
#######################################################
#                                                     #
#                        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   94 (   94),  selected   94 , name T0283TS383_1-D1
# Molecule2: number of CA atoms   97 (  768),  selected   97 , name T0283_D1.pdb
# PARAMETERS: T0283TS383_1-D1.T0283_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      S       2           -
LGA    -       -      F       3           -
LGA    -       -      I       4           -
LGA    -       -      E       5           -
LGA    -       -      K       6           -
LGA    -       -      M       7           -
LGA    S       2      I       8          3.800
LGA    F       3      G       9          2.335
LGA    I       4      S      10          0.616
LGA    E       5      L      11          1.671
LGA    K       6      N      12          1.360
LGA    M       7      D      13          1.502
LGA    I       8      K      14          1.747
LGA    G       9      R      15          0.905
LGA    -       -      E      16           -
LGA    S      10      W      17          3.211
LGA    L      11      K      18          2.850
LGA    N      12      A      19          2.179
LGA    D      13      M      20          4.175
LGA    K      14      E      21          4.932
LGA    R      15      A      22          3.845
LGA    E      16      -       -           -
LGA    W      17      R      23           #
LGA    K      18      A      24           -
LGA    A      19      K      25          5.192
LGA    M      20      A      26          2.911
LGA    E      21      L      27           #
LGA    A      22      -       -           -
LGA    R      23      -       -           -
LGA    A      24      P      28           #
LGA    K      25      -       -           -
LGA    A      26      -       -           -
LGA    L      27      -       -           -
LGA    P      28      K      29          5.251
LGA    K      29      E      30           #
LGA    E      30      Y      31           -
LGA    Y      31      -       -           -
LGA    H      32      -       -           -
LGA    H      33      -       -           -
LGA    A      34      -       -           -
LGA    Y      35      H      32           #
LGA    K      36      -       -           -
LGA    A      37      H      33           #
LGA    I      38      A      34          3.653
LGA    Q      39      Y      35          3.279
LGA    -       -      K      36           -
LGA    K      40      A      37          4.526
LGA    Y      41      I      38          2.650
LGA    T      44      Q      39          3.143
LGA    S      45      K      40          3.927
LGA    -       -      Y      41           -
LGA    G      46      M      42          1.766
LGA    G      47      W      43          2.347
LGA    P      48      T      44          4.482
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    T      49      G      47           #
LGA    D      50      -       -           -
LGA    W      51      -       -           -
LGA    Q      52      P      48           #
LGA    D      53      -       -           -
LGA    T      54      -       -           -
LGA    K      55      T      49           #
LGA    R      56      D      50          2.412
LGA    I      57      W      51          2.015
LGA    F      58      Q      52          1.121
LGA    G      59      D      53          1.332
LGA    G      60      T      54          1.900
LGA    I      61      K      55          2.188
LGA    L      62      R      56          1.312
LGA    D      63      I      57          1.376
LGA    L      64      F      58          1.285
LGA    F      65      G      59          0.655
LGA    E      66      G      60          0.956
LGA    E      67      I      61          2.272
LGA    G      68      L      62          2.041
LGA    A      69      D      63          0.873
LGA    A      70      L      64          1.342
LGA    E      71      F      65          1.938
LGA    G      72      E      66          1.553
LGA    K      73      E      67          1.025
LGA    K      74      G      68          1.415
LGA    V      75      A      69          1.376
LGA    T      76      A      70          1.013
LGA    D      77      E      71          1.387
LGA    L      78      G      72          1.670
LGA    T      79      K      73           #
LGA    G      80      K      74           -
LGA    E      81      V      75           -
LGA    D      82      T      76           -
LGA    V      83      D      77           -
LGA    A      84      L      78           -
LGA    A      85      T      79           -
LGA    F      86      G      80           -
LGA    C      87      E      81           -
LGA    D      88      D      82           -
LGA    E      89      V      83           -
LGA    L      90      A      84           -
LGA    M      91      A      85           -
LGA    K      92      F      86           -
LGA    D      93      C      87           -
LGA    T      94      D      88           -
LGA    K      95      E      89           -
LGA    T      96      L      90           -
LGA    W      97      M      91           -
LGA    -       -      K      92           -
LGA    -       -      D      93           -
LGA    -       -      T      94           -
LGA    -       -      K      95           -
LGA    -       -      T      96           -
LGA    -       -      W      97           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   94   97    5.0     49    2.62     0.00     36.028     1.802

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.806414 * X  +   0.348708 * Y  +  -0.477597 * Z  +  30.161060
  Y_new =  -0.061844 * X  +  -0.852939 * Y  +  -0.518334 * Z  +  -9.082285
  Z_new =  -0.588108 * X  +  -0.388455 * Y  +   0.709388 * Z  +  -5.051786 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.500993    2.640600  [ DEG:   -28.7048    151.2952 ]
  Theta =   0.628718    2.512875  [ DEG:    36.0229    143.9771 ]
  Phi   =  -3.065053    0.076540  [ DEG:  -175.6146      4.3854 ]
 
# 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: T0283TS383_1-D1                               
REMARK     2: T0283_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS383_1-D1.T0283_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   94   97   5.0   49   2.62    0.00  36.028
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS383_1-D1
PFRMAT TS
TARGET T0283
MODEL 1
PARENT 1ji5A
ATOM      1  CA  SER     2      23.248  10.112  13.181  1.00  0.00
ATOM      2  CA  PHE     3      23.610  13.687  11.843  1.00  0.00
ATOM      3  CA  ILE     4      27.352  13.364  11.112  1.00  0.00
ATOM      4  CA  GLU     5      26.244  10.516   8.902  1.00  0.00
ATOM      5  CA  LYS     6      23.218  12.119   7.269  1.00  0.00
ATOM      6  CA  MET     7      25.207  15.162   6.111  1.00  0.00
ATOM      7  CA  ILE     8      27.816  12.939   4.406  1.00  0.00
ATOM      8  CA  GLY     9      24.935  11.188   2.643  1.00  0.00
ATOM      9  CA  SER    10      27.381  16.273   0.265  1.00  0.00
ATOM     10  CA  LEU    11      27.958  13.098  -1.774  1.00  0.00
ATOM     11  CA  ASN    12      24.656  13.917  -3.429  1.00  0.00
ATOM     12  CA  ASP    13      25.617  17.548  -4.090  1.00  0.00
ATOM     13  CA  LYS    14      28.849  16.355  -5.670  1.00  0.00
ATOM     14  CA  ARG    15      26.772  14.242  -8.075  1.00  0.00
ATOM     15  CA  GLU    16      24.304  17.055  -8.738  1.00  0.00
ATOM     16  CA  TRP    17      27.220  19.405  -9.371  1.00  0.00
ATOM     17  CA  LYS    18      28.548  17.027 -12.025  1.00  0.00
ATOM     18  CA  ALA    19      25.161  16.297 -13.652  1.00  0.00
ATOM     19  CA  MET    20      24.210  19.968 -13.911  1.00  0.00
ATOM     20  CA  GLU    21      27.553  20.809 -15.516  1.00  0.00
ATOM     21  CA  ALA    22      27.254  17.011 -18.047  1.00  0.00
ATOM     22  CA  ARG    23      23.684  17.871 -18.927  1.00  0.00
ATOM     23  CA  ALA    24      24.408  21.404 -20.080  1.00  0.00
ATOM     24  CA  LYS    25      27.508  19.885 -21.564  1.00  0.00
ATOM     25  CA  ALA    26      25.200  17.576 -23.566  1.00  0.00
ATOM     26  CA  LEU    27      23.098  20.479 -24.778  1.00  0.00
ATOM     27  CA  PRO    28      29.431  24.592 -17.337  1.00  0.00
ATOM     28  CA  LYS    29      30.726  27.085 -14.807  1.00  0.00
ATOM     29  CA  GLU    30      33.813  25.523 -13.255  1.00  0.00
ATOM     30  CA  TYR    31      35.554  27.738 -10.703  1.00  0.00
ATOM     31  CA  HIS    32      34.683  28.311  -7.084  1.00  0.00
ATOM     32  CA  HIS    33      35.095  31.980  -7.943  1.00  0.00
ATOM     33  CA  ALA    34      32.150  31.966 -10.344  1.00  0.00
ATOM     34  CA  TYR    35      30.146  29.683  -8.035  1.00  0.00
ATOM     35  CA  LYS    36      30.438  32.284  -5.306  1.00  0.00
ATOM     36  CA  ALA    37      29.319  35.142  -7.521  1.00  0.00
ATOM     37  CA  ILE    38      26.298  33.235  -8.854  1.00  0.00
ATOM     38  CA  GLN    39      25.066  30.847  -6.168  1.00  0.00
ATOM     39  CA  LYS    40      22.189  32.048  -3.998  1.00  0.00
ATOM     40  CA  TYR    41      23.013  29.648  -1.147  1.00  0.00
ATOM     41  CA  THR    44      24.049  31.610   0.686  1.00  0.00
ATOM     42  CA  SER    45      25.057  32.150   1.401  1.00  0.00
ATOM     43  CA  GLY    46      24.362  31.342   1.974  1.00  0.00
ATOM     44  CA  GLY    47      27.420  29.305   3.154  1.00  0.00
ATOM     45  CA  PRO    48      29.708  29.844   6.179  1.00  0.00
ATOM     46  CA  THR    49      27.830  30.534   9.376  1.00  0.00
ATOM     47  CA  ASP    50      30.141  28.964  11.877  1.00  0.00
ATOM     48  CA  TRP    51      28.754  28.508  15.380  1.00  0.00
ATOM     49  CA  GLN    52      25.587  26.727  14.136  1.00  0.00
ATOM     50  CA  ASP    53      23.520  24.234  16.211  1.00  0.00
ATOM     51  CA  THR    54      22.848  20.623  15.292  1.00  0.00
ATOM     52  CA  LYS    55      19.211  21.630  14.900  1.00  0.00
ATOM     53  CA  ARG    56      20.376  24.880  13.359  1.00  0.00
ATOM     54  CA  ILE    57      22.189  22.937  10.647  1.00  0.00
ATOM     55  CA  PHE    58      19.209  20.687   9.906  1.00  0.00
ATOM     56  CA  GLY    59      16.990  23.734   9.884  1.00  0.00
ATOM     57  CA  GLY    60      19.550  25.496   7.656  1.00  0.00
ATOM     58  CA  ILE    61      19.881  23.076   4.724  1.00  0.00
ATOM     59  CA  LEU    62      16.205  22.223   5.009  1.00  0.00
ATOM     60  CA  ASP    63      15.419  25.852   4.150  1.00  0.00
ATOM     61  CA  LEU    64      18.088  25.707   1.432  1.00  0.00
ATOM     62  CA  PHE    65      16.388  22.714  -0.126  1.00  0.00
ATOM     63  CA  GLU    66      12.973  24.405  -0.027  1.00  0.00
ATOM     64  CA  GLU    67      14.302  27.606  -1.548  1.00  0.00
ATOM     65  CA  GLY    68      15.690  25.370  -4.292  1.00  0.00
ATOM     66  CA  ALA    69      12.373  23.699  -4.980  1.00  0.00
ATOM     67  CA  ALA    70      11.016  27.041  -6.189  1.00  0.00
ATOM     68  CA  GLU    71      14.010  27.729  -8.436  1.00  0.00
ATOM     69  CA  GLY    72      13.516  24.237  -9.818  1.00  0.00
ATOM     70  CA  LYS    73       9.830  24.660 -10.666  1.00  0.00
ATOM     71  CA  LYS    74      10.809  27.861 -12.449  1.00  0.00
ATOM     72  CA  VAL    75      13.614  25.920 -14.098  1.00  0.00
ATOM     73  CA  THR    76      11.248  23.273 -15.478  1.00  0.00
ATOM     74  CA  ASP    77       8.945  26.007 -16.746  1.00  0.00
ATOM     75  CA  LEU    78      11.616  27.589 -18.935  1.00  0.00
ATOM     76  CA  THR    79      13.059  24.189 -19.901  1.00  0.00
ATOM     77  CA  GLY    80       9.630  23.159 -21.175  1.00  0.00
ATOM     78  CA  GLU    81       9.141  26.541 -22.824  1.00  0.00
ATOM     79  CA  ASP    82      13.536  20.736 -23.527  1.00  0.00
ATOM     80  CA  VAL    83      16.389  18.873 -18.846  1.00  0.00
ATOM     81  CA  ALA    84      12.990  19.325 -17.191  1.00  0.00
ATOM     82  CA  ALA    85      12.903  15.622 -16.355  1.00  0.00
ATOM     83  CA  PHE    86      16.396  15.851 -14.868  1.00  0.00
ATOM     84  CA  CYS    87      15.284  18.748 -12.720  1.00  0.00
ATOM     85  CA  ASP    88      12.059  16.971 -11.809  1.00  0.00
ATOM     86  CA  GLU    89      14.115  14.185 -10.274  1.00  0.00
ATOM     87  CA  LEU    90      16.073  16.498  -7.994  1.00  0.00
ATOM     88  CA  MET    91      12.770  18.068  -6.993  1.00  0.00
ATOM     89  CA  LYS    92      11.343  14.745  -5.919  1.00  0.00
ATOM     90  CA  ASP    93      14.576  13.967  -4.061  1.00  0.00
ATOM     91  CA  THR    94      14.659  17.179  -2.091  1.00  0.00
ATOM     92  CA  LYS    95      10.945  17.093  -1.241  1.00  0.00
ATOM     93  CA  THR    96      11.418  13.784   0.551  1.00  0.00
ATOM     94  CA  TRP    97      14.445  15.085   2.426  1.00  0.00
TER
END
