
#######################################################
#                                                     #
#                        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   48 (  192),  selected   48 , name T0351AL243_4
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351AL243_4.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A      44      M       1           -
LGA    E      45      I       2           -
LGA    L      46      L       3           -
LGA    E      47      Y       4           -
LGA    E      52      D       5           -
LGA    L      53      A       6           -
LGA    Q      54      I       7           -
LGA    K      55      M       8           -
LGA    Q      64      Y       9           -
LGA    V      65      K      10           -
LGA    E      66      Y      11           -
LGA    L      67      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    -       -      R      37           -
LGA    L      68      A      38           #
LGA    A      69      -       -           -
LGA    Q      70      -       -           -
LGA    E      71      P      39          4.122
LGA    L      72      L      40          2.910
LGA    S      73      -       -           -
LGA    Q      74      P      41          3.740
LGA    E      75      T      42          3.473
LGA    K      76      Q      43          2.941
LGA    L      77      A      44          2.458
LGA    A      78      E      45          1.884
LGA    R      79      L      46          1.487
LGA    K      80      E      47          0.993
LGA    Q      81      T      48          0.914
LGA    L      82      W      49          0.852
LGA    E      83      W      50          0.602
LGA    E      84      E      51          0.357
LGA    L      85      E      52          0.381
LGA    N      86      L      53          1.467
LGA    K      87      Q      54          1.870
LGA    T      88      K      55          0.992
LGA    L      89      N      56          1.077
LGA    G      90      -       -           -
LGA    N      91      -       -           -
LGA    E      92      -       -           -
LGA    L      93      -       -           -
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)   48   56    5.0     18    2.15    11.11     29.456     0.801

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.795339 * X  +   0.524430 * Y  +   0.303989 * Z  + -56.029930
  Y_new =  -0.494377 * X  +  -0.271013 * Y  +  -0.825920 * Z  + 164.346283
  Z_new =  -0.350752 * X  +  -0.807172 * Y  +   0.474813 * Z  + -81.237083 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.039067    2.102526  [ DEG:   -59.5341    120.4659 ]
  Theta =   0.358374    2.783219  [ DEG:    20.5333    159.4667 ]
  Phi   =  -2.585447    0.556146  [ DEG:  -148.1352     31.8648 ]
 
# 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_4                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351AL243_4.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   48   56   5.0   18   2.15   11.11  29.456
REMARK  ---------------------------------------------------------- 
MOLECULE T0351AL243_4
REMARK Aligment from pdb entry: 1lwuC
ATOM      1  N   ALA    44      -9.782  19.203 -27.311  1.00  0.00              
ATOM      2  CA  ALA    44      -9.780  17.724 -27.138  1.00  0.00              
ATOM      3  C   ALA    44      -9.736  17.344 -25.664  1.00  0.00              
ATOM      4  O   ALA    44      -9.624  16.170 -25.323  1.00  0.00              
ATOM      5  N   GLU    45      -9.816  18.345 -24.796  1.00  0.00              
ATOM      6  CA  GLU    45      -9.794  18.115 -23.357  1.00  0.00              
ATOM      7  C   GLU    45     -10.964  17.223 -22.952  1.00  0.00              
ATOM      8  O   GLU    45     -10.779  16.220 -22.263  1.00  0.00              
ATOM      9  N   LEU    46     -12.167  17.592 -23.384  1.00  0.00              
ATOM     10  CA  LEU    46     -13.360  16.816 -23.072  1.00  0.00              
ATOM     11  C   LEU    46     -13.092  15.357 -23.434  1.00  0.00              
ATOM     12  O   LEU    46     -13.565  14.437 -22.769  1.00  0.00              
ATOM     13  N   GLU    47     -12.319  15.160 -24.495  1.00  0.00              
ATOM     14  CA  GLU    47     -11.972  13.826 -24.966  1.00  0.00              
ATOM     15  C   GLU    47     -10.807  13.231 -24.181  1.00  0.00              
ATOM     16  O   GLU    47     -10.649  12.015 -24.126  1.00  0.00              
ATOM     17  N   GLU    52      -9.985  14.091 -23.591  1.00  0.00              
ATOM     18  CA  GLU    52      -8.843  13.633 -22.806  1.00  0.00              
ATOM     19  C   GLU    52      -9.253  13.337 -21.369  1.00  0.00              
ATOM     20  O   GLU    52      -8.800  12.356 -20.780  1.00  0.00              
ATOM     21  N   LEU    53     -10.109  14.185 -20.808  1.00  0.00              
ATOM     22  CA  LEU    53     -10.588  13.985 -19.446  1.00  0.00              
ATOM     23  C   LEU    53     -11.193  12.591 -19.344  1.00  0.00              
ATOM     24  O   LEU    53     -11.550  12.142 -18.264  1.00  0.00              
ATOM     25  N   GLN    54     -11.317  11.925 -20.489  1.00  0.00              
ATOM     26  CA  GLN    54     -11.859  10.575 -20.561  1.00  0.00              
ATOM     27  C   GLN    54     -10.703   9.593 -20.529  1.00  0.00              
ATOM     28  O   GLN    54     -10.531   8.872 -19.552  1.00  0.00              
ATOM     29  N   LYS    55      -9.917   9.568 -21.603  1.00  0.00              
ATOM     30  CA  LYS    55      -8.766   8.675 -21.677  1.00  0.00              
ATOM     31  C   LYS    55      -8.045   8.732 -20.340  1.00  0.00              
ATOM     32  O   LYS    55      -7.609   7.708 -19.813  1.00  0.00              
ATOM     33  N   GLN    64      -7.922   9.937 -19.790  1.00  0.00              
ATOM     34  CA  GLN    64      -7.264  10.096 -18.506  1.00  0.00              
ATOM     35  C   GLN    64      -7.948   9.184 -17.499  1.00  0.00              
ATOM     36  O   GLN    64      -7.282   8.435 -16.782  1.00  0.00              
ATOM     37  N   VAL    65      -9.277   9.231 -17.459  1.00  0.00              
ATOM     38  CA  VAL    65     -10.033   8.403 -16.524  1.00  0.00              
ATOM     39  C   VAL    65      -9.978   6.928 -16.874  1.00  0.00              
ATOM     40  O   VAL    65     -10.039   6.082 -15.995  1.00  0.00              
ATOM     41  N   GLU    66      -9.865   6.610 -18.155  1.00  0.00              
ATOM     42  CA  GLU    66      -9.764   5.214 -18.563  1.00  0.00              
ATOM     43  C   GLU    66      -8.466   4.670 -17.975  1.00  0.00              
ATOM     44  O   GLU    66      -8.369   3.495 -17.622  1.00  0.00              
ATOM     45  N   LEU    67      -7.474   5.552 -17.876  1.00  0.00              
ATOM     46  CA  LEU    67      -6.163   5.213 -17.339  1.00  0.00              
ATOM     47  C   LEU    67      -6.190   5.146 -15.813  1.00  0.00              
ATOM     48  O   LEU    67      -5.700   4.182 -15.221  1.00  0.00              
ATOM     49  N   LEU    68      -6.760   6.173 -15.182  1.00  0.00              
ATOM     50  CA  LEU    68      -6.845   6.217 -13.728  1.00  0.00              
ATOM     51  C   LEU    68      -7.595   5.017 -13.165  1.00  0.00              
ATOM     52  O   LEU    68      -7.415   4.647 -12.004  1.00  0.00              
ATOM     53  N   ALA    69      -8.453   4.419 -13.979  1.00  0.00              
ATOM     54  CA  ALA    69      -9.199   3.257 -13.535  1.00  0.00              
ATOM     55  C   ALA    69      -8.263   2.053 -13.610  1.00  0.00              
ATOM     56  O   ALA    69      -8.154   1.281 -12.661  1.00  0.00              
ATOM     57  N   GLN    70      -7.569   1.912 -14.733  1.00  0.00              
ATOM     58  CA  GLN    70      -6.637   0.809 -14.920  1.00  0.00              
ATOM     59  C   GLN    70      -5.613   0.776 -13.793  1.00  0.00              
ATOM     60  O   GLN    70      -5.284  -0.288 -13.269  1.00  0.00              
ATOM     61  N   GLU    71      -5.106   1.947 -13.427  1.00  0.00              
ATOM     62  CA  GLU    71      -4.126   2.044 -12.355  1.00  0.00              
ATOM     63  C   GLU    71      -4.745   1.588 -11.037  1.00  0.00              
ATOM     64  O   GLU    71      -4.292   0.611 -10.464  1.00  0.00              
ATOM     65  N   LEU    72      -5.776   2.302 -10.576  1.00  0.00              
ATOM     66  CA  LEU    72      -6.456   1.971  -9.329  1.00  0.00              
ATOM     67  C   LEU    72      -6.605   0.475  -9.119  1.00  0.00              
ATOM     68  O   LEU    72      -6.276  -0.057  -8.051  1.00  0.00              
ATOM     69  N   SER    73      -7.095  -0.208 -10.150  1.00  0.00              
ATOM     70  CA  SER    73      -7.273  -1.652 -10.106  1.00  0.00              
ATOM     71  C   SER    73      -5.943  -2.330  -9.783  1.00  0.00              
ATOM     72  O   SER    73      -5.890  -3.209  -8.927  1.00  0.00              
ATOM     73  N   GLN    74      -4.870  -1.932 -10.461  1.00  0.00              
ATOM     74  CA  GLN    74      -3.560  -2.517 -10.172  1.00  0.00              
ATOM     75  C   GLN    74      -3.177  -2.192  -8.728  1.00  0.00              
ATOM     76  O   GLN    74      -2.573  -3.002  -8.027  1.00  0.00              
ATOM     77  N   GLU    75      -3.533  -0.996  -8.280  1.00  0.00              
ATOM     78  CA  GLU    75      -3.240  -0.620  -6.919  1.00  0.00              
ATOM     79  C   GLU    75      -3.978  -1.556  -5.985  1.00  0.00              
ATOM     80  O   GLU    75      -3.488  -1.868  -4.902  1.00  0.00              
ATOM     81  N   LYS    76      -5.154  -2.015  -6.410  1.00  0.00              
ATOM     82  CA  LYS    76      -5.935  -2.950  -5.606  1.00  0.00              
ATOM     83  C   LYS    76      -5.246  -4.321  -5.584  1.00  0.00              
ATOM     84  O   LYS    76      -5.474  -5.130  -4.681  1.00  0.00              
ATOM     85  N   LEU    77      -4.403  -4.577  -6.581  1.00  0.00              
ATOM     86  CA  LEU    77      -3.680  -5.842  -6.654  1.00  0.00              
ATOM     87  C   LEU    77      -2.424  -5.710  -5.828  1.00  0.00              
ATOM     88  O   LEU    77      -2.092  -6.588  -5.020  1.00  0.00              
ATOM     89  N   ALA    78      -1.723  -4.603  -6.044  1.00  0.00              
ATOM     90  CA  ALA    78      -0.488  -4.341  -5.334  1.00  0.00              
ATOM     91  C   ALA    78      -0.736  -4.300  -3.841  1.00  0.00              
ATOM     92  O   ALA    78       0.111  -4.708  -3.055  1.00  0.00              
ATOM     93  N   ARG    79      -1.901  -3.810  -3.449  1.00  0.00              
ATOM     94  CA  ARG    79      -2.229  -3.757  -2.040  1.00  0.00              
ATOM     95  C   ARG    79      -2.321  -5.180  -1.499  1.00  0.00              
ATOM     96  O   ARG    79      -1.927  -5.455  -0.365  1.00  0.00              
ATOM     97  N   LYS    80      -2.831  -6.092  -2.317  1.00  0.00              
ATOM     98  CA  LYS    80      -2.952  -7.478  -1.888  1.00  0.00              
ATOM     99  C   LYS    80      -1.588  -8.135  -1.887  1.00  0.00              
ATOM    100  O   LYS    80      -1.265  -8.924  -1.002  1.00  0.00              
ATOM    101  N   GLN    81      -0.780  -7.800  -2.879  1.00  0.00              
ATOM    102  CA  GLN    81       0.540  -8.378  -2.954  1.00  0.00              
ATOM    103  C   GLN    81       1.327  -8.005  -1.701  1.00  0.00              
ATOM    104  O   GLN    81       2.261  -8.712  -1.311  1.00  0.00              
ATOM    105  N   LEU    82       0.954  -6.893  -1.069  1.00  0.00              
ATOM    106  CA  LEU    82       1.645  -6.456   0.143  1.00  0.00              
ATOM    107  C   LEU    82       1.136  -7.206   1.358  1.00  0.00              
ATOM    108  O   LEU    82       1.912  -7.537   2.249  1.00  0.00              
ATOM    109  N   GLU    83      -0.166  -7.469   1.398  1.00  0.00              
ATOM    110  CA  GLU    83      -0.732  -8.203   2.518  1.00  0.00              
ATOM    111  C   GLU    83      -0.232  -9.635   2.485  1.00  0.00              
ATOM    112  O   GLU    83       0.038 -10.232   3.526  1.00  0.00              
ATOM    113  N   GLU    84      -0.105 -10.187   1.285  1.00  0.00              
ATOM    114  CA  GLU    84       0.407 -11.541   1.147  1.00  0.00              
ATOM    115  C   GLU    84       1.830 -11.482   1.706  1.00  0.00              
ATOM    116  O   GLU    84       2.218 -12.259   2.589  1.00  0.00              
ATOM    117  N   LEU    85       2.583 -10.514   1.189  1.00  0.00              
ATOM    118  CA  LEU    85       3.967 -10.286   1.573  1.00  0.00              
ATOM    119  C   LEU    85       4.106 -10.104   3.073  1.00  0.00              
ATOM    120  O   LEU    85       5.087 -10.535   3.671  1.00  0.00              
ATOM    121  N   ASN    86       3.120  -9.467   3.686  1.00  0.00              
ATOM    122  CA  ASN    86       3.176  -9.248   5.118  1.00  0.00              
ATOM    123  C   ASN    86       2.891 -10.527   5.890  1.00  0.00              
ATOM    124  O   ASN    86       3.581 -10.835   6.868  1.00  0.00              
ATOM    125  N   LYS    87       1.865 -11.259   5.460  1.00  0.00              
ATOM    126  CA  LYS    87       1.490 -12.514   6.113  1.00  0.00              
ATOM    127  C   LYS    87       2.647 -13.512   6.049  1.00  0.00              
ATOM    128  O   LYS    87       2.960 -14.179   7.032  1.00  0.00              
ATOM    129  N   THR    88       3.280 -13.611   4.888  1.00  0.00              
ATOM    130  CA  THR    88       4.412 -14.502   4.721  1.00  0.00              
ATOM    131  C   THR    88       5.469 -14.136   5.753  1.00  0.00              
ATOM    132  O   THR    88       5.956 -14.988   6.495  1.00  0.00              
ATOM    133  N   LEU    89       5.819 -12.856   5.793  1.00  0.00              
ATOM    134  CA  LEU    89       6.813 -12.360   6.731  1.00  0.00              
ATOM    135  C   LEU    89       6.416 -12.669   8.164  1.00  0.00              
ATOM    136  O   LEU    89       7.214 -13.220   8.925  1.00  0.00              
ATOM    137  N   GLY    90       5.182 -12.328   8.525  1.00  0.00              
ATOM    138  CA  GLY    90       4.713 -12.567   9.883  1.00  0.00              
ATOM    139  C   GLY    90       4.873 -14.039  10.264  1.00  0.00              
ATOM    140  O   GLY    90       4.939 -14.387  11.442  1.00  0.00              
ATOM    141  N   ASN    91       4.940 -14.903   9.258  1.00  0.00              
ATOM    142  CA  ASN    91       5.124 -16.320   9.497  1.00  0.00              
ATOM    143  C   ASN    91       6.613 -16.561   9.674  1.00  0.00              
ATOM    144  O   ASN    91       7.027 -17.352  10.520  1.00  0.00              
ATOM    145  N   GLU    92       7.414 -15.860   8.876  1.00  0.00              
ATOM    146  CA  GLU    92       8.873 -15.960   8.940  1.00  0.00              
ATOM    147  C   GLU    92       9.318 -15.597  10.362  1.00  0.00              
ATOM    148  O   GLU    92      10.190 -16.248  10.943  1.00  0.00              
ATOM    149  N   LEU    93       8.718 -14.549  10.920  1.00  0.00              
ATOM    150  CA  LEU    93       9.049 -14.111  12.272  1.00  0.00              
ATOM    151  C   LEU    93       8.753 -15.228  13.268  1.00  0.00              
ATOM    152  O   LEU    93       9.490 -15.428  14.229  1.00  0.00              
ATOM    153  N   SER    94       7.662 -15.949  13.039  1.00  0.00              
ATOM    154  CA  SER    94       7.296 -17.063  13.902  1.00  0.00              
ATOM    155  C   SER    94       8.383 -18.129  13.765  1.00  0.00              
ATOM    156  O   SER    94       9.000 -18.523  14.748  1.00  0.00              
ATOM    157  N   ASP    95       8.623 -18.584  12.540  1.00  0.00              
ATOM    158  CA  ASP    95       9.647 -19.595  12.299  1.00  0.00              
ATOM    159  C   ASP    95      10.975 -19.211  12.966  1.00  0.00              
ATOM    160  O   ASP    95      11.683 -20.076  13.483  1.00  0.00              
ATOM    161  N   ILE    96      11.320 -17.923  12.959  1.00  0.00              
ATOM    162  CA  ILE    96      12.562 -17.507  13.603  1.00  0.00              
ATOM    163  C   ILE    96      12.345 -17.474  15.110  1.00  0.00              
ATOM    164  O   ILE    96      13.273 -17.712  15.879  1.00  0.00              
ATOM    165  N   LYS    97      11.120 -17.183  15.541  1.00  0.00              
ATOM    166  CA  LYS    97      10.844 -17.166  16.972  1.00  0.00              
ATOM    167  C   LYS    97      11.251 -18.526  17.522  1.00  0.00              
ATOM    168  O   LYS    97      12.036 -18.611  18.465  1.00  0.00              
ATOM    169  N   LEU    98      10.719 -19.577  16.897  1.00  0.00              
ATOM    170  CA  LEU    98      10.991 -20.972  17.254  1.00  0.00              
ATOM    171  C   LEU    98      12.489 -21.295  17.200  1.00  0.00              
ATOM    172  O   LEU    98      13.039 -21.891  18.128  1.00  0.00              
ATOM    173  N   SER    99      13.144 -20.909  16.111  1.00  0.00              
ATOM    174  CA  SER    99      14.577 -21.159  15.956  1.00  0.00              
ATOM    175  C   SER    99      15.397 -20.505  17.079  1.00  0.00              
ATOM    176  O   SER    99      16.429 -21.036  17.516  1.00  0.00              
ATOM    177  N   LEU   100      14.924 -19.359  17.556  1.00  0.00              
ATOM    178  CA  LEU   100      15.620 -18.655  18.614  1.00  0.00              
ATOM    179  C   LEU   100      15.581 -19.450  19.911  1.00  0.00              
ATOM    180  O   LEU   100      16.603 -19.605  20.577  1.00  0.00              
ATOM    181  N   LEU   101      14.411 -19.951  20.288  1.00  0.00              
ATOM    182  CA  LEU   101      14.348 -20.724  21.517  1.00  0.00              
ATOM    183  C   LEU   101      15.152 -22.004  21.311  1.00  0.00              
ATOM    184  O   LEU   101      15.865 -22.447  22.205  1.00  0.00              
ATOM    185  N   SER   102      15.056 -22.580  20.121  1.00  0.00              
ATOM    186  CA  SER   102      15.788 -23.805  19.809  1.00  0.00              
ATOM    187  C   SER   102      17.294 -23.641  19.962  1.00  0.00              
ATOM    188  O   SER   102      17.969 -24.492  20.546  1.00  0.00              
ATOM    189  N   LEU   103      17.821 -22.548  19.427  1.00  0.00              
ATOM    190  CA  LEU   103      19.250 -22.312  19.510  1.00  0.00              
ATOM    191  C   LEU   103      19.633 -21.983  20.953  1.00  0.00              
ATOM    192  O   LEU   103      20.646 -22.490  21.454  1.00  0.00              
END
