236  1.00  0.00
ATOM    137  N   GLN    35      14.998   2.411 -23.563  1.00  0.00
ATOM    138  CA  GLN    35      15.500   3.482 -24.405  1.00  0.00
ATOM    139  C   GLN    35      16.959   3.265 -24.769  1.00  0.00
ATOM    140  O   GLN    35      17.348   3.409 -25.924  1.00  0.00
ATOM    141  N   GLU    36      17.769   2.908 -23.776  1.00  0.00
ATOM    142  CA  GLU    36      19.188   2.657 -24.000  1.00  0.00
ATOM    143  C   GLU    36      19.370   1.461 -24.930  1.00  0.00
ATOM    144  O   GLU    36      20.300   1.423 -25.733  1.00  0.00
ATOM    145  N   TYR    37      18.469   0.493 -24.821  1.00  0.00
ATOM    146  CA  TYR    37      18.506  -0.705 -25.645  1.00  0.00
ATOM    147  C   TYR    37      18.382  -0.290 -27.113  1.00  0.00
ATOM    148  O   TYR    37      19.146  -0.734 -27.975  1.00  0.00
ATOM    149  N   LEU    38      17.419   0.582 -27.380  1.00  0.00
ATOM    150  CA  LEU    38      17.157   1.073 -28.727  1.00  0.00
ATOM    151  C   LEU    38      18.339   1.873 -29.260  1.00  0.00
ATOM    152  O   LEU    38      18.785   1.663 -30.387  1.00  0.00
ATOM    153  N   LYS    39      18.848   2.782 -28.441  1.00  0.00
ATOM    154  CA  LYS    39      19.983   3.615 -28.822  1.00  0.00
ATOM    155  C   LYS    39      21.241   2.796 -29.114  1.00  0.00
ATOM    156  O   LYS    39      21.906   3.010 -30.125  1.00  0.00
ATOM    157  N   GLY    40      21.555   1.853 -28.234  1.00  0.00
ATOM    158  CA  GLY    40      22.750   1.031 -28.386  1.00  0.00
ATOM    159  C   GLY    40      22.683  -0.065 -29.455  1.00  0.00
ATOM    160  O   GLY    40      23.638  -0.245 -30.216  1.00  0.00
TER
END
