
#######################################################
#                                                     #
#                        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 T0363AL243_5-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363AL243_5-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11          1.547
LGA    Q      12      Q      12          1.837
LGA    I      13      I      13          1.461
LGA    N      14      N      14          0.861
LGA    I      15      I      15          0.669
LGA    E      16      E      16          1.802
LGA    I      17      I      17          1.587
LGA    A      18      A      18          1.417
LGA    Y      19      Y      19          1.153
LGA    A      20      A      20          3.080
LGA    F      21      F      21          3.638
LGA    R      24      P      22           #
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    Y      25      Y      25          3.790
LGA    Y      26      Y      26          3.796
LGA    L      27      L      27          1.805
LGA    K      28      K      28          0.818
LGA    S      29      S      29          1.130
LGA    F      30      F      30          1.590
LGA    Q      31      Q      31          1.569
LGA    V      32      V      32          1.322
LGA    D      33      D      33          2.936
LGA    E      34      E      34           #
LGA    G      35      G      35          0.911
LGA    I      36      I      36          1.151
LGA    T      37      T      37          1.438
LGA    V      38      V      38          1.648
LGA    Q      39      Q      39          3.216
LGA    T      40      T      40          2.144
LGA    A      41      A      41          2.312
LGA    I      42      I      42          2.923
LGA    T      43      T      43          2.317
LGA    Q      44      Q      44          1.391
LGA    I      47      S      45          3.001
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      -       -           -
LGA    F      51      G      46          3.162
LGA    P      52      I      47          1.684
LGA    E      53      L      48          6.248
LGA    I      54      S      49          2.487
LGA    D      55      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    L      56      E      53          2.422
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   42   46    5.0     36    2.39    83.33     54.176     1.444

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.992556 * X  +  -0.121713 * Y  +   0.004229 * Z  +  30.607569
  Y_new =   0.037275 * X  +  -0.270550 * Y  +   0.961984 * Z  +  16.368429
  Z_new =  -0.115941 * X  +   0.954981 * Y  +   0.273072 * Z  +   8.418332 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.292283   -1.849310  [ DEG:    74.0424   -105.9576 ]
  Theta =   0.116203    3.025390  [ DEG:     6.6579    173.3421 ]
  Phi   =   3.104056   -0.037537  [ DEG:   177.8493     -2.1507 ]
 
# 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: T0363AL243_5-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL243_5-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   42   46   5.0   36   2.39   83.33  54.176
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL243_5-D1
REMARK Aligment from pdb entry: 1wgkA
ATOM      1  N   ASN    11      16.953  -0.634  11.229  1.00  0.00              
ATOM      2  CA  ASN    11      16.874  -0.401   9.792  1.00  0.00              
ATOM      3  C   ASN    11      17.756   0.772   9.377  1.00  0.00              
ATOM      4  O   ASN    11      18.173   1.588  10.198  1.00  0.00              
ATOM      5  N   GLN    12      18.050   0.859   8.071  1.00  0.00              
ATOM      6  CA  GLN    12      18.887   1.927   7.517  1.00  0.00              
ATOM      7  C   GLN    12      18.191   3.284   7.551  1.00  0.00              
ATOM      8  O   GLN    12      17.057   3.423   7.090  1.00  0.00              
ATOM      9  N   ILE    13      18.876   4.282   8.099  1.00  0.00              
ATOM     10  CA  ILE    13      18.324   5.629   8.192  1.00  0.00              
ATOM     11  C   ILE    13      18.828   6.504   7.049  1.00  0.00              
ATOM     12  O   ILE    13      19.935   6.309   6.547  1.00  0.00              
ATOM     13  N   ASN    14      18.010   7.470   6.646  1.00  0.00              
ATOM     14  CA  ASN    14      18.374   8.377   5.563  1.00  0.00              
ATOM     15  C   ASN    14      18.460   9.815   6.065  1.00  0.00              
ATOM     16  O   ASN    14      17.602  10.273   6.819  1.00  0.00              
ATOM     17  N   ILE    15      19.502  10.523   5.641  1.00  0.00              
ATOM     18  CA  ILE    15      19.701  11.908   6.047  1.00  0.00              
ATOM     19  C   ILE    15      20.133  12.771   4.866  1.00  0.00              
ATOM     20  O   ILE    15      20.926  12.342   4.027  1.00  0.00              
ATOM     21  N   GLU    16      19.607  13.990   4.807  1.00  0.00              
ATOM     22  CA  GLU    16      19.939  14.915   3.729  1.00  0.00              
ATOM     23  C   GLU    16      21.106  15.813   4.124  1.00  0.00              
ATOM     24  O   GLU    16      20.964  16.698   4.968  1.00  0.00              
ATOM     25  N   ILE    17      22.260  15.581   3.507  1.00  0.00              
ATOM     26  CA  ILE    17      23.453  16.371   3.793  1.00  0.00              
ATOM     27  C   ILE    17      23.652  17.460   2.746  1.00  0.00              
ATOM     28  O   ILE    17      23.564  17.205   1.545  1.00  0.00              
ATOM     29  N   ALA    18      23.923  18.677   3.210  1.00  0.00              
ATOM     30  CA  ALA    18      24.136  19.806   2.312  1.00  0.00              
ATOM     31  C   ALA    18      25.394  20.579   2.698  1.00  0.00              
ATOM     32  O   ALA    18      25.643  20.830   3.877  1.00  0.00              
ATOM     33  N   TYR    19      26.183  20.950   1.696  1.00  0.00              
ATOM     34  CA  TYR    19      27.417  21.693   1.928  1.00  0.00              
ATOM     35  C   TYR    19      27.363  23.061   1.256  1.00  0.00              
ATOM     36  O   TYR    19      26.893  23.192   0.126  1.00  0.00              
ATOM     37  N   ALA    20      29.237  26.702  -0.099  1.00  0.00              
ATOM     38  CA  ALA    20      30.025  26.910  -1.300  1.00  0.00              
ATOM     39  C   ALA    20      31.482  26.534  -1.110  1.00  0.00              
ATOM     40  O   ALA    20      32.111  26.937  -0.131  1.00  0.00              
ATOM     41  N   PHE    21      32.828  23.546  -0.441  1.00  0.00              
ATOM     42  CA  PHE    21      32.878  22.193   0.097  1.00  0.00              
ATOM     43  C   PHE    21      32.161  21.209  -0.823  1.00  0.00              
ATOM     44  O   PHE    21      32.640  20.101  -1.056  1.00  0.00              
ATOM     45  N   ARG    24      31.009  21.625  -1.341  1.00  0.00              
ATOM     46  CA  ARG    24      30.226  20.779  -2.234  1.00  0.00              
ATOM     47  C   ARG    24      31.121  20.107  -3.272  1.00  0.00              
ATOM     48  O   ARG    24      30.923  18.942  -3.618  1.00  0.00              
ATOM     49  N   TYR    25      27.965  18.930  -5.433  1.00  0.00              
ATOM     50  CA  TYR    25      26.511  19.003  -5.360  1.00  0.00              
ATOM     51  C   TYR    25      26.059  19.742  -4.104  1.00  0.00              
ATOM     52  O   TYR    25      26.686  19.637  -3.050  1.00  0.00              
ATOM     53  N   TYR    26      24.967  20.488  -4.225  1.00  0.00              
ATOM     54  CA  TYR    26      24.429  21.244  -3.100  1.00  0.00              
ATOM     55  C   TYR    26      23.808  20.311  -2.066  1.00  0.00              
ATOM     56  O   TYR    26      24.092  20.415  -0.871  1.00  0.00              
ATOM     57  N   LEU    27      22.962  19.398  -2.529  1.00  0.00              
ATOM     58  CA  LEU    27      22.304  18.445  -1.646  1.00  0.00              
ATOM     59  C   LEU    27      22.745  17.019  -1.958  1.00  0.00              
ATOM     60  O   LEU    27      22.860  16.635  -3.122  1.00  0.00              
ATOM     61  N   LYS    28      22.991  16.237  -0.910  1.00  0.00              
ATOM     62  CA  LYS    28      23.417  14.851  -1.075  1.00  0.00              
ATOM     63  C   LYS    28      22.578  13.918  -0.206  1.00  0.00              
ATOM     64  O   LYS    28      22.481  14.105   1.006  1.00  0.00              
ATOM     65  N   SER    29      21.975  12.916  -0.836  1.00  0.00              
ATOM     66  CA  SER    29      21.143  11.956  -0.121  1.00  0.00              
ATOM     67  C   SER    29      21.997  10.862   0.514  1.00  0.00              
ATOM     68  O   SER    29      22.677  10.108  -0.184  1.00  0.00              
ATOM     69  N   PHE    30      21.957  10.780   1.839  1.00  0.00              
ATOM     70  CA  PHE    30      22.726   9.778   2.568  1.00  0.00              
ATOM     71  C   PHE    30      21.815   8.704   3.150  1.00  0.00              
ATOM     72  O   PHE    30      20.716   8.995   3.622  1.00  0.00              
ATOM     73  N   GLN    31      22.280   7.459   3.115  1.00  0.00              
ATOM     74  CA  GLN    31      21.510   6.340   3.642  1.00  0.00              
ATOM     75  C   GLN    31      22.380   5.431   4.504  1.00  0.00              
ATOM     76  O   GLN    31      22.970   4.470   4.011  1.00  0.00              
ATOM     77  N   VAL    32      22.456   5.743   5.793  1.00  0.00              
ATOM     78  CA  VAL    32      23.255   4.954   6.725  1.00  0.00              
ATOM     79  C   VAL    32      22.593   3.609   7.007  1.00  0.00              
ATOM     80  O   VAL    32      21.368   3.481   7.014  1.00  0.00              
ATOM     81  N   ASP    33      23.420   2.581   7.249  1.00  0.00              
ATOM     82  CA  ASP    33      22.937   1.227   7.540  1.00  0.00              
ATOM     83  C   ASP    33      22.263   1.133   8.904  1.00  0.00              
ATOM     84  O   ASP    33      22.187   2.117   9.639  1.00  0.00              
ATOM     85  N   GLU    34      23.365   0.148  17.584  1.00  0.00              
ATOM     86  CA  GLU    34      23.572   1.518  18.041  1.00  0.00              
ATOM     87  C   GLU    34      23.215   2.518  16.945  1.00  0.00              
ATOM     88  O   GLU    34      23.482   2.302  15.762  1.00  0.00              
ATOM     89  N   GLY    35      22.594   3.638  17.345  1.00  0.00              
ATOM     90  CA  GLY    35      22.187   4.693  16.413  1.00  0.00              
ATOM     91  C   GLY    35      23.379   5.444  15.830  1.00  0.00              
ATOM     92  O   GLY    35      24.371   5.685  16.520  1.00  0.00              
ATOM     93  N   ILE    36      23.278   5.811  14.558  1.00  0.00              
ATOM     94  CA  ILE    36      24.348   6.536  13.883  1.00  0.00              
ATOM     95  C   ILE    36      24.565   7.904  14.520  1.00  0.00              
ATOM     96  O   ILE    36      23.721   8.793  14.404  1.00  0.00              
ATOM     97  N   THR    37      25.700   8.066  15.191  1.00  0.00              
ATOM     98  CA  THR    37      26.028   9.328  15.845  1.00  0.00              
ATOM     99  C   THR    37      27.022  10.130  15.011  1.00  0.00              
ATOM    100  O   THR    37      27.820   9.563  14.265  1.00  0.00              
ATOM    101  N   VAL    38      26.968  11.451  15.143  1.00  0.00              
ATOM    102  CA  VAL    38      27.863  12.330  14.402  1.00  0.00              
ATOM    103  C   VAL    38      29.276  11.759  14.351  1.00  0.00              
ATOM    104  O   VAL    38      29.882  11.665  13.284  1.00  0.00              
ATOM    105  N   GLN    39      29.796  11.377  15.513  1.00  0.00              
ATOM    106  CA  GLN    39      31.138  10.813  15.602  1.00  0.00              
ATOM    107  C   GLN    39      31.407   9.864  14.439  1.00  0.00              
ATOM    108  O   GLN    39      32.359  10.049  13.682  1.00  0.00              
ATOM    109  N   THR    40      30.562   8.848  14.303  1.00  0.00              
ATOM    110  CA  THR    40      30.708   7.868  13.233  1.00  0.00              
ATOM    111  C   THR    40      30.352   8.482  11.881  1.00  0.00              
ATOM    112  O   THR    40      31.093   8.338  10.908  1.00  0.00              
ATOM    113  N   ALA    41      29.215   9.166  11.830  1.00  0.00              
ATOM    114  CA  ALA    41      28.760   9.802  10.599  1.00  0.00              
ATOM    115  C   ALA    41      29.940  10.336   9.794  1.00  0.00              
ATOM    116  O   ALA    41      29.990  10.188   8.572  1.00  0.00              
ATOM    117  N   ILE    42      30.889  10.957  10.486  1.00  0.00              
ATOM    118  CA  ILE    42      32.071  11.511   9.836  1.00  0.00              
ATOM    119  C   ILE    42      32.784  10.450   9.004  1.00  0.00              
ATOM    120  O   ILE    42      33.062  10.655   7.822  1.00  0.00              
ATOM    121  N   THR    43      33.077   9.314   9.630  1.00  0.00              
ATOM    122  CA  THR    43      33.755   8.218   8.947  1.00  0.00              
ATOM    123  C   THR    43      33.095   7.914   7.606  1.00  0.00              
ATOM    124  O   THR    43      33.775   7.641   6.617  1.00  0.00              
ATOM    125  N   GLN    44      31.768   7.965   7.581  1.00  0.00              
ATOM    126  CA  GLN    44      31.017   7.695   6.361  1.00  0.00              
ATOM    127  C   GLN    44      31.122   8.863   5.387  1.00  0.00              
ATOM    128  O   GLN    44      31.601   8.703   4.263  1.00  0.00              
ATOM    129  N   ILE    47      30.675  10.035   5.824  1.00  0.00              
ATOM    130  CA  ILE    47      30.721  11.229   4.990  1.00  0.00              
ATOM    131  C   ILE    47      32.150  11.545   4.563  1.00  0.00              
ATOM    132  O   ILE    47      32.374  12.275   3.597  1.00  0.00              
ATOM    133  N   LEU    48      33.115  10.991   5.289  1.00  0.00              
ATOM    134  CA  LEU    48      34.524  11.211   4.984  1.00  0.00              
ATOM    135  C   LEU    48      35.026  10.193   3.965  1.00  0.00              
ATOM    136  O   LEU    48      36.068  10.387   3.340  1.00  0.00              
ATOM    137  N   SER    49      34.277   9.108   3.801  1.00  0.00              
ATOM    138  CA  SER    49      34.643   8.061   2.855  1.00  0.00              
ATOM    139  C   SER    49      33.589   7.921   1.762  1.00  0.00              
ATOM    140  O   SER    49      33.853   8.197   0.592  1.00  0.00              
ATOM    141  N   GLN    50      32.392   7.493   2.151  1.00  0.00              
ATOM    142  CA  GLN    50      31.297   7.318   1.203  1.00  0.00              
ATOM    143  C   GLN    50      31.082   8.585   0.381  1.00  0.00              
ATOM    144  O   GLN    50      31.356   8.613  -0.820  1.00  0.00              
ATOM    145  N   PHE    51      30.591   9.631   1.035  1.00  0.00              
ATOM    146  CA  PHE    51      30.340  10.903   0.365  1.00  0.00              
ATOM    147  C   PHE    51      31.643  11.532  -0.115  1.00  0.00              
ATOM    148  O   PHE    51      31.908  11.599  -1.316  1.00  0.00              
ATOM    149  N   PRO    52      32.455  11.993   0.831  1.00  0.00              
ATOM    150  CA  PRO    52      33.734  12.616   0.504  1.00  0.00              
ATOM    151  C   PRO    52      34.500  11.783  -0.518  1.00  0.00              
ATOM    152  O   PRO    52      34.897  10.650  -0.240  1.00  0.00              
ATOM    153  N   GLU    53      34.708  12.351  -1.701  1.00  0.00              
ATOM    154  CA  GLU    53      35.430  11.663  -2.764  1.00  0.00              
ATOM    155  C   GLU    53      36.883  12.121  -2.820  1.00  0.00              
ATOM    156  O   GLU    53      37.747  11.412  -3.333  1.00  0.00              
ATOM    157  N   ILE    54      37.145  13.311  -2.286  1.00  0.00              
ATOM    158  CA  ILE    54      38.495  13.862  -2.275  1.00  0.00              
ATOM    159  C   ILE    54      39.178  13.602  -0.935  1.00  0.00              
ATOM    160  O   ILE    54      38.588  13.007  -0.032  1.00  0.00              
ATOM    161  N   ASP    55      41.837  15.191   4.743  1.00  0.00              
ATOM    162  CA  ASP    55      42.691  16.196   5.367  1.00  0.00              
ATOM    163  C   ASP    55      42.318  17.597   4.891  1.00  0.00              
ATOM    164  O   ASP    55      42.561  18.586   5.586  1.00  0.00              
ATOM    165  N   LEU    56      41.729  17.676   3.703  1.00  0.00              
ATOM    166  CA  LEU    56      41.322  18.956   3.134  1.00  0.00              
ATOM    167  C   LEU    56      40.002  19.425   3.736  1.00  0.00              
ATOM    168  O   LEU    56      39.885  20.562   4.191  1.00  0.00              
END
