
#######################################################
#                                                     #
#                        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   27 (  108),  selected   27 , name T0348AL381_5
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348AL381_5.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           -
LGA    -       -      I       8           -
LGA    -       -      L       9           -
LGA    V      10      V      10          1.324
LGA    C      11      C      11          1.119
LGA    P      12      P      12          1.887
LGA    L      13      L      13          2.578
LGA    C      14      C      14          1.981
LGA    K      15      K      15          0.840
LGA    G      16      G      16          1.455
LGA    P      17      P      17          2.244
LGA    L      18      -       -           -
LGA    V      19      L      18          0.791
LGA    F      20      V      19          0.200
LGA    D      21      F      20          1.085
LGA    K      22      D      21          1.849
LGA    S      23      K      22          2.309
LGA    K      24      S      23          4.208
LGA    -       -      K      24           -
LGA    D      25      D      25          1.874
LGA    E      26      E      26          1.176
LGA    L      27      L      27          1.344
LGA    I      28      I      28          0.554
LGA    C      29      C      29          0.666
LGA    K      30      K      30          1.054
LGA    G      31      G      31          1.040
LGA    D      32      D      32          0.946
LGA    R      33      R      33          0.991
LGA    L      34      L      34          1.374
LGA    A      35      A      35          0.663
LGA    F      36      F      36          1.124
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      E      47           -
LGA    -       -      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)   27   61    5.0     26    1.62    76.92     39.661     1.510

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.612335 * X  +   0.369818 * Y  +   0.698771 * Z  + -12.883474
  Y_new =   0.468113 * X  +  -0.542668 * Y  +   0.697411 * Z  +   1.965314
  Z_new =   0.637115 * X  +   0.754153 * Y  +   0.159178 * Z  + -157.058777 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.362781   -1.778812  [ DEG:    78.0816   -101.9184 ]
  Theta =  -0.690750   -2.450843  [ DEG:   -39.5770   -140.4230 ]
  Phi   =   2.488894   -0.652699  [ DEG:   142.6031    -37.3969 ]
 
# 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: T0348AL381_5                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348AL381_5.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   27   61   5.0   26   1.62   76.92  39.661
REMARK  ---------------------------------------------------------- 
MOLECULE T0348AL381_5
REMARK Aligment from pdb entry: 1s72Z
ATOM      1  N   VAL    10      10.690  33.879  59.956  1.00  0.00              
ATOM      2  CA  VAL    10       9.656  33.379  60.854  1.00  0.00              
ATOM      3  C   VAL    10       8.813  32.264  60.243  1.00  0.00              
ATOM      4  O   VAL    10       8.061  32.483  59.298  1.00  0.00              
ATOM      5  N   CYS    11       8.936  31.066  60.802  1.00  0.00              
ATOM      6  CA  CYS    11       8.186  29.920  60.318  1.00  0.00              
ATOM      7  C   CYS    11       6.682  30.175  60.299  1.00  0.00              
ATOM      8  O   CYS    11       6.134  30.720  61.250  1.00  0.00              
ATOM      9  N   PRO    12       5.997  29.800  59.202  1.00  0.00              
ATOM     10  CA  PRO    12       4.547  29.995  59.091  1.00  0.00              
ATOM     11  C   PRO    12       3.769  29.058  60.020  1.00  0.00              
ATOM     12  O   PRO    12       2.724  29.435  60.556  1.00  0.00              
ATOM     13  N   LEU    13       4.285  27.839  60.197  1.00  0.00              
ATOM     14  CA  LEU    13       3.660  26.820  61.047  1.00  0.00              
ATOM     15  C   LEU    13       3.687  27.306  62.502  1.00  0.00              
ATOM     16  O   LEU    13       2.665  27.733  63.038  1.00  0.00              
ATOM     17  N   CYS    14       4.847  27.230  63.146  1.00  0.00              
ATOM     18  CA  CYS    14       4.969  27.739  64.505  1.00  0.00              
ATOM     19  C   CYS    14       5.278  29.206  64.224  1.00  0.00              
ATOM     20  O   CYS    14       4.924  29.700  63.156  1.00  0.00              
ATOM     21  N   LYS    15       5.919  29.918  65.138  1.00  0.00              
ATOM     22  CA  LYS    15       6.222  31.313  64.848  1.00  0.00              
ATOM     23  C   LYS    15       7.694  31.590  65.059  1.00  0.00              
ATOM     24  O   LYS    15       8.156  32.733  65.006  1.00  0.00              
ATOM     25  N   GLY    16       8.428  30.512  65.296  1.00  0.00              
ATOM     26  CA  GLY    16       9.857  30.557  65.559  1.00  0.00              
ATOM     27  C   GLY    16      10.679  31.027  64.350  1.00  0.00              
ATOM     28  O   GLY    16      10.359  30.694  63.203  1.00  0.00              
ATOM     29  N   PRO    17      11.729  31.805  64.619  1.00  0.00              
ATOM     30  CA  PRO    17      12.623  32.321  63.577  1.00  0.00              
ATOM     31  C   PRO    17      13.673  31.279  63.193  1.00  0.00              
ATOM     32  O   PRO    17      14.876  31.516  63.340  1.00  0.00              
ATOM     33  N   LEU    18      13.217  30.133  62.694  1.00  0.00              
ATOM     34  CA  LEU    18      14.126  29.061  62.315  1.00  0.00              
ATOM     35  C   LEU    18      13.943  28.504  60.903  1.00  0.00              
ATOM     36  O   LEU    18      14.152  27.312  60.671  1.00  0.00              
ATOM     37  N   VAL    19      13.559  29.363  59.965  1.00  0.00              
ATOM     38  CA  VAL    19      13.362  28.940  58.587  1.00  0.00              
ATOM     39  C   VAL    19      14.598  29.214  57.727  1.00  0.00              
ATOM     40  O   VAL    19      15.071  30.350  57.641  1.00  0.00              
ATOM     41  N   PHE    20      15.125  28.158  57.109  1.00  0.00              
ATOM     42  CA  PHE    20      16.288  28.280  56.236  1.00  0.00              
ATOM     43  C   PHE    20      15.956  27.768  54.856  1.00  0.00              
ATOM     44  O   PHE    20      15.067  26.927  54.683  1.00  0.00              
ATOM     45  N   ASP    21      16.683  28.277  53.870  1.00  0.00              
ATOM     46  CA  ASP    21      16.471  27.866  52.493  1.00  0.00              
ATOM     47  C   ASP    21      17.111  26.492  52.329  1.00  0.00              
ATOM     48  O   ASP    21      18.197  26.248  52.850  1.00  0.00              
ATOM     49  N   LYS    22      16.431  25.587  51.632  1.00  0.00              
ATOM     50  CA  LYS    22      16.985  24.256  51.407  1.00  0.00              
ATOM     51  C   LYS    22      17.428  24.119  49.958  1.00  0.00              
ATOM     52  O   LYS    22      18.215  23.239  49.612  1.00  0.00              
ATOM     53  N   SER    23      16.917  25.008  49.117  1.00  0.00              
ATOM     54  CA  SER    23      17.250  24.994  47.706  1.00  0.00              
ATOM     55  C   SER    23      16.406  26.051  47.028  1.00  0.00              
ATOM     56  O   SER    23      15.772  26.857  47.704  1.00  0.00              
ATOM     57  N   LYS    24      16.379  26.048  45.702  1.00  0.00              
ATOM     58  CA  LYS    24      15.607  27.029  44.956  1.00  0.00              
ATOM     59  C   LYS    24      14.107  26.969  45.267  1.00  0.00              
ATOM     60  O   LYS    24      13.415  26.022  44.883  1.00  0.00              
ATOM     61  N   ASP    25      13.619  27.992  45.966  1.00  0.00              
ATOM     62  CA  ASP    25      12.212  28.065  46.322  1.00  0.00              
ATOM     63  C   ASP    25      11.754  27.124  47.429  1.00  0.00              
ATOM     64  O   ASP    25      10.565  27.062  47.741  1.00  0.00              
ATOM     65  N   GLU    26      12.685  26.395  48.032  1.00  0.00              
ATOM     66  CA  GLU    26      12.345  25.452  49.091  1.00  0.00              
ATOM     67  C   GLU    26      12.804  25.928  50.478  1.00  0.00              
ATOM     68  O   GLU    26      13.998  26.174  50.709  1.00  0.00              
ATOM     69  N   LEU    27      11.851  26.043  51.403  1.00  0.00              
ATOM     70  CA  LEU    27      12.162  26.498  52.755  1.00  0.00              
ATOM     71  C   LEU    27      11.801  25.489  53.840  1.00  0.00              
ATOM     72  O   LEU    27      10.836  24.727  53.709  1.00  0.00              
ATOM     73  N   ILE    28      12.586  25.480  54.913  1.00  0.00              
ATOM     74  CA  ILE    28      12.337  24.549  56.004  1.00  0.00              
ATOM     75  C   ILE    28      12.709  25.089  57.383  1.00  0.00              
ATOM     76  O   ILE    28      13.701  25.805  57.538  1.00  0.00              
ATOM     77  N   CYS    29      11.893  24.734  58.377  1.00  0.00              
ATOM     78  CA  CYS    29      12.103  25.149  59.762  1.00  0.00              
ATOM     79  C   CYS    29      12.925  24.089  60.497  1.00  0.00              
ATOM     80  O   CYS    29      12.515  22.929  60.594  1.00  0.00              
ATOM     81  N   LYS    30      14.084  24.492  61.007  1.00  0.00              
ATOM     82  CA  LYS    30      14.964  23.584  61.737  1.00  0.00              
ATOM     83  C   LYS    30      14.333  23.143  63.052  1.00  0.00              
ATOM     84  O   LYS    30      14.661  22.080  63.590  1.00  0.00              
ATOM     85  N   GLY    31      13.420  23.969  63.556  1.00  0.00              
ATOM     86  CA  GLY    31      12.730  23.709  64.811  1.00  0.00              
ATOM     87  C   GLY    31      11.668  22.616  64.705  1.00  0.00              
ATOM     88  O   GLY    31      11.796  21.564  65.334  1.00  0.00              
ATOM     89  N   ASP    32      10.625  22.855  63.913  1.00  0.00              
ATOM     90  CA  ASP    32       9.561  21.867  63.778  1.00  0.00              
ATOM     91  C   ASP    32       9.630  21.015  62.514  1.00  0.00              
ATOM     92  O   ASP    32       8.825  20.100  62.349  1.00  0.00              
ATOM     93  N   ARG    33      10.579  21.319  61.629  1.00  0.00              
ATOM     94  CA  ARG    33      10.766  20.577  60.379  1.00  0.00              
ATOM     95  C   ARG    33       9.864  20.982  59.207  1.00  0.00              
ATOM     96  O   ARG    33      10.017  20.459  58.104  1.00  0.00              
ATOM     97  N   LEU    34       8.931  21.902  59.436  1.00  0.00              
ATOM     98  CA  LEU    34       8.023  22.343  58.379  1.00  0.00              
ATOM     99  C   LEU    34       8.770  22.722  57.100  1.00  0.00              
ATOM    100  O   LEU    34       9.592  23.644  57.093  1.00  0.00              
ATOM    101  N   ALA    35       8.471  22.002  56.021  1.00  0.00              
ATOM    102  CA  ALA    35       9.096  22.236  54.723  1.00  0.00              
ATOM    103  C   ALA    35       8.033  22.794  53.775  1.00  0.00              
ATOM    104  O   ALA    35       6.995  22.167  53.562  1.00  0.00              
ATOM    105  N   PHE    36       8.290  23.967  53.204  1.00  0.00              
ATOM    106  CA  PHE    36       7.305  24.591  52.329  1.00  0.00              
ATOM    107  C   PHE    36       7.886  25.351  51.140  1.00  0.00              
ATOM    108  O   PHE    36       9.095  25.564  51.045  1.00  0.00              
END
