
#######################################################
#                                                     #
#                        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 T0363AL381_2
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363AL381_2.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      15           -
LGA    -       -      E      16           -
LGA    -       -      I      17           -
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    K      28      L      27          1.855
LGA    S      29      K      28          2.578
LGA    F      30      S      29          1.146
LGA    Q      31      F      30          1.767
LGA    V      32      Q      31          2.946
LGA    D      33      V      32          1.335
LGA    E      34      D      33          1.509
LGA    -       -      E      34           -
LGA    G      35      G      35          2.972
LGA    I      36      I      36          1.388
LGA    T      37      T      37          1.371
LGA    V      38      V      38          0.988
LGA    Q      39      Q      39          1.272
LGA    T      40      T      40          0.337
LGA    A      41      A      41          1.159
LGA    I      42      I      42          1.902
LGA    T      43      T      43          1.401
LGA    Q      44      Q      44          2.743
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    -       -      I      47           -
LGA    S      45      L      48          2.805
LGA    G      46      S      49           #
LGA    I      47      Q      50           -
LGA    L      48      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    S      49      D      55           #
LGA    S      57      L      56          2.080
LGA    T      58      S      57          4.727
LGA    -       -      T      58           -
LGA    N      59      N      59          0.836
LGA    K      60      K      60          2.017
LGA    I      61      I      61          1.103
LGA    G      62      G      62          0.281
LGA    I      63      I      63          1.011
LGA    F      64      F      64          1.384
LGA    S      65      S      65           -
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    R      66      D      78          5.306
LGA    P      67      R      79           -
LGA    I      68      I      80           -
LGA    K      69      E      81           -
LGA    L      70      I      82           -
LGA    T      71      Y      83           -
LGA    D      72      R      84           -
LGA    V      73      P      85           -
LGA    L      74      L      86           -
LGA    K      75      L      87           -
LGA    E      76      A      88           -
LGA    G      77      D      89           -
LGA    D      78      -       -           -
LGA    R      79      -       -           -
LGA    I      80      -       -           -
LGA    E      81      -       -           -
LGA    I      82      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   48   80    5.0     27    2.18    59.26     26.157     1.182

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.682584 * X  +   0.162633 * Y  +  -0.712482 * Z  +  23.795294
  Y_new =   0.697493 * X  +   0.435977 * Y  +  -0.568707 * Z  +   7.300438
  Z_new =   0.218135 * X  +  -0.885141 * Y  +  -0.411026 * Z  +   2.269574 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.005529    1.136063  [ DEG:  -114.9084     65.0916 ]
  Theta =  -0.219903   -2.921690  [ DEG:   -12.5995   -167.4005 ]
  Phi   =   2.345391   -0.796201  [ DEG:   134.3810    -45.6190 ]
 
# 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: T0363AL381_2                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL381_2.T0363.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   48   80   5.0   27   2.18   59.26  26.157
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL381_2
REMARK Aligment from pdb entry: 1rwsA
ATOM      1  N   LYS    28      24.011  17.933  -1.857  1.00  0.00              
ATOM      2  CA  LYS    28      24.065  16.665  -2.626  1.00  0.00              
ATOM      3  C   LYS    28      23.130  15.691  -1.904  1.00  0.00              
ATOM      4  O   LYS    28      23.512  15.188  -0.867  1.00  0.00              
ATOM      5  N   SER    29      21.876  15.573  -2.251  1.00  0.00              
ATOM      6  CA  SER    29      20.977  14.775  -1.351  1.00  0.00              
ATOM      7  C   SER    29      21.734  13.555  -0.818  1.00  0.00              
ATOM      8  O   SER    29      22.863  13.308  -1.189  1.00  0.00              
ATOM      9  N   PHE    30      21.194  12.866   0.170  1.00  0.00              
ATOM     10  CA  PHE    30      22.067  11.842   0.855  1.00  0.00              
ATOM     11  C   PHE    30      21.228  10.795   1.624  1.00  0.00              
ATOM     12  O   PHE    30      20.494  11.207   2.499  1.00  0.00              
ATOM     13  N   GLN    31      21.176   9.505   1.346  1.00  0.00              
ATOM     14  CA  GLN    31      20.237   8.594   2.084  1.00  0.00              
ATOM     15  C   GLN    31      20.488   8.710   3.597  1.00  0.00              
ATOM     16  O   GLN    31      20.670   9.785   4.133  1.00  0.00              
ATOM     17  N   VAL    32      20.498   7.600   4.283  1.00  0.00              
ATOM     18  CA  VAL    32      20.730   7.581   5.762  1.00  0.00              
ATOM     19  C   VAL    32      20.665   6.102   6.164  1.00  0.00              
ATOM     20  O   VAL    32      20.846   5.265   5.302  1.00  0.00              
ATOM     21  N   ASP    33      20.643   5.706   7.419  1.00  0.00              
ATOM     22  CA  ASP    33      20.898   4.243   7.622  1.00  0.00              
ATOM     23  C   ASP    33      20.440   3.665   8.983  1.00  0.00              
ATOM     24  O   ASP    33      19.254   3.682   9.251  1.00  0.00              
ATOM     25  N   GLU    34      21.276   3.086   9.840  1.00  0.00              
ATOM     26  CA  GLU    34      20.700   2.475  11.085  1.00  0.00              
ATOM     27  C   GLU    34      21.832   1.920  11.970  1.00  0.00              
ATOM     28  O   GLU    34      22.533   1.001  11.594  1.00  0.00              
ATOM     29  N   GLY    35      22.043   2.513  13.123  1.00  0.00              
ATOM     30  CA  GLY    35      23.166   2.060  14.007  1.00  0.00              
ATOM     31  C   GLY    35      24.314   3.084  13.965  1.00  0.00              
ATOM     32  O   GLY    35      25.104   3.208  14.881  1.00  0.00              
ATOM     33  N   ILE    36      24.404   3.785  12.875  1.00  0.00              
ATOM     34  CA  ILE    36      25.510   4.800  12.700  1.00  0.00              
ATOM     35  C   ILE    36      25.055   6.017  13.501  1.00  0.00              
ATOM     36  O   ILE    36      24.416   5.948  14.532  1.00  0.00              
ATOM     37  N   THR    37      25.847   6.968  13.233  1.00  0.00              
ATOM     38  CA  THR    37      26.074   8.179  14.055  1.00  0.00              
ATOM     39  C   THR    37      26.364   9.397  13.152  1.00  0.00              
ATOM     40  O   THR    37      26.998   9.238  12.129  1.00  0.00              
ATOM     41  N   VAL    38      26.216  10.617  13.638  1.00  0.00              
ATOM     42  CA  VAL    38      26.867  11.782  12.952  1.00  0.00              
ATOM     43  C   VAL    38      28.324  11.472  12.630  1.00  0.00              
ATOM     44  O   VAL    38      28.766  11.618  11.507  1.00  0.00              
ATOM     45  N   GLN    39      29.110  11.230  13.642  1.00  0.00              
ATOM     46  CA  GLN    39      30.575  11.125  13.453  1.00  0.00              
ATOM     47  C   GLN    39      30.857  10.357  12.164  1.00  0.00              
ATOM     48  O   GLN    39      31.391  10.890  11.212  1.00  0.00              
ATOM     49  N   THR    40      30.453   9.116  12.111  1.00  0.00              
ATOM     50  CA  THR    40      30.668   8.356  10.827  1.00  0.00              
ATOM     51  C   THR    40      30.335   9.217   9.605  1.00  0.00              
ATOM     52  O   THR    40      31.197   9.445   8.780  1.00  0.00              
ATOM     53  N   ALA    41      29.108   9.604   9.383  1.00  0.00              
ATOM     54  CA  ALA    41      28.832  10.325   8.104  1.00  0.00              
ATOM     55  C   ALA    41      29.976  11.315   7.858  1.00  0.00              
ATOM     56  O   ALA    41      30.484  11.464   6.764  1.00  0.00              
ATOM     57  N   ILE    42      30.415  11.918   8.910  1.00  0.00              
ATOM     58  CA  ILE    42      31.581  12.852   8.849  1.00  0.00              
ATOM     59  C   ILE    42      32.845  12.043   8.537  1.00  0.00              
ATOM     60  O   ILE    42      33.650  12.418   7.708  1.00  0.00              
ATOM     61  N   THR    43      32.913  10.854   9.063  1.00  0.00              
ATOM     62  CA  THR    43      33.994   9.900   8.669  1.00  0.00              
ATOM     63  C   THR    43      33.981   9.679   7.154  1.00  0.00              
ATOM     64  O   THR    43      35.018   9.497   6.548  1.00  0.00              
ATOM     65  N   GLN    44      32.836   9.716   6.520  1.00  0.00              
ATOM     66  CA  GLN    44      32.850   9.525   5.022  1.00  0.00              
ATOM     67  C   GLN    44      33.637  10.694   4.425  1.00  0.00              
ATOM     68  O   GLN    44      34.161  10.639   3.331  1.00  0.00              
ATOM     69  N   SER    45      33.832  11.677   5.242  1.00  0.00              
ATOM     70  CA  SER    45      34.721  12.787   4.818  1.00  0.00              
ATOM     71  C   SER    45      36.142  12.418   5.242  1.00  0.00              
ATOM     72  O   SER    45      37.084  13.129   4.952  1.00  0.00              
ATOM     73  N   GLY    46      36.290  11.405   6.058  1.00  0.00              
ATOM     74  CA  GLY    46      37.629  11.125   6.638  1.00  0.00              
ATOM     75  C   GLY    46      37.820  12.195   7.703  1.00  0.00              
ATOM     76  O   GLY    46      38.895  12.727   7.899  1.00  0.00              
ATOM     77  N   ILE    47      36.713  12.634   8.254  1.00  0.00              
ATOM     78  CA  ILE    47      36.703  13.816   9.170  1.00  0.00              
ATOM     79  C   ILE    47      35.539  13.620  10.159  1.00  0.00              
ATOM     80  O   ILE    47      34.455  14.104   9.906  1.00  0.00              
ATOM     81  N   LEU    48      35.795  13.200  11.369  1.00  0.00              
ATOM     82  CA  LEU    48      34.769  13.405  12.441  1.00  0.00              
ATOM     83  C   LEU    48      34.531  14.912  12.604  1.00  0.00              
ATOM     84  O   LEU    48      34.702  15.477  13.666  1.00  0.00              
ATOM     85  N   SER    49      34.359  15.574  11.493  1.00  0.00              
ATOM     86  CA  SER    49      34.367  17.077  11.541  1.00  0.00              
ATOM     87  C   SER    49      35.628  17.548  12.270  1.00  0.00              
ATOM     88  O   SER    49      35.530  17.787  13.458  1.00  0.00              
ATOM     89  N   SER    57      36.783  17.800  11.690  1.00  0.00              
ATOM     90  CA  SER    57      37.852  18.376  12.551  1.00  0.00              
ATOM     91  C   SER    57      37.917  19.873  12.304  1.00  0.00              
ATOM     92  O   SER    57      37.996  20.718  13.174  1.00  0.00              
ATOM     93  N   THR    58      37.875  20.117  11.049  1.00  0.00              
ATOM     94  CA  THR    58      37.920  21.502  10.466  1.00  0.00              
ATOM     95  C   THR    58      36.586  22.250  10.518  1.00  0.00              
ATOM     96  O   THR    58      36.015  22.566   9.493  1.00  0.00              
ATOM     97  N   ASN    59      36.089  22.553  11.686  1.00  0.00              
ATOM     98  CA  ASN    59      34.766  23.267  11.657  1.00  0.00              
ATOM     99  C   ASN    59      33.985  23.223  12.975  1.00  0.00              
ATOM    100  O   ASN    59      34.325  22.535  13.918  1.00  0.00              
ATOM    101  N   LYS    60      32.785  23.726  12.866  1.00  0.00              
ATOM    102  CA  LYS    60      31.720  23.535  13.898  1.00  0.00              
ATOM    103  C   LYS    60      30.526  22.940  13.137  1.00  0.00              
ATOM    104  O   LYS    60      30.347  23.293  11.989  1.00  0.00              
ATOM    105  N   ILE    61      29.753  22.007  13.644  1.00  0.00              
ATOM    106  CA  ILE    61      28.727  21.444  12.716  1.00  0.00              
ATOM    107  C   ILE    61      27.316  21.891  13.117  1.00  0.00              
ATOM    108  O   ILE    61      27.027  22.083  14.282  1.00  0.00              
ATOM    109  N   GLY    62      26.443  22.087  12.168  1.00  0.00              
ATOM    110  CA  GLY    62      25.078  22.553  12.541  1.00  0.00              
ATOM    111  C   GLY    62      24.028  21.948  11.588  1.00  0.00              
ATOM    112  O   GLY    62      23.996  22.329  10.435  1.00  0.00              
ATOM    113  N   ILE    63      23.194  21.001  11.968  1.00  0.00              
ATOM    114  CA  ILE    63      22.226  20.384  11.008  1.00  0.00              
ATOM    115  C   ILE    63      20.841  21.020  11.109  1.00  0.00              
ATOM    116  O   ILE    63      20.400  21.429  12.165  1.00  0.00              
ATOM    117  N   PHE    64      20.230  21.240   9.976  1.00  0.00              
ATOM    118  CA  PHE    64      18.964  22.003   9.955  1.00  0.00              
ATOM    119  C   PHE    64      19.142  23.325  10.707  1.00  0.00              
ATOM    120  O   PHE    64      18.180  23.927  11.142  1.00  0.00              
ATOM    121  N   SER    65      20.337  23.845  10.753  1.00  0.00              
ATOM    122  CA  SER    65      20.435  25.203  11.356  1.00  0.00              
ATOM    123  C   SER    65      20.688  25.109  12.852  1.00  0.00              
ATOM    124  O   SER    65      20.846  26.093  13.548  1.00  0.00              
ATOM    125  N   ARG    66      20.724  23.910  13.334  1.00  0.00              
ATOM    126  CA  ARG    66      20.963  23.660  14.783  1.00  0.00              
ATOM    127  C   ARG    66      22.414  23.239  14.961  1.00  0.00              
ATOM    128  O   ARG    66      23.021  22.641  14.100  1.00  0.00              
ATOM    129  N   PRO    67      22.974  23.651  16.059  1.00  0.00              
ATOM    130  CA  PRO    67      24.426  23.411  16.306  1.00  0.00              
ATOM    131  C   PRO    67      24.632  22.048  16.964  1.00  0.00              
ATOM    132  O   PRO    67      23.726  21.457  17.518  1.00  0.00              
ATOM    133  N   ILE    68      25.822  21.545  16.860  1.00  0.00              
ATOM    134  CA  ILE    68      26.001  20.195  17.471  1.00  0.00              
ATOM    135  C   ILE    68      27.473  19.929  17.860  1.00  0.00              
ATOM    136  O   ILE    68      28.333  20.725  17.537  1.00  0.00              
ATOM    137  N   LYS    69      27.824  18.757  18.354  1.00  0.00              
ATOM    138  CA  LYS    69      29.265  18.393  18.496  1.00  0.00              
ATOM    139  C   LYS    69      29.572  17.267  17.498  1.00  0.00              
ATOM    140  O   LYS    69      28.715  16.863  16.736  1.00  0.00              
ATOM    141  N   LEU    70      30.783  16.730  17.498  1.00  0.00              
ATOM    142  CA  LEU    70      31.274  15.605  16.616  1.00  0.00              
ATOM    143  C   LEU    70      30.472  14.339  16.931  1.00  0.00              
ATOM    144  O   LEU    70      30.271  13.493  16.083  1.00  0.00              
ATOM    145  N   THR    71      30.057  14.183  18.154  1.00  0.00              
ATOM    146  CA  THR    71      29.320  12.943  18.531  1.00  0.00              
ATOM    147  C   THR    71      27.807  13.204  18.592  1.00  0.00              
ATOM    148  O   THR    71      27.028  12.287  18.762  1.00  0.00              
ATOM    149  N   ASP    72      27.374  14.449  18.531  1.00  0.00              
ATOM    150  CA  ASP    72      25.912  14.694  18.680  1.00  0.00              
ATOM    151  C   ASP    72      25.238  14.372  17.350  1.00  0.00              
ATOM    152  O   ASP    72      25.466  15.061  16.376  1.00  0.00              
ATOM    153  N   VAL    73      24.682  13.202  17.204  1.00  0.00              
ATOM    154  CA  VAL    73      24.369  12.735  15.852  1.00  0.00              
ATOM    155  C   VAL    73      23.930  13.861  14.911  1.00  0.00              
ATOM    156  O   VAL    73      23.253  14.789  15.306  1.00  0.00              
ATOM    157  N   LEU    74      23.911  13.490  13.665  1.00  0.00              
ATOM    158  CA  LEU    74      23.097  14.136  12.627  1.00  0.00              
ATOM    159  C   LEU    74      21.936  13.173  12.495  1.00  0.00              
ATOM    160  O   LEU    74      21.816  12.227  13.248  1.00  0.00              
ATOM    161  N   LYS    75      21.146  13.324  11.480  1.00  0.00              
ATOM    162  CA  LYS    75      20.037  12.426  11.091  1.00  0.00              
ATOM    163  C   LYS    75      19.710  12.774   9.640  1.00  0.00              
ATOM    164  O   LYS    75      19.507  13.927   9.318  1.00  0.00              
ATOM    165  N   GLU    76      19.358  11.789   8.882  1.00  0.00              
ATOM    166  CA  GLU    76      18.632  12.127   7.627  1.00  0.00              
ATOM    167  C   GLU    76      19.474  12.408   6.386  1.00  0.00              
ATOM    168  O   GLU    76      18.991  13.020   5.453  1.00  0.00              
ATOM    169  N   GLY    77      20.756  12.202   6.428  1.00  0.00              
ATOM    170  CA  GLY    77      21.583  12.754   5.323  1.00  0.00              
ATOM    171  C   GLY    77      21.966  14.179   5.724  1.00  0.00              
ATOM    172  O   GLY    77      21.802  15.122   4.975  1.00  0.00              
ATOM    173  N   ASP    78      22.610  14.300   6.854  1.00  0.00              
ATOM    174  CA  ASP    78      23.170  15.624   7.272  1.00  0.00              
ATOM    175  C   ASP    78      24.360  15.902   6.357  1.00  0.00              
ATOM    176  O   ASP    78      24.827  14.995   5.697  1.00  0.00              
ATOM    177  N   ARG    79      24.762  17.127   6.135  1.00  0.00              
ATOM    178  CA  ARG    79      25.767  17.226   5.028  1.00  0.00              
ATOM    179  C   ARG    79      27.019  16.841   5.791  1.00  0.00              
ATOM    180  O   ARG    79      26.980  16.222   6.836  1.00  0.00              
ATOM    181  N   ILE    80      27.983  17.637   5.502  1.00  0.00              
ATOM    182  CA  ILE    80      29.164  17.858   6.394  1.00  0.00              
ATOM    183  C   ILE    80      29.683  19.299   6.137  1.00  0.00              
ATOM    184  O   ILE    80      29.929  19.622   4.993  1.00  0.00              
ATOM    185  N   GLU    81      29.995  20.154   7.102  1.00  0.00              
ATOM    186  CA  GLU    81      30.672  21.464   6.817  1.00  0.00              
ATOM    187  C   GLU    81      32.091  21.424   7.394  1.00  0.00              
ATOM    188  O   GLU    81      32.282  21.189   8.571  1.00  0.00              
ATOM    189  N   ILE    82      33.088  21.691   6.590  1.00  0.00              
ATOM    190  CA  ILE    82      34.471  21.705   7.149  1.00  0.00              
ATOM    191  C   ILE    82      35.339  22.778   6.498  1.00  0.00              
ATOM    192  O   ILE    82      35.639  22.734   5.321  1.00  0.00              
END
