
#######################################################
#                                                     #
#                        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   39 (  156),  selected   39 , name T0363TS383_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS383_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           -
LGA    Q      12      Q      12          1.350
LGA    I      13      I      13          1.765
LGA    N      14      N      14          0.895
LGA    I      15      I      15          0.918
LGA    E      16      E      16          1.928
LGA    I      17      I      17          1.793
LGA    A      18      A      18          2.052
LGA    Y      19      Y      19          1.411
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    A      20      R      24          5.055
LGA    Y      25      Y      25          3.458
LGA    Y      26      Y      26          3.702
LGA    L      27      L      27          1.417
LGA    K      28      K      28          1.257
LGA    S      29      S      29          0.670
LGA    F      30      F      30          1.901
LGA    Q      31      Q      31          1.740
LGA    V      32      V      32          1.468
LGA    D      33      D      33          1.510
LGA    E      34      E      34          2.264
LGA    G      35      G      35          1.073
LGA    I      36      I      36          0.641
LGA    T      37      T      37          0.709
LGA    V      38      V      38          0.898
LGA    Q      39      Q      39          1.427
LGA    T      40      T      40          0.850
LGA    A      41      A      41          1.067
LGA    I      42      I      42          1.629
LGA    T      43      T      43          0.865
LGA    Q      44      Q      44          1.888
LGA    I      47      S      45          3.061
LGA    L      48      G      46          3.205
LGA    S      49      -       -           -
LGA    Q      50      I      47          4.894
LGA    F      51      L      48          5.204
LGA    P      52      S      49          1.180
LGA    E      53      Q      50          3.074
LGA    I      54      F      51          3.538
LGA    -       -      P      52           -
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)   39   46    5.0     36    2.35    77.78     63.664     1.469

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.536726 * X  +  -0.817768 * Y  +  -0.207799 * Z  +  48.160023
  Y_new =   0.807719 * X  +   0.426769 * Y  +   0.406766 * Z  + -28.596088
  Z_new =  -0.243958 * X  +  -0.386165 * Y  +   0.889585 * Z  +  31.843119 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.409550    2.732043  [ DEG:   -23.4655    156.5345 ]
  Theta =   0.246445    2.895148  [ DEG:    14.1203    165.8797 ]
  Phi   =   0.984298   -2.157295  [ DEG:    56.3961   -123.6039 ]
 
# 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: T0363TS383_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS383_1-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   39   46   5.0   36   2.35   77.78  63.664
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS383_1-D1
PFRMAT TS
TARGET T0363
MODEL 1
PARENT 1vjkA
ATOM      1  N   GLN    12      17.493   1.651   8.315  1.00  0.00
ATOM      2  CA  GLN    12      18.286   2.790   7.730  1.00  0.00
ATOM      3  C   GLN    12      17.844   4.164   8.260  1.00  0.00
ATOM      4  O   GLN    12      16.667   4.377   8.600  1.00  0.00
ATOM      5  N   ILE    13      18.805   5.086   8.338  1.00  0.00
ATOM      6  CA  ILE    13      18.564   6.475   8.736  1.00  0.00
ATOM      7  C   ILE    13      19.003   7.342   7.542  1.00  0.00
ATOM      8  O   ILE    13      20.172   7.285   7.148  1.00  0.00
ATOM      9  N   ASN    14      18.084   8.110   6.959  1.00  0.00
ATOM     10  CA  ASN    14      18.424   8.950   5.819  1.00  0.00
ATOM     11  C   ASN    14      18.509  10.391   6.261  1.00  0.00
ATOM     12  O   ASN    14      17.513  10.952   6.773  1.00  0.00
ATOM     13  N   ILE    15      19.678  10.993   6.093  1.00  0.00
ATOM     14  CA  ILE    15      19.885  12.382   6.490  1.00  0.00
ATOM     15  C   ILE    15      20.109  13.236   5.259  1.00  0.00
ATOM     16  O   ILE    15      20.602  12.753   4.213  1.00  0.00
ATOM     17  N   GLU    16      19.752  14.500   5.347  1.00  0.00
ATOM     18  CA  GLU    16      19.959  15.454   4.287  1.00  0.00
ATOM     19  C   GLU    16      21.176  16.258   4.649  1.00  0.00
ATOM     20  O   GLU    16      21.168  16.973   5.661  1.00  0.00
ATOM     21  N   ILE    17      22.222  16.168   3.850  1.00  0.00
ATOM     22  CA  ILE    17      23.448  16.917   4.073  1.00  0.00
ATOM     23  C   ILE    17      23.463  18.155   3.211  1.00  0.00
ATOM     24  O   ILE    17      23.256  18.047   2.001  1.00  0.00
ATOM     25  N   ALA    18      23.673  19.324   3.828  1.00  0.00
ATOM     26  CA  ALA    18      23.751  20.589   3.091  1.00  0.00
ATOM     27  C   ALA    18      25.169  21.100   3.203  1.00  0.00
ATOM     28  O   ALA    18      25.676  21.334   4.315  1.00  0.00
ATOM     29  N   TYR    19      25.818  21.270   2.062  1.00  0.00
ATOM     30  CA  TYR    19      27.176  21.817   2.013  1.00  0.00
ATOM     31  C   TYR    19      27.135  23.299   1.780  1.00  0.00
ATOM     32  O   TYR    19      26.266  23.807   1.050  1.00  0.00
ATOM     33  N   ALA    20      30.811  18.562  -4.869  1.00  0.00
ATOM     34  CA  ALA    20      30.241  18.570  -6.220  1.00  0.00
ATOM     35  C   ALA    20      28.740  18.804  -6.301  1.00  0.00
ATOM     36  O   ALA    20      28.172  18.782  -7.406  1.00  0.00
ATOM     37  N   TYR    25      28.079  18.958  -5.159  1.00  0.00
ATOM     38  CA  TYR    25      26.635  19.218  -5.032  1.00  0.00
ATOM     39  C   TYR    25      26.400  20.154  -3.867  1.00  0.00
ATOM     40  O   TYR    25      27.218  20.236  -2.925  1.00  0.00
ATOM     41  N   TYR    26      25.256  20.819  -3.870  1.00  0.00
ATOM     42  CA  TYR    26      24.909  21.717  -2.791  1.00  0.00
ATOM     43  C   TYR    26      24.326  20.943  -1.620  1.00  0.00
ATOM     44  O   TYR    26      24.440  21.353  -0.467  1.00  0.00
ATOM     45  N   LEU    27      23.737  19.783  -1.909  1.00  0.00
ATOM     46  CA  LEU    27      23.111  18.952  -0.890  1.00  0.00
ATOM     47  C   LEU    27      23.032  17.539  -1.391  1.00  0.00
ATOM     48  O   LEU    27      23.073  17.287  -2.601  1.00  0.00
ATOM     49  N   LYS    28      22.913  16.600  -0.461  1.00  0.00
ATOM     50  CA  LYS    28      22.794  15.198  -0.806  1.00  0.00
ATOM     51  C   LYS    28      22.166  14.428   0.321  1.00  0.00
ATOM     52  O   LYS    28      22.378  14.755   1.496  1.00  0.00
ATOM     53  N   SER    29      21.377  13.431  -0.022  1.00  0.00
ATOM     54  CA  SER    29      20.800  12.525   0.940  1.00  0.00
ATOM     55  C   SER    29      21.736  11.381   1.179  1.00  0.00
ATOM     56  O   SER    29      22.192  10.728   0.215  1.00  0.00
ATOM     57  N   PHE    30      22.006  11.077   2.437  1.00  0.00
ATOM     58  CA  PHE    30      22.897   9.995   2.777  1.00  0.00
ATOM     59  C   PHE    30      22.184   8.996   3.674  1.00  0.00
ATOM     60  O   PHE    30      21.748   9.325   4.795  1.00  0.00
ATOM     61  N   GLN    31      22.032   7.782   3.173  1.00  0.00
ATOM     62  CA  GLN    31      21.449   6.682   3.931  1.00  0.00
ATOM     63  C   GLN    31      22.543   6.028   4.773  1.00  0.00
ATOM     64  O   GLN    31      23.610   5.678   4.263  1.00  0.00
ATOM     65  N   VAL    32      22.269   5.888   6.068  1.00  0.00
ATOM     66  CA  VAL    32      23.217   5.367   7.028  1.00  0.00
ATOM     67  C   VAL    32      22.590   4.196   7.759  1.00  0.00
ATOM     68  O   VAL    32      21.375   4.134   7.875  1.00  0.00
ATOM     69  N   ASP    33      23.396   3.249   8.251  1.00  0.00
ATOM     70  CA  ASP    33      22.853   2.126   9.012  1.00  0.00
ATOM     71  C   ASP    33      22.252   2.567  10.337  1.00  0.00
ATOM     72  O   ASP    33      22.623   3.603  10.899  1.00  0.00
ATOM     73  N   GLU    34      21.318   1.760  10.822  1.00  0.00
ATOM     74  CA  GLU    34      20.754   1.913  12.145  1.00  0.00
ATOM     75  C   GLU    34      21.854   2.205  13.173  1.00  0.00
ATOM     76  O   GLU    34      22.901   1.566  13.164  1.00  0.00
ATOM     77  N   GLY    35      21.598   3.189  14.033  1.00  0.00
ATOM     78  CA  GLY    35      22.517   3.533  15.110  1.00  0.00
ATOM     79  C   GLY    35      23.593   4.524  14.702  1.00  0.00
ATOM     80  O   GLY    35      24.472   4.873  15.508  1.00  0.00
ATOM     81  N   ILE    36      23.543   4.989  13.462  1.00  0.00
ATOM     82  CA  ILE    36      24.573   5.896  12.988  1.00  0.00
ATOM     83  C   ILE    36      24.686   7.127  13.835  1.00  0.00
ATOM     84  O   ILE    36      23.681   7.704  14.282  1.00  0.00
ATOM     85  N   THR    37      25.938   7.543  14.017  1.00  0.00
ATOM     86  CA  THR    37      26.281   8.734  14.769  1.00  0.00
ATOM     87  C   THR    37      26.883   9.794  13.849  1.00  0.00
ATOM     88  O   THR    37      27.298   9.508  12.714  1.00  0.00
ATOM     89  N   VAL    38      26.990  11.025  14.334  1.00  0.00
ATOM     90  CA  VAL    38      27.644  12.088  13.570  1.00  0.00
ATOM     91  C   VAL    38      29.020  11.650  13.031  1.00  0.00
ATOM     92  O   VAL    38      29.343  11.876  11.844  1.00  0.00
ATOM     93  N   GLN    39      29.831  10.987  13.868  1.00  0.00
ATOM     94  CA  GLN    39      31.148  10.563  13.387  1.00  0.00
ATOM     95  C   GLN    39      31.055   9.595  12.179  1.00  0.00
ATOM     96  O   GLN    39      31.931   9.608  11.298  1.00  0.00
ATOM     97  N   THR    40      30.007   8.763  12.146  1.00  0.00
ATOM     98  CA  THR    40      29.835   7.816  11.021  1.00  0.00
ATOM     99  C   THR    40      29.470   8.568   9.777  1.00  0.00
ATOM    100  O   THR    40      29.939   8.220   8.685  1.00  0.00
ATOM    101  N   ALA    41      28.659   9.603   9.919  1.00  0.00
ATOM    102  CA  ALA    41      28.317  10.440   8.768  1.00  0.00
ATOM    103  C   ALA    41      29.552  11.155   8.207  1.00  0.00
ATOM    104  O   ALA    41      29.744  11.181   6.978  1.00  0.00
ATOM    105  N   ILE    42      30.407  11.678   9.085  1.00  0.00
ATOM    106  CA  ILE    42      31.635  12.321   8.633  1.00  0.00
ATOM    107  C   ILE    42      32.488  11.327   7.849  1.00  0.00
ATOM    108  O   ILE    42      33.027  11.664   6.763  1.00  0.00
ATOM    109  N   THR    43      32.623  10.090   8.356  1.00  0.00
ATOM    110  CA  THR    43      33.376   9.090   7.589  1.00  0.00
ATOM    111  C   THR    43      32.773   8.777   6.239  1.00  0.00
ATOM    112  O   THR    43      33.521   8.550   5.264  1.00  0.00
ATOM    113  N   GLN    44      31.452   8.765   6.155  1.00  0.00
ATOM    114  CA  GLN    44      30.798   8.500   4.887  1.00  0.00
ATOM    115  C   GLN    44      30.990   9.663   3.913  1.00  0.00
ATOM    116  O   GLN    44      31.176   9.418   2.715  1.00  0.00
ATOM    117  N   ILE    47      30.967  10.920   4.397  1.00  0.00
ATOM    118  CA  ILE    47      31.236  12.064   3.517  1.00  0.00
ATOM    119  C   ILE    47      32.633  11.933   2.908  1.00  0.00
ATOM    120  O   ILE    47      32.804  12.116   1.684  1.00  0.00
ATOM    121  N   LEU    48      33.601  11.570   3.744  1.00  0.00
ATOM    122  CA  LEU    48      34.981  11.374   3.285  1.00  0.00
ATOM    123  C   LEU    48      35.106  10.219   2.281  1.00  0.00
ATOM    124  O   LEU    48      35.923  10.297   1.334  1.00  0.00
ATOM    125  N   SER    49      34.311   9.169   2.468  1.00  0.00
ATOM    126  CA  SER    49      34.320   8.033   1.562  1.00  0.00
ATOM    127  C   SER    49      33.727   8.408   0.207  1.00  0.00
ATOM    128  O   SER    49      34.216   7.953  -0.838  1.00  0.00
ATOM    129  N   GLN    50      32.666   9.212   0.198  1.00  0.00
ATOM    130  CA  GLN    50      32.026   9.598  -1.047  1.00  0.00
ATOM    131  C   GLN    50      32.821  10.652  -1.804  1.00  0.00
ATOM    132  O   GLN    50      32.769  10.734  -3.030  1.00  0.00
ATOM    133  N   PHE    51      33.489  11.511  -1.049  1.00  0.00
ATOM    134  CA  PHE    51      34.135  12.691  -1.609  1.00  0.00
ATOM    135  C   PHE    51      35.526  12.799  -1.039  1.00  0.00
ATOM    136  O   PHE    51      35.741  13.453   0.012  1.00  0.00
ATOM    137  N   PRO    52      36.481  12.186  -1.737  1.00  0.00
ATOM    138  CA  PRO    52      37.828  12.013  -1.191  1.00  0.00
ATOM    139  C   PRO    52      38.532  13.316  -0.842  1.00  0.00
ATOM    140  O   PRO    52      39.426  13.310  -0.001  1.00  0.00
ATOM    141  N   GLU    53      38.127  14.425  -1.457  1.00  0.00
ATOM    142  CA  GLU    53      38.767  15.721  -1.134  1.00  0.00
ATOM    143  C   GLU    53      38.508  16.136   0.315  1.00  0.00
ATOM    144  O   GLU    53      39.244  16.970   0.862  1.00  0.00
ATOM    145  N   ILE    54      37.493  15.547   0.968  1.00  0.00
ATOM    146  CA  ILE    54      37.248  15.835   2.380  1.00  0.00
ATOM    147  C   ILE    54      38.181  15.090   3.334  1.00  0.00
ATOM    148  O   ILE    54      38.220  15.400   4.533  1.00  0.00
ATOM    149  N   ASP    55      36.723  26.915  15.763  1.00  0.00
ATOM    150  CA  ASP    55      37.193  27.863  14.745  1.00  0.00
ATOM    151  C   ASP    55      38.504  27.430  14.096  1.00  0.00
ATOM    152  O   ASP    55      38.863  27.929  13.020  1.00  0.00
ATOM    153  N   LEU    56      39.207  26.488  14.722  1.00  0.00
ATOM    154  CA  LEU    56      40.513  26.049  14.204  1.00  0.00
ATOM    155  C   LEU    56      40.406  24.914  13.177  1.00  0.00
ATOM    156  O   LEU    56      41.364  24.624  12.456  1.00  0.00
TER
END
