
#######################################################
#                                                     #
#                        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   45 (  180),  selected   45 , name T0363AL044_1
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363AL044_1.T0363.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      L      10           -
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    -       -      I      13           -
LGA    -       -      N      14           -
LGA    I      13      I      15          0.711
LGA    N      14      E      16          2.004
LGA    I      15      I      17          2.236
LGA    E      16      A      18          2.851
LGA    I      17      Y      19          3.169
LGA    A      18      A      20          3.634
LGA    Y      19      F      21           #
LGA    A      20      P      22          1.443
LGA    -       -      E      23           -
LGA    F      21      R      24           #
LGA    P      22      Y      25          1.485
LGA    E      23      Y      26          5.557
LGA    R      24      L      27           -
LGA    -       -      K      28           -
LGA    -       -      S      29           -
LGA    -       -      F      30           -
LGA    -       -      Q      31           -
LGA    -       -      V      32           -
LGA    V      32      D      33           #
LGA    D      33      E      34           #
LGA    -       -      G      35           -
LGA    V      38      I      36          1.505
LGA    -       -      T      37           -
LGA    Q      39      V      38          1.673
LGA    T      40      Q      39          2.333
LGA    A      41      T      40          2.266
LGA    I      42      A      41          2.461
LGA    T      43      I      42          2.553
LGA    Q      44      T      43          1.254
LGA    S      45      Q      44          1.913
LGA    G      46      S      45          3.298
LGA    I      47      G      46          4.131
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      I      47          3.837
LGA    F      51      L      48          4.866
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    P      52      E      53          4.460
LGA    E      53      I      54          4.070
LGA    L      56      D      55          4.265
LGA    T      58      L      56          4.046
LGA    N      59      S      57          3.225
LGA    -       -      T      58           -
LGA    -       -      N      59           -
LGA    -       -      K      60           -
LGA    -       -      I      61           -
LGA    K      60      G      62          1.968
LGA    I      63      I      63          0.937
LGA    R      66      F      64          1.950
LGA    P      67      S      65          5.369
LGA    -       -      R      66           -
LGA    -       -      P      67           -
LGA    -       -      I      68           -
LGA    -       -      K      69           -
LGA    -       -      L      70           -
LGA    -       -      T      71           -
LGA    -       -      D      72           -
LGA    -       -      V      73           -
LGA    -       -      L      74           -
LGA    -       -      K      75           -
LGA    -       -      E      76           -
LGA    -       -      G      77           -
LGA    T      71      D      78          5.012
LGA    D      72      R      79           -
LGA    V      73      I      80           -
LGA    L      74      E      81           -
LGA    D      78      I      82           -
LGA    R      79      Y      83           -
LGA    I      80      R      84           -
LGA    E      81      P      85           -
LGA    -       -      L      86           -
LGA    -       -      L      87           -
LGA    -       -      A      88           -
LGA    -       -      D      89           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   45   80    5.0     31    3.21    12.90     24.309     0.936

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.988976 * X  +   0.023914 * Y  +  -0.146133 * Z  +  30.276878
  Y_new =  -0.147155 * X  +  -0.268613 * Y  +   0.951941 * Z  +  17.391916
  Z_new =  -0.016489 * X  +   0.962951 * Y  +   0.269171 * Z  +   7.273493 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.298226   -1.843366  [ DEG:    74.3829   -105.6171 ]
  Theta =   0.016489    3.125103  [ DEG:     0.9448    179.0552 ]
  Phi   =  -2.993881    0.147712  [ DEG:  -171.5367      8.4633 ]
 
# 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: T0363AL044_1                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL044_1.T0363.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   45   80   5.0   31   3.21   12.90  24.309
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL044_1
REMARK Aligment from pdb entry: 1wgk_A
ATOM      1  N   ILE    13      20.219   9.559   5.630  1.00  0.00              
ATOM      2  CA  ILE    13      20.198  10.966   6.012  1.00  0.00              
ATOM      3  C   ILE    13      20.347  11.869   4.791  1.00  0.00              
ATOM      4  O   ILE    13      21.119  11.575   3.878  1.00  0.00              
ATOM      5  N   ASN    14      19.602  12.969   4.782  1.00  0.00              
ATOM      6  CA  ASN    14      19.651  13.917   3.675  1.00  0.00              
ATOM      7  C   ASN    14      20.667  15.021   3.949  1.00  0.00              
ATOM      8  O   ASN    14      20.447  15.882   4.801  1.00  0.00              
ATOM      9  N   ILE    15      21.778  14.991   3.221  1.00  0.00              
ATOM     10  CA  ILE    15      22.827  15.992   3.384  1.00  0.00              
ATOM     11  C   ILE    15      22.719  17.078   2.320  1.00  0.00              
ATOM     12  O   ILE    15      22.563  16.786   1.135  1.00  0.00              
ATOM     13  N   GLU    16      22.806  18.332   2.752  1.00  0.00              
ATOM     14  CA  GLU    16      22.718  19.463   1.835  1.00  0.00              
ATOM     15  C   GLU    16      23.845  20.460   2.092  1.00  0.00              
ATOM     16  O   GLU    16      24.158  20.777   3.240  1.00  0.00              
ATOM     17  N   ILE    17      24.450  20.949   1.015  1.00  0.00              
ATOM     18  CA  ILE    17      25.543  21.909   1.122  1.00  0.00              
ATOM     19  C   ILE    17      25.174  23.231   0.455  1.00  0.00              
ATOM     20  O   ILE    17      24.579  23.250  -0.622  1.00  0.00              
ATOM     21  N   ALA    18      25.531  24.335   1.104  1.00  0.00              
ATOM     22  CA  ALA    18      25.228  25.646   0.561  1.00  0.00              
ATOM     23  C   ALA    18      25.866  25.872  -0.795  1.00  0.00              
ATOM     24  O   ALA    18      26.049  24.931  -1.568  1.00  0.00              
ATOM     25  N   TYR    19      26.205  27.124  -1.088  1.00  0.00              
ATOM     26  CA  TYR    19      26.820  27.448  -2.361  1.00  0.00              
ATOM     27  C   TYR    19      28.332  27.349  -2.317  1.00  0.00              
ATOM     28  O   TYR    19      28.969  27.879  -1.407  1.00  0.00              
ATOM     29  N   ALA    20      28.908  26.666  -3.300  1.00  0.00              
ATOM     30  CA  ALA    20      30.350  26.509  -3.350  1.00  0.00              
ATOM     31  C   ALA    20      30.799  25.132  -2.905  1.00  0.00              
ATOM     32  O   ALA    20      31.618  24.495  -3.566  1.00  0.00              
ATOM     33  N   PHE    21      30.264  24.672  -1.779  1.00  0.00              
ATOM     34  CA  PHE    21      30.615  23.361  -1.246  1.00  0.00              
ATOM     35  C   PHE    21      30.004  22.245  -2.087  1.00  0.00              
ATOM     36  O   PHE    21      30.654  21.238  -2.364  1.00  0.00              
ATOM     37  N   PRO    22      28.750  22.432  -2.489  1.00  0.00              
ATOM     38  CA  PRO    22      28.053  21.439  -3.298  1.00  0.00              
ATOM     39  C   PRO    22      28.951  20.921  -4.418  1.00  0.00              
ATOM     40  O   PRO    22      28.938  19.732  -4.740  1.00  0.00              
ATOM     41  N   GLU    23      29.727  21.822  -5.010  1.00  0.00              
ATOM     42  CA  GLU    23      30.632  21.457  -6.094  1.00  0.00              
ATOM     43  C   GLU    23      31.561  20.324  -5.672  1.00  0.00              
ATOM     44  O   GLU    23      31.831  19.406  -6.448  1.00  0.00              
ATOM     45  N   ARG    24      26.703  -1.992  15.709  1.00  0.00              
ATOM     46  CA  ARG    24      26.340  -1.999  17.121  1.00  0.00              
ATOM     47  C   ARG    24      26.225  -0.577  17.661  1.00  0.00              
ATOM     48  O   ARG    24      25.389  -0.293  18.518  1.00  0.00              
ATOM     49  N   VAL    32      27.071   0.313  17.151  1.00  0.00              
ATOM     50  CA  VAL    32      27.066   1.706  17.583  1.00  0.00              
ATOM     51  C   VAL    32      26.425   2.601  16.525  1.00  0.00              
ATOM     52  O   VAL    32      26.611   2.414  15.322  1.00  0.00              
ATOM     53  N   ASP    33      25.652   3.597  16.982  1.00  0.00              
ATOM     54  CA  ASP    33      24.968   4.541  16.093  1.00  0.00              
ATOM     55  C   ASP    33      25.939   5.484  15.393  1.00  0.00              
ATOM     56  O   ASP    33      26.932   5.917  15.980  1.00  0.00              
ATOM     57  N   VAL    38      25.648   5.801  14.137  1.00  0.00              
ATOM     58  CA  VAL    38      26.496   6.695  13.357  1.00  0.00              
ATOM     59  C   VAL    38      26.519   8.093  13.965  1.00  0.00              
ATOM     60  O   VAL    38      25.519   8.810  13.933  1.00  0.00              
ATOM     61  N   GLN    39      28.277  12.031  14.338  1.00  0.00              
ATOM     62  CA  GLN    39      28.919  13.043  13.510  1.00  0.00              
ATOM     63  C   GLN    39      30.401  12.739  13.320  1.00  0.00              
ATOM     64  O   GLN    39      30.907  12.736  12.197  1.00  0.00              
ATOM     65  N   THR    40      31.093  12.482  14.425  1.00  0.00              
ATOM     66  CA  THR    40      32.518  12.176  14.381  1.00  0.00              
ATOM     67  C   THR    40      32.843  11.268  13.199  1.00  0.00              
ATOM     68  O   THR    40      33.666  11.608  12.350  1.00  0.00              
ATOM     69  N   ALA    41      32.189  10.112  13.150  1.00  0.00              
ATOM     70  CA  ALA    41      32.409   9.154  12.072  1.00  0.00              
ATOM     71  C   ALA    41      31.815   9.664  10.762  1.00  0.00              
ATOM     72  O   ALA    41      32.472   9.639   9.720  1.00  0.00              
ATOM     73  N   ILE    42      30.573  10.128  10.823  1.00  0.00              
ATOM     74  CA  ILE    42      29.890  10.645   9.642  1.00  0.00              
ATOM     75  C   ILE    42      30.868  11.369   8.722  1.00  0.00              
ATOM     76  O   ILE    42      30.824  11.207   7.502  1.00  0.00              
ATOM     77  N   THR    43      31.749  12.167   9.314  1.00  0.00              
ATOM     78  CA  THR    43      32.740  12.914   8.549  1.00  0.00              
ATOM     79  C   THR    43      33.551  11.984   7.653  1.00  0.00              
ATOM     80  O   THR    43      33.670  12.212   6.448  1.00  0.00              
ATOM     81  N   GLN    44      34.107  10.934   8.248  1.00  0.00              
ATOM     82  CA  GLN    44      34.906   9.967   7.504  1.00  0.00              
ATOM     83  C   GLN    44      34.185   9.520   6.236  1.00  0.00              
ATOM     84  O   GLN    44      34.804   9.356   5.184  1.00  0.00              
ATOM     85  N   SER    45      32.876   9.326   6.343  1.00  0.00              
ATOM     86  CA  SER    45      32.072   8.899   5.205  1.00  0.00              
ATOM     87  C   SER    45      31.865  10.046   4.222  1.00  0.00              
ATOM     88  O   SER    45      32.253   9.954   3.057  1.00  0.00              
ATOM     89  N   GLY    46      31.254  11.125   4.699  1.00  0.00              
ATOM     90  CA  GLY    46      30.999  12.290   3.863  1.00  0.00              
ATOM     91  C   GLY    46      32.297  12.854   3.294  1.00  0.00              
ATOM     92  O   GLY    46      32.287  13.592   2.309  1.00  0.00              
ATOM     93  N   ILE    47      33.413  12.500   3.921  1.00  0.00              
ATOM     94  CA  ILE    47      34.721  12.968   3.477  1.00  0.00              
ATOM     95  C   ILE    47      35.299  12.038   2.415  1.00  0.00              
ATOM     96  O   ILE    47      36.222  12.406   1.689  1.00  0.00              
ATOM     97  N   LEU    48      34.750  10.831   2.329  1.00  0.00              
ATOM     98  CA  LEU    48      35.209   9.849   1.354  1.00  0.00              
ATOM     99  C   LEU    48      34.097   9.497   0.372  1.00  0.00              
ATOM    100  O   LEU    48      34.191   9.793  -0.819  1.00  0.00              
ATOM    101  N   SER    49      33.043   8.865   0.879  1.00  0.00              
ATOM    102  CA  SER    49      31.911   8.474   0.045  1.00  0.00              
ATOM    103  C   SER    49      31.388   9.664  -0.754  1.00  0.00              
ATOM    104  O   SER    49      31.534   9.716  -1.976  1.00  0.00              
ATOM    105  N   GLN    50      30.779  10.616  -0.056  1.00  0.00              
ATOM    106  CA  GLN    50      30.234  11.806  -0.700  1.00  0.00              
ATOM    107  C   GLN    50      31.347  12.653  -1.310  1.00  0.00              
ATOM    108  O   GLN    50      31.476  12.742  -2.531  1.00  0.00              
ATOM    109  N   PHE    51      32.148  13.274  -0.451  1.00  0.00              
ATOM    110  CA  PHE    51      33.252  14.112  -0.905  1.00  0.00              
ATOM    111  C   PHE    51      34.055  13.413  -1.996  1.00  0.00              
ATOM    112  O   PHE    51      34.679  12.378  -1.757  1.00  0.00              
ATOM    113  N   PRO    52      36.947  19.758   4.406  1.00  0.00              
ATOM    114  CA  PRO    52      37.149  19.512   5.829  1.00  0.00              
ATOM    115  C   PRO    52      38.550  18.973   6.100  1.00  0.00              
ATOM    116  O   PRO    52      39.157  18.338   5.239  1.00  0.00              
ATOM    117  N   GLU    53      39.055  19.230   7.302  1.00  0.00              
ATOM    118  CA  GLU    53      40.384  18.770   7.687  1.00  0.00              
ATOM    119  C   GLU    53      40.323  17.935   8.962  1.00  0.00              
ATOM    120  O   GLU    53      40.162  18.468  10.058  1.00  0.00              
ATOM    121  N   LEU    56      40.452  16.621   8.809  1.00  0.00              
ATOM    122  CA  LEU    56      40.409  15.732   9.957  1.00  0.00              
ATOM    123  C   LEU    56      39.023  15.173  10.204  1.00  0.00              
ATOM    124  O   LEU    56      38.129  15.319   9.369  1.00  0.00              
ATOM    125  N   THR    58      38.842  14.528  11.352  1.00  0.00              
ATOM    126  CA  THR    58      37.554  13.943  11.706  1.00  0.00              
ATOM    127  C   THR    58      36.528  15.031  12.008  1.00  0.00              
ATOM    128  O   THR    58      35.330  14.761  12.097  1.00  0.00              
ATOM    129  N   ASN    59      37.007  16.261  12.167  1.00  0.00              
ATOM    130  CA  ASN    59      36.131  17.389  12.465  1.00  0.00              
ATOM    131  C   ASN    59      36.056  18.345  11.279  1.00  0.00              
ATOM    132  O   ASN    59      36.958  18.387  10.441  1.00  0.00              
ATOM    133  N   LYS    60      24.739  22.142  10.415  1.00  0.00              
ATOM    134  CA  LYS    60      23.459  22.349  11.086  1.00  0.00              
ATOM    135  C   LYS    60      22.606  21.086  11.032  1.00  0.00              
ATOM    136  O   LYS    60      22.218  20.633   9.955  1.00  0.00              
ATOM    137  N   ILE    63      22.316  20.524  12.201  1.00  0.00              
ATOM    138  CA  ILE    63      21.506  19.315  12.287  1.00  0.00              
ATOM    139  C   ILE    63      20.037  19.654  12.517  1.00  0.00              
ATOM    140  O   ILE    63      19.675  20.231  13.542  1.00  0.00              
ATOM    141  N   ARG    66      19.193  19.289  11.557  1.00  0.00              
ATOM    142  CA  ARG    66      17.762  19.552  11.655  1.00  0.00              
ATOM    143  C   ARG    66      17.500  21.021  11.978  1.00  0.00              
ATOM    144  O   ARG    66      16.671  21.342  12.829  1.00  0.00              
ATOM    145  N   PRO    67      18.213  21.907  11.292  1.00  0.00              
ATOM    146  CA  PRO    67      18.058  23.343  11.504  1.00  0.00              
ATOM    147  C   PRO    67      18.436  23.725  12.931  1.00  0.00              
ATOM    148  O   PRO    67      17.699  24.439  13.609  1.00  0.00              
ATOM    149  N   THR    71      19.590  23.243  13.381  1.00  0.00              
ATOM    150  CA  THR    71      20.067  23.536  14.727  1.00  0.00              
ATOM    151  C   THR    71      21.572  23.317  14.836  1.00  0.00              
ATOM    152  O   THR    71      22.063  22.204  14.643  1.00  0.00              
ATOM    153  N   ASP    72      24.599  11.610  17.985  1.00  0.00              
ATOM    154  CA  ASP    72      24.540  10.306  17.335  1.00  0.00              
ATOM    155  C   ASP    72      23.369  10.237  16.359  1.00  0.00              
ATOM    156  O   ASP    72      22.233   9.970  16.754  1.00  0.00              
ATOM    157  N   VAL    73      18.312   8.467  12.157  1.00  0.00              
ATOM    158  CA  VAL    73      17.745   8.275  10.828  1.00  0.00              
ATOM    159  C   VAL    73      16.887   9.470  10.426  1.00  0.00              
ATOM    160  O   VAL    73      16.671  10.386  11.219  1.00  0.00              
ATOM    161  N   LEU    74      16.402   9.455   9.188  1.00  0.00              
ATOM    162  CA  LEU    74      15.569  10.539   8.680  1.00  0.00              
ATOM    163  C   LEU    74      16.086  11.891   9.159  1.00  0.00              
ATOM    164  O   LEU    74      15.327  12.855   9.263  1.00  0.00              
ATOM    165  N   ASP    78      17.381  11.956   9.448  1.00  0.00              
ATOM    166  CA  ASP    78      17.999  13.191   9.915  1.00  0.00              
ATOM    167  C   ASP    78      18.680  13.926   8.765  1.00  0.00              
ATOM    168  O   ASP    78      19.422  13.329   7.986  1.00  0.00              
ATOM    169  N   ARG    79      18.422  15.226   8.665  1.00  0.00              
ATOM    170  CA  ARG    79      19.006  16.042   7.607  1.00  0.00              
ATOM    171  C   ARG    79      20.192  16.845   8.132  1.00  0.00              
ATOM    172  O   ARG    79      20.060  17.621   9.079  1.00  0.00              
ATOM    173  N   ILE    80      21.350  16.653   7.509  1.00  0.00              
ATOM    174  CA  ILE    80      22.560  17.360   7.913  1.00  0.00              
ATOM    175  C   ILE    80      22.938  18.429   6.893  1.00  0.00              
ATOM    176  O   ILE    80      23.039  18.153   5.698  1.00  0.00              
ATOM    177  N   GLU    81      23.149  19.649   7.374  1.00  0.00              
ATOM    178  CA  GLU    81      23.518  20.760   6.504  1.00  0.00              
ATOM    179  C   GLU    81      24.984  21.137   6.696  1.00  0.00              
ATOM    180  O   GLU    81      25.495  21.136   7.816  1.00  0.00              
END
