
#######################################################
#                                                     #
#                        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 T0351AL243_2
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351AL243_2.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      56      M       1           -
LGA    D      63      I       2           -
LGA    Q      64      L       3           -
LGA    V      65      Y       4           -
LGA    E      66      D       5           -
LGA    L      67      A       6           -
LGA    L      68      I       7           -
LGA    A      69      M       8           -
LGA    Q      70      Y       9           -
LGA    E      71      K      10           -
LGA    -       -      Y      11           -
LGA    -       -      P      12           -
LGA    -       -      N      13           -
LGA    -       -      A      14           -
LGA    -       -      V      15           -
LGA    -       -      S      16           -
LGA    -       -      R      17           -
LGA    -       -      K      18           -
LGA    -       -      D      19           -
LGA    -       -      F      20           -
LGA    -       -      E      21           -
LGA    -       -      L      22           -
LGA    -       -      R      23           -
LGA    -       -      N      24           -
LGA    -       -      D      25           -
LGA    -       -      G      26           -
LGA    -       -      N      27           -
LGA    -       -      G      28           -
LGA    -       -      S      29           -
LGA    -       -      Y      30           -
LGA    -       -      I      31           -
LGA    -       -      E      32           -
LGA    -       -      K      33           -
LGA    -       -      W      34           -
LGA    -       -      N      35           -
LGA    -       -      L      36           -
LGA    L      72      R      37           #
LGA    S      73      A      38           -
LGA    Q      74      -       -           -
LGA    E      75      P      39          4.436
LGA    K      76      L      40          3.704
LGA    L      77      -       -           -
LGA    A      78      P      41          3.490
LGA    R      79      T      42          3.369
LGA    K      80      Q      43          2.788
LGA    Q      81      A      44          2.522
LGA    L      82      E      45          1.936
LGA    E      83      L      46          1.301
LGA    E      84      E      47          1.041
LGA    L      85      T      48          0.451
LGA    N      86      W      49          0.561
LGA    K      87      W      50          0.447
LGA    T      88      E      51          0.352
LGA    L      89      E      52          1.024
LGA    G      90      L      53          1.017
LGA    N      91      Q      54          1.070
LGA    E      92      K      55          0.975
LGA    L      93      N      56          1.617
LGA    S      94      -       -           -
LGA    D      95      -       -           -
LGA    I      96      -       -           -
LGA    K      97      -       -           -
LGA    L      98      -       -           -
LGA    S      99      -       -           -
LGA    L     100      -       -           -
LGA    L     101      -       -           -
LGA    S     102      -       -           -
LGA    L     103      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   42   56    5.0     18    2.18     5.56     29.323     0.791

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.667688 * X  +  -0.743574 * Y  +   0.035916 * Z  +   7.790288
  Y_new =  -0.074781 * X  +  -0.114993 * Y  +  -0.990548 * Z  +  15.177387
  Z_new =   0.740676 * X  +   0.658691 * Y  +  -0.132385 * Z  + -23.862501 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.769135   -1.372457  [ DEG:   101.3640    -78.6360 ]
  Theta =  -0.834076   -2.307517  [ DEG:   -47.7890   -132.2110 ]
  Phi   =  -0.111534    3.030058  [ DEG:    -6.3905    173.6095 ]
 
# 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: T0351AL243_2                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351AL243_2.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   42   56   5.0   18   2.18    5.56  29.323
REMARK  ---------------------------------------------------------- 
MOLECULE T0351AL243_2
REMARK Aligment from pdb entry: 1fzaB
ATOM      1  N   ASN    56      -7.494  18.762 -32.191  1.00  0.00              
ATOM      2  CA  ASN    56      -8.363  18.912 -30.984  1.00  0.00              
ATOM      3  C   ASN    56      -8.488  17.565 -30.250  1.00  0.00              
ATOM      4  O   ASN    56      -9.448  16.808 -30.437  1.00  0.00              
ATOM      5  N   ASP    63      -7.485  17.277 -29.422  1.00  0.00              
ATOM      6  CA  ASP    63      -7.437  16.034 -28.657  1.00  0.00              
ATOM      7  C   ASP    63      -7.910  16.133 -27.200  1.00  0.00              
ATOM      8  O   ASP    63      -7.253  15.629 -26.288  1.00  0.00              
ATOM      9  N   GLN    64      -9.059  16.768 -26.981  1.00  0.00              
ATOM     10  CA  GLN    64      -9.593  16.883 -25.628  1.00  0.00              
ATOM     11  C   GLN    64     -10.404  15.637 -25.313  1.00  0.00              
ATOM     12  O   GLN    64     -11.087  15.562 -24.292  1.00  0.00              
ATOM     13  N   VAL    65     -10.325  14.668 -26.222  1.00  0.00              
ATOM     14  CA  VAL    65     -11.017  13.392 -26.085  1.00  0.00              
ATOM     15  C   VAL    65     -10.046  12.326 -25.582  1.00  0.00              
ATOM     16  O   VAL    65     -10.460  11.332 -24.971  1.00  0.00              
ATOM     17  N   GLU    66      -8.754  12.548 -25.829  1.00  0.00              
ATOM     18  CA  GLU    66      -7.703  11.626 -25.396  1.00  0.00              
ATOM     19  C   GLU    66      -7.708  11.477 -23.871  1.00  0.00              
ATOM     20  O   GLU    66      -7.067  10.574 -23.314  1.00  0.00              
ATOM     21  N   LEU    67      -8.414  12.405 -23.222  1.00  0.00              
ATOM     22  CA  LEU    67      -8.554  12.468 -21.782  1.00  0.00              
ATOM     23  C   LEU    67      -8.791  11.107 -21.172  1.00  0.00              
ATOM     24  O   LEU    67      -9.877  10.519 -21.266  1.00  0.00              
ATOM     25  N   LEU    68      -7.701  10.585 -20.630  1.00  0.00              
ATOM     26  CA  LEU    68      -7.682   9.308 -19.965  1.00  0.00              
ATOM     27  C   LEU    68      -8.208   9.534 -18.559  1.00  0.00              
ATOM     28  O   LEU    68      -7.447   9.774 -17.621  1.00  0.00              
ATOM     29  N   ALA    69      -9.526   9.664 -18.472  1.00  0.00              
ATOM     30  CA  ALA    69     -10.190   9.815 -17.186  1.00  0.00              
ATOM     31  C   ALA    69     -10.203   8.363 -16.759  1.00  0.00              
ATOM     32  O   ALA    69     -10.221   8.030 -15.573  1.00  0.00              
ATOM     33  N   GLN    70     -10.202   7.520 -17.790  1.00  0.00              
ATOM     34  CA  GLN    70     -10.196   6.075 -17.690  1.00  0.00              
ATOM     35  C   GLN    70      -8.980   5.658 -16.881  1.00  0.00              
ATOM     36  O   GLN    70      -9.050   4.724 -16.091  1.00  0.00              
ATOM     37  N   GLU    71      -7.871   6.368 -17.080  1.00  0.00              
ATOM     38  CA  GLU    71      -6.648   6.083 -16.350  1.00  0.00              
ATOM     39  C   GLU    71      -6.865   6.332 -14.859  1.00  0.00              
ATOM     40  O   GLU    71      -6.450   5.525 -14.039  1.00  0.00              
ATOM     41  N   LEU    72      -7.565   7.407 -14.511  1.00  0.00              
ATOM     42  CA  LEU    72      -7.826   7.706 -13.108  1.00  0.00              
ATOM     43  C   LEU    72      -8.758   6.651 -12.515  1.00  0.00              
ATOM     44  O   LEU    72      -8.895   6.537 -11.302  1.00  0.00              
ATOM     45  N   SER    73      -9.392   5.877 -13.385  1.00  0.00              
ATOM     46  CA  SER    73     -10.294   4.811 -12.959  1.00  0.00              
ATOM     47  C   SER    73      -9.947   3.533 -13.751  1.00  0.00              
ATOM     48  O   SER    73     -10.813   2.881 -14.342  1.00  0.00              
ATOM     49  N   GLN    74      -8.636   3.247 -13.761  1.00  0.00              
ATOM     50  CA  GLN    74      -7.950   2.108 -14.403  1.00  0.00              
ATOM     51  C   GLN    74      -6.742   1.813 -13.501  1.00  0.00              
ATOM     52  O   GLN    74      -6.287   0.682 -13.395  1.00  0.00              
ATOM     53  N   GLU    75      -6.213   2.876 -12.894  1.00  0.00              
ATOM     54  CA  GLU    75      -5.091   2.816 -11.962  1.00  0.00              
ATOM     55  C   GLU    75      -5.424   2.042 -10.683  1.00  0.00              
ATOM     56  O   GLU    75      -4.537   1.408 -10.098  1.00  0.00              
ATOM     57  N   LYS    76      -6.695   2.109 -10.212  1.00  0.00              
ATOM     58  CA  LYS    76      -7.121   1.401  -9.002  1.00  0.00              
ATOM     59  C   LYS    76      -6.860  -0.077  -9.148  1.00  0.00              
ATOM     60  O   LYS    76      -6.858  -0.828  -8.173  1.00  0.00              
ATOM     61  N   LEU    77      -6.683  -0.492 -10.392  1.00  0.00              
ATOM     62  CA  LEU    77      -6.385  -1.875 -10.698  1.00  0.00              
ATOM     63  C   LEU    77      -4.941  -2.112 -10.224  1.00  0.00              
ATOM     64  O   LEU    77      -4.720  -2.841  -9.256  1.00  0.00              
ATOM     65  N   ALA    78      -3.985  -1.408 -10.835  1.00  0.00              
ATOM     66  CA  ALA    78      -2.572  -1.515 -10.474  1.00  0.00              
ATOM     67  C   ALA    78      -2.422  -0.865  -9.122  1.00  0.00              
ATOM     68  O   ALA    78      -1.627   0.052  -8.942  1.00  0.00              
ATOM     69  N   ARG    79      -3.256  -1.301  -8.194  1.00  0.00              
ATOM     70  CA  ARG    79      -3.259  -0.801  -6.840  1.00  0.00              
ATOM     71  C   ARG    79      -3.810  -1.930  -6.057  1.00  0.00              
ATOM     72  O   ARG    79      -3.063  -2.648  -5.422  1.00  0.00              
ATOM     73  N   LYS    80      -5.115  -2.139  -6.182  1.00  0.00              
ATOM     74  CA  LYS    80      -5.771  -3.223  -5.471  1.00  0.00              
ATOM     75  C   LYS    80      -4.921  -4.476  -5.593  1.00  0.00              
ATOM     76  O   LYS    80      -4.738  -5.193  -4.611  1.00  0.00              
ATOM     77  N   GLN    81      -4.323  -4.683  -6.765  1.00  0.00              
ATOM     78  CA  GLN    81      -3.463  -5.849  -6.957  1.00  0.00              
ATOM     79  C   GLN    81      -2.181  -5.715  -6.143  1.00  0.00              
ATOM     80  O   GLN    81      -1.874  -6.574  -5.306  1.00  0.00              
ATOM     81  N   LEU    82      -1.449  -4.626  -6.363  1.00  0.00              
ATOM     82  CA  LEU    82      -0.219  -4.415  -5.621  1.00  0.00              
ATOM     83  C   LEU    82      -0.549  -4.403  -4.142  1.00  0.00              
ATOM     84  O   LEU    82       0.236  -4.868  -3.314  1.00  0.00              
ATOM     85  N   GLU    83      -1.755  -3.951  -3.822  1.00  0.00              
ATOM     86  CA  GLU    83      -2.175  -3.906  -2.438  1.00  0.00              
ATOM     87  C   GLU    83      -2.375  -5.323  -1.939  1.00  0.00              
ATOM     88  O   GLU    83      -2.021  -5.635  -0.801  1.00  0.00              
ATOM     89  N   GLU    84      -2.854  -6.203  -2.814  1.00  0.00              
ATOM     90  CA  GLU    84      -3.099  -7.582  -2.415  1.00  0.00              
ATOM     91  C   GLU    84      -1.837  -8.322  -1.994  1.00  0.00              
ATOM     92  O   GLU    84      -1.683  -8.701  -0.822  1.00  0.00              
ATOM     93  N   LEU    85      -0.903  -8.479  -2.927  1.00  0.00              
ATOM     94  CA  LEU    85       0.303  -9.219  -2.600  1.00  0.00              
ATOM     95  C   LEU    85       1.153  -8.543  -1.555  1.00  0.00              
ATOM     96  O   LEU    85       1.786  -9.218  -0.759  1.00  0.00              
ATOM     97  N   ASN    86       1.156  -7.219  -1.529  1.00  0.00              
ATOM     98  CA  ASN    86       1.976  -6.545  -0.547  1.00  0.00              
ATOM     99  C   ASN    86       1.562  -7.020   0.834  1.00  0.00              
ATOM    100  O   ASN    86       2.403  -7.443   1.631  1.00  0.00              
ATOM    101  N   LYS    87       0.258  -7.038   1.083  1.00  0.00              
ATOM    102  CA  LYS    87      -0.238  -7.459   2.381  1.00  0.00              
ATOM    103  C   LYS    87      -0.070  -8.948   2.588  1.00  0.00              
ATOM    104  O   LYS    87       0.096  -9.413   3.718  1.00  0.00              
ATOM    105  N   THR    88      -0.065  -9.681   1.481  1.00  0.00              
ATOM    106  CA  THR    88       0.128 -11.122   1.507  1.00  0.00              
ATOM    107  C   THR    88       1.530 -11.380   2.098  1.00  0.00              
ATOM    108  O   THR    88       1.671 -11.902   3.205  1.00  0.00              
ATOM    109  N   LEU    89       2.559 -10.921   1.395  1.00  0.00              
ATOM    110  CA  LEU    89       3.936 -11.095   1.837  1.00  0.00              
ATOM    111  C   LEU    89       4.120 -10.685   3.279  1.00  0.00              
ATOM    112  O   LEU    89       4.737 -11.404   4.063  1.00  0.00              
ATOM    113  N   GLY    90       3.553  -9.537   3.621  1.00  0.00              
ATOM    114  CA  GLY    90       3.659  -8.997   4.960  1.00  0.00              
ATOM    115  C   GLY    90       3.279 -10.036   5.997  1.00  0.00              
ATOM    116  O   GLY    90       3.987 -10.227   6.991  1.00  0.00              
ATOM    117  N   ASN    91       2.175 -10.727   5.740  1.00  0.00              
ATOM    118  CA  ASN    91       1.707 -11.762   6.636  1.00  0.00              
ATOM    119  C   ASN    91       2.560 -13.031   6.519  1.00  0.00              
ATOM    120  O   ASN    91       2.940 -13.625   7.531  1.00  0.00              
ATOM    121  N   GLU    92       2.861 -13.440   5.289  1.00  0.00              
ATOM    122  CA  GLU    92       3.679 -14.635   5.050  1.00  0.00              
ATOM    123  C   GLU    92       4.947 -14.553   5.904  1.00  0.00              
ATOM    124  O   GLU    92       5.423 -15.550   6.458  1.00  0.00              
ATOM    125  N   LEU    93       5.483 -13.343   5.991  1.00  0.00              
ATOM    126  CA  LEU    93       6.668 -13.068   6.772  1.00  0.00              
ATOM    127  C   LEU    93       6.422 -13.404   8.244  1.00  0.00              
ATOM    128  O   LEU    93       7.284 -13.988   8.898  1.00  0.00              
ATOM    129  N   SER    94       5.247 -13.051   8.761  1.00  0.00              
ATOM    130  CA  SER    94       4.921 -13.339  10.164  1.00  0.00              
ATOM    131  C   SER    94       4.863 -14.861  10.393  1.00  0.00              
ATOM    132  O   SER    94       5.092 -15.350  11.508  1.00  0.00              
ATOM    133  N   ASP    95       4.589 -15.593   9.313  1.00  0.00              
ATOM    134  CA  ASP    95       4.518 -17.049   9.356  1.00  0.00              
ATOM    135  C   ASP    95       5.927 -17.617   9.327  1.00  0.00              
ATOM    136  O   ASP    95       6.269 -18.467  10.138  1.00  0.00              
ATOM    137  N   ILE    96       6.747 -17.129   8.406  1.00  0.00              
ATOM    138  CA  ILE    96       8.132 -17.582   8.307  1.00  0.00              
ATOM    139  C   ILE    96       8.884 -17.231   9.597  1.00  0.00              
ATOM    140  O   ILE    96       9.648 -18.039  10.127  1.00  0.00              
ATOM    141  N   LYS    97       8.606 -16.048  10.132  1.00  0.00              
ATOM    142  CA  LYS    97       9.226 -15.586  11.371  1.00  0.00              
ATOM    143  C   LYS    97       8.802 -16.519  12.507  1.00  0.00              
ATOM    144  O   LYS    97       9.601 -16.902  13.359  1.00  0.00              
ATOM    145  N   LEU    98       7.540 -16.918  12.470  1.00  0.00              
ATOM    146  CA  LEU    98       6.964 -17.807  13.474  1.00  0.00              
ATOM    147  C   LEU    98       7.574 -19.205  13.455  1.00  0.00              
ATOM    148  O   LEU    98       7.997 -19.717  14.488  1.00  0.00              
ATOM    149  N   SER    99       7.587 -19.817  12.269  1.00  0.00              
ATOM    150  CA  SER    99       8.116 -21.165  12.064  1.00  0.00              
ATOM    151  C   SER    99       9.572 -21.351  12.474  1.00  0.00              
ATOM    152  O   SER    99       9.893 -22.351  13.110  1.00  0.00              
ATOM    153  N   LEU   100      10.448 -20.402  12.127  1.00  0.00              
ATOM    154  CA  LEU   100      11.867 -20.505  12.477  1.00  0.00              
ATOM    155  C   LEU   100      12.129 -20.433  13.977  1.00  0.00              
ATOM    156  O   LEU   100      13.012 -21.122  14.484  1.00  0.00              
ATOM    157  N   LEU   101      11.347 -19.629  14.693  1.00  0.00              
ATOM    158  CA  LEU   101      11.508 -19.498  16.145  1.00  0.00              
ATOM    159  C   LEU   101      11.258 -20.821  16.845  1.00  0.00              
ATOM    160  O   LEU   101      11.864 -21.110  17.873  1.00  0.00              
ATOM    161  N   SER   102      10.352 -21.616  16.281  1.00  0.00              
ATOM    162  CA  SER   102      10.016 -22.909  16.843  1.00  0.00              
ATOM    163  C   SER   102      11.186 -23.827  16.628  1.00  0.00              
ATOM    164  O   SER   102      11.623 -24.498  17.549  1.00  0.00              
ATOM    165  N   LEU   103      11.721 -23.838  15.417  1.00  0.00              
ATOM    166  CA  LEU   103      12.854 -24.697  15.133  1.00  0.00              
ATOM    167  C   LEU   103      13.988 -24.355  16.091  1.00  0.00              
ATOM    168  O   LEU   103      14.761 -25.228  16.499  1.00  0.00              
END
