
#######################################################
#                                                     #
#                        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   46 (  184),  selected   46 , name T0348AL242_5
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348AL242_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    M       1      L       6          3.939
LGA    D       2      E       7          2.898
LGA    A       3      I       8          2.273
LGA    K       4      L       9          2.206
LGA    F       5      V      10          3.384
LGA    L       6      C      11          3.966
LGA    -       -      P      12           -
LGA    E       7      L      13           #
LGA    I       8      C      14          3.567
LGA    L       9      K      15           -
LGA    V      10      G      16           -
LGA    C      11      P      17           -
LGA    P      12      L      18           -
LGA    L      13      V      19           -
LGA    C      14      F      20           -
LGA    K      15      D      21           -
LGA    G      16      K      22           -
LGA    P      17      S      23           -
LGA    L      18      K      24           -
LGA    V      19      D      25           -
LGA    F      20      E      26           -
LGA    -       -      L      27           -
LGA    -       -      I      28           -
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    D      21      G      31          3.380
LGA    K      22      D      32          3.799
LGA    M      45      R      33          3.723
LGA    L      46      L      34          3.001
LGA    E      47      A      35          3.178
LGA    S      48      F      36          1.505
LGA    E      49      P      37          0.749
LGA    A      50      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    R      51      E      47           #
LGA    -       -      S      48           -
LGA    E      52      E      49          3.552
LGA    L      53      A      50           -
LGA    A      54      -       -           -
LGA    P      55      R      51          2.298
LGA    E      56      E      52          4.770
LGA    E      57      L      53          1.894
LGA    E      58      A      54          3.697
LGA    V      59      P      55          4.134
LGA    -       -      E      56           -
LGA    K      60      E      57          2.047
LGA    L      61      E      58          2.186
LGA    E      62      V      59          5.993
LGA    H      63      -       -           -
LGA    H      64      K      60           #
LGA    H      65      L      61           -
LGA    H      66      E      62           -
LGA    H      67      -       -           -
LGA    H      68      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   61    5.0     23    3.33    13.04     23.055     0.670

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.917336 * X  +  -0.229596 * Y  +  -0.325239 * Z  + -19.772976
  Y_new =   0.289747 * X  +   0.945288 * Y  +   0.149926 * Z  +  15.864795
  Z_new =   0.273022 * X  +  -0.231770 * Y  +   0.933671 * Z  +  42.552166 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.243317    2.898276  [ DEG:   -13.9410    166.0590 ]
  Theta =  -0.276533   -2.865060  [ DEG:   -15.8441   -164.1559 ]
  Phi   =   0.305941   -2.835652  [ DEG:    17.5291   -162.4709 ]
 
# 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: T0348AL242_5                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348AL242_5.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   61   5.0   23   3.33   13.04  23.055
REMARK  ---------------------------------------------------------- 
MOLECULE T0348AL242_5
REMARK Aligment from pdb entry: 1gwm_A
ATOM      1  N   MET     1       1.098  38.105  52.153  1.00  0.00              
ATOM      2  CA  MET     1       2.336  38.871  52.133  1.00  0.00              
ATOM      3  C   MET     1       3.476  37.909  52.412  1.00  0.00              
ATOM      4  O   MET     1       3.277  36.916  53.127  1.00  0.00              
ATOM      5  N   ASP     2       4.688  38.223  51.969  1.00  0.00              
ATOM      6  CA  ASP     2       5.851  37.461  52.416  1.00  0.00              
ATOM      7  C   ASP     2       5.992  37.578  53.938  1.00  0.00              
ATOM      8  O   ASP     2       5.530  38.542  54.526  1.00  0.00              
ATOM      9  N   ALA     3       6.618  36.589  54.568  1.00  0.00              
ATOM     10  CA  ALA     3       6.866  36.649  55.994  1.00  0.00              
ATOM     11  C   ALA     3       8.318  36.362  56.289  1.00  0.00              
ATOM     12  O   ALA     3       8.944  35.496  55.688  1.00  0.00              
ATOM     13  N   LYS     4       8.843  37.093  57.260  1.00  0.00              
ATOM     14  CA  LYS     4      10.208  36.907  57.720  1.00  0.00              
ATOM     15  C   LYS     4      10.284  36.592  59.208  1.00  0.00              
ATOM     16  O   LYS     4      11.390  36.450  59.710  1.00  0.00              
ATOM     17  N   PHE     5       9.167  36.503  59.914  1.00  0.00              
ATOM     18  CA  PHE     5       9.134  36.103  61.308  1.00  0.00              
ATOM     19  C   PHE     5       8.160  34.945  61.457  1.00  0.00              
ATOM     20  O   PHE     5       7.052  34.970  60.913  1.00  0.00              
ATOM     21  N   LEU     6       8.569  33.947  62.241  1.00  0.00              
ATOM     22  CA  LEU     6       7.762  32.791  62.587  1.00  0.00              
ATOM     23  C   LEU     6       7.684  32.745  64.121  1.00  0.00              
ATOM     24  O   LEU     6       8.714  32.660  64.780  1.00  0.00              
ATOM     25  N   GLU     7       6.484  32.785  64.670  1.00  0.00              
ATOM     26  CA  GLU     7       6.243  32.960  66.099  1.00  0.00              
ATOM     27  C   GLU     7       5.550  31.741  66.679  1.00  0.00              
ATOM     28  O   GLU     7       4.583  31.237  66.109  1.00  0.00              
ATOM     29  N   ILE     8       6.009  31.324  67.857  1.00  0.00              
ATOM     30  CA  ILE     8       5.365  30.305  68.679  1.00  0.00              
ATOM     31  C   ILE     8       5.069  30.961  70.028  1.00  0.00              
ATOM     32  O   ILE     8       6.012  31.271  70.772  1.00  0.00              
ATOM     33  N   LEU     9       3.802  31.221  70.318  1.00  0.00              
ATOM     34  CA  LEU     9       3.378  32.025  71.437  1.00  0.00              
ATOM     35  C   LEU     9       2.589  31.252  72.467  1.00  0.00              
ATOM     36  O   LEU     9       1.705  30.448  72.144  1.00  0.00              
ATOM     37  N   VAL    10       2.870  31.554  73.737  1.00  0.00              
ATOM     38  CA  VAL    10       2.121  31.081  74.878  1.00  0.00              
ATOM     39  C   VAL    10       0.780  31.802  74.965  1.00  0.00              
ATOM     40  O   VAL    10       0.597  32.788  75.691  1.00  0.00              
ATOM     41  N   CYS    11      -0.180  31.292  74.215  1.00  0.00              
ATOM     42  CA  CYS    11      -1.472  31.960  74.047  1.00  0.00              
ATOM     43  C   CYS    11      -2.220  32.221  75.371  1.00  0.00              
ATOM     44  O   CYS    11      -2.803  33.294  75.524  1.00  0.00              
ATOM     45  N   PRO    12      -2.225  31.284  76.317  1.00  0.00              
ATOM     46  CA  PRO    12      -2.928  31.512  77.581  1.00  0.00              
ATOM     47  C   PRO    12      -2.211  32.447  78.527  1.00  0.00              
ATOM     48  O   PRO    12      -2.843  32.917  79.480  1.00  0.00              
ATOM     49  N   LEU    13      -0.912  32.656  78.340  1.00  0.00              
ATOM     50  CA  LEU    13      -0.172  33.500  79.245  1.00  0.00              
ATOM     51  C   LEU    13       0.030  32.895  80.629  1.00  0.00              
ATOM     52  O   LEU    13       0.261  33.640  81.598  1.00  0.00              
ATOM     53  N   CYS    14      -0.074  31.570  80.753  1.00  0.00              
ATOM     54  CA  CYS    14       0.070  30.877  82.041  1.00  0.00              
ATOM     55  C   CYS    14       1.463  30.281  82.228  1.00  0.00              
ATOM     56  O   CYS    14       1.702  29.663  83.252  1.00  0.00              
ATOM     57  N   LYS    15       2.397  30.489  81.301  1.00  0.00              
ATOM     58  CA  LYS    15       3.757  30.000  81.458  1.00  0.00              
ATOM     59  C   LYS    15       3.970  28.562  81.059  1.00  0.00              
ATOM     60  O   LYS    15       5.009  27.973  81.356  1.00  0.00              
ATOM     61  N   GLY    16       3.001  27.967  80.398  1.00  0.00              
ATOM     62  CA  GLY    16       3.134  26.606  79.914  1.00  0.00              
ATOM     63  C   GLY    16       4.335  26.467  78.967  1.00  0.00              
ATOM     64  O   GLY    16       4.544  27.291  78.086  1.00  0.00              
ATOM     65  N   PRO    17       5.112  25.406  79.151  1.00  0.00              
ATOM     66  CA  PRO    17       6.314  25.191  78.370  1.00  0.00              
ATOM     67  C   PRO    17       6.000  24.616  76.992  1.00  0.00              
ATOM     68  O   PRO    17       4.978  23.963  76.783  1.00  0.00              
ATOM     69  N   LEU    18       6.920  24.864  76.057  1.00  0.00              
ATOM     70  CA  LEU    18       6.777  24.482  74.658  1.00  0.00              
ATOM     71  C   LEU    18       8.097  23.861  74.207  1.00  0.00              
ATOM     72  O   LEU    18       9.156  24.414  74.475  1.00  0.00              
ATOM     73  N   VAL    19       8.044  22.730  73.511  1.00  0.00              
ATOM     74  CA  VAL    19       9.200  22.059  72.956  1.00  0.00              
ATOM     75  C   VAL    19       8.998  21.945  71.442  1.00  0.00              
ATOM     76  O   VAL    19       7.966  21.453  71.002  1.00  0.00              
ATOM     77  N   PHE    20      10.022  22.343  70.674  1.00  0.00              
ATOM     78  CA  PHE    20       9.952  22.308  69.214  1.00  0.00              
ATOM     79  C   PHE    20      11.179  21.638  68.630  1.00  0.00              
ATOM     80  O   PHE    20      12.310  21.899  69.048  1.00  0.00              
ATOM     81  N   ASP    21      10.965  20.795  67.621  1.00  0.00              
ATOM     82  CA  ASP    21      12.023  20.174  66.831  1.00  0.00              
ATOM     83  C   ASP    21      11.614  20.174  65.366  1.00  0.00              
ATOM     84  O   ASP    21      10.421  20.218  65.046  1.00  0.00              
ATOM     85  N   LYS    22      12.583  20.026  64.469  1.00  0.00              
ATOM     86  CA  LYS    22      12.271  19.649  63.085  1.00  0.00              
ATOM     87  C   LYS    22      11.339  20.621  62.375  1.00  0.00              
ATOM     88  O   LYS    22      10.346  20.217  61.772  1.00  0.00              
ATOM     89  N   MET    45      11.686  21.893  62.449  1.00  0.00              
ATOM     90  CA  MET    45      10.943  22.976  61.836  1.00  0.00              
ATOM     91  C   MET    45      11.387  23.196  60.391  1.00  0.00              
ATOM     92  O   MET    45      12.574  23.461  60.130  1.00  0.00              
ATOM     93  N   LEU    46      10.433  23.098  59.468  1.00  0.00              
ATOM     94  CA  LEU    46      10.676  23.178  58.035  1.00  0.00              
ATOM     95  C   LEU    46       9.605  24.073  57.406  1.00  0.00              
ATOM     96  O   LEU    46       8.427  23.958  57.742  1.00  0.00              
ATOM     97  N   GLU    47       9.998  24.931  56.465  1.00  0.00              
ATOM     98  CA  GLU    47       9.051  25.610  55.598  1.00  0.00              
ATOM     99  C   GLU    47       9.088  24.976  54.215  1.00  0.00              
ATOM    100  O   GLU    47      10.153  24.656  53.701  1.00  0.00              
ATOM    101  N   SER    48       7.923  24.786  53.609  1.00  0.00              
ATOM    102  CA  SER    48       7.816  24.414  52.198  1.00  0.00              
ATOM    103  C   SER    48       7.063  25.511  51.483  1.00  0.00              
ATOM    104  O   SER    48       6.109  26.065  52.010  1.00  0.00              
ATOM    105  N   GLU    49       7.458  25.805  50.243  1.00  0.00              
ATOM    106  CA  GLU    49       6.665  26.691  49.399  1.00  0.00              
ATOM    107  C   GLU    49       5.381  26.048  48.892  1.00  0.00              
ATOM    108  O   GLU    49       4.511  26.749  48.386  1.00  0.00              
ATOM    109  N   ALA    50       5.251  24.737  49.040  1.00  0.00              
ATOM    110  CA  ALA    50       4.068  24.019  48.617  1.00  0.00              
ATOM    111  C   ALA    50       3.077  23.841  49.749  1.00  0.00              
ATOM    112  O   ALA    50       3.317  24.236  50.879  1.00  0.00              
ATOM    113  N   ARG    51       1.959  23.221  49.410  1.00  0.00              
ATOM    114  CA  ARG    51       0.874  23.044  50.367  1.00  0.00              
ATOM    115  C   ARG    51       1.176  21.951  51.373  1.00  0.00              
ATOM    116  O   ARG    51       2.013  21.045  51.152  1.00  0.00              
ATOM    117  N   GLU    52       0.421  21.981  52.462  1.00  0.00              
ATOM    118  CA  GLU    52       0.529  20.930  53.448  1.00  0.00              
ATOM    119  C   GLU    52       0.173  19.573  52.835  1.00  0.00              
ATOM    120  O   GLU    52       0.813  18.567  53.137  1.00  0.00              
ATOM    121  N   LEU    53      -0.855  19.516  51.998  1.00  0.00              
ATOM    122  CA  LEU    53      -1.228  18.242  51.386  1.00  0.00              
ATOM    123  C   LEU    53      -0.144  17.682  50.498  1.00  0.00              
ATOM    124  O   LEU    53      -0.083  16.471  50.309  1.00  0.00              
ATOM    125  N   ALA    54       0.697  18.533  49.926  1.00  0.00              
ATOM    126  CA  ALA    54       1.771  18.108  49.042  1.00  0.00              
ATOM    127  C   ALA    54       3.120  17.930  49.742  1.00  0.00              
ATOM    128  O   ALA    54       4.120  17.665  49.084  1.00  0.00              
ATOM    129  N   PRO    55       3.141  18.075  51.063  1.00  0.00              
ATOM    130  CA  PRO    55       4.393  18.100  51.817  1.00  0.00              
ATOM    131  C   PRO    55       4.952  16.699  52.006  1.00  0.00              
ATOM    132  O   PRO    55       4.256  15.805  52.486  1.00  0.00              
ATOM    133  N   GLU    56       6.204  16.516  51.637  1.00  0.00              
ATOM    134  CA  GLU    56       6.965  15.285  51.892  1.00  0.00              
ATOM    135  C   GLU    56       8.189  15.676  52.731  1.00  0.00              
ATOM    136  O   GLU    56       8.935  16.554  52.352  1.00  0.00              
ATOM    137  N   GLU    57       8.384  15.025  53.879  1.00  0.00              
ATOM    138  CA  GLU    57       9.548  15.372  54.751  1.00  0.00              
ATOM    139  C   GLU    57      10.885  15.366  54.044  1.00  0.00              
ATOM    140  O   GLU    57      11.231  14.375  53.358  1.00  0.00              
ATOM    141  N   GLU    58      11.691  16.405  54.161  1.00  0.00              
ATOM    142  CA  GLU    58      13.049  16.321  53.634  1.00  0.00              
ATOM    143  C   GLU    58      13.897  15.134  54.136  1.00  0.00              
ATOM    144  O   GLU    58      13.821  14.776  55.322  1.00  0.00              
ATOM    145  N   VAL    59      14.707  14.557  53.247  1.00  0.00              
ATOM    146  CA  VAL    59      15.523  13.386  53.602  1.00  0.00              
ATOM    147  C   VAL    59      16.466  13.702  54.758  1.00  0.00              
ATOM    148  O   VAL    59      16.804  12.824  55.555  1.00  0.00              
ATOM    149  N   LYS    60      16.875  14.961  54.875  1.00  0.00              
ATOM    150  CA  LYS    60      17.772  15.353  55.964  1.00  0.00              
ATOM    151  C   LYS    60      17.184  15.165  57.377  1.00  0.00              
ATOM    152  O   LYS    60      17.920  15.122  58.359  1.00  0.00              
ATOM    153  N   LEU    61      15.865  15.082  57.488  1.00  0.00              
ATOM    154  CA  LEU    61      15.198  14.914  58.771  1.00  0.00              
ATOM    155  C   LEU    61      15.359  13.486  59.300  1.00  0.00              
ATOM    156  O   LEU    61      15.211  13.257  60.493  1.00  0.00              
ATOM    157  N   GLU    62      15.667  12.532  58.419  1.00  0.00              
ATOM    158  CA  GLU    62      15.987  11.167  58.852  1.00  0.00              
ATOM    159  C   GLU    62      17.216  11.174  59.768  1.00  0.00              
ATOM    160  O   GLU    62      18.124  11.988  59.614  1.00  0.00              
ATOM    161  N   HIS    63      17.237  10.235  60.706  1.00  0.00              
ATOM    162  CA  HIS    63      18.300  10.154  61.710  1.00  0.00              
ATOM    163  C   HIS    63      19.681  10.098  61.054  1.00  0.00              
ATOM    164  O   HIS    63      20.678  10.582  61.592  1.00  0.00              
ATOM    165  N   HIS    64      19.710   9.480  59.885  1.00  0.00              
ATOM    166  CA  HIS    64      20.763   9.682  58.907  1.00  0.00              
ATOM    167  C   HIS    64      20.041   9.517  57.572  1.00  0.00              
ATOM    168  O   HIS    64      18.821   9.578  57.524  1.00  0.00              
ATOM    169  N   HIS    65      20.775   9.338  56.488  1.00  0.00              
ATOM    170  CA  HIS    65      20.188   8.869  55.224  1.00  0.00              
ATOM    171  C   HIS    65      21.344   8.242  54.490  1.00  0.00              
ATOM    172  O   HIS    65      22.316   8.930  54.157  1.00  0.00              
ATOM    173  N   HIS    66      21.293   6.927  54.315  1.00  0.00              
ATOM    174  CA  HIS    66      22.229   6.253  53.443  1.00  0.00              
ATOM    175  C   HIS    66      21.441   5.794  52.245  1.00  0.00              
ATOM    176  O   HIS    66      20.673   4.837  52.335  1.00  0.00              
ATOM    177  N   HIS    67      21.627   6.480  51.130  1.00  0.00              
ATOM    178  CA  HIS    67      20.790   6.269  49.948  1.00  0.00              
ATOM    179  C   HIS    67      20.980   4.885  49.341  1.00  0.00              
ATOM    180  O   HIS    67      22.124   4.465  49.111  1.00  0.00              
ATOM    181  N   HIS    68      19.864   4.201  49.054  1.00  0.00              
ATOM    182  CA  HIS    68      19.845   2.963  48.272  1.00  0.00              
ATOM    183  C   HIS    68      19.104   3.143  46.960  1.00  0.00              
ATOM    184  O   HIS    68      18.031   3.773  46.918  1.00  0.00              
END
