
#######################################################
#                                                     #
#                        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  162 (  162),  selected  162 , name T0385TS168_2
# Molecule2: number of CA atoms  142 ( 1050),  selected  142 , name T0385.pdb
# PARAMETERS: T0385TS168_2.T0385.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      S      17           -
LGA    T       2      E      18           -
LGA    S       3      G      19           -
LGA    S       4      S      20           -
LGA    E       5      A      21           -
LGA    P       6      D      22           -
LGA    A       7      N      23           -
LGA    H       8      A      24           -
LGA    G       9      A      25           -
LGA    A      10      L      26           -
LGA    T      11      C      27           -
LGA    P      12      D      28           -
LGA    K      13      A      29           -
LGA    R      14      L      30           -
LGA    S      15      A      31           -
LGA    P      16      -       -           -
LGA    S      17      -       -           -
LGA    E      18      -       -           -
LGA    G      19      -       -           -
LGA    S      20      -       -           -
LGA    A      21      -       -           -
LGA    D      22      -       -           -
LGA    N      23      -       -           -
LGA    A      24      -       -           -
LGA    A      25      -       -           -
LGA    L      26      V      32           #
LGA    C      27      E      33           -
LGA    D      28      H      34           -
LGA    A      29      A      35           -
LGA    L      30      T      36          5.496
LGA    A      31      I      37           -
LGA    -       -      Y      38           -
LGA    V      32      G      39          4.833
LGA    E      33      Y      40          2.584
LGA    H      34      G      41          2.763
LGA    A      35      I      42          1.519
LGA    T      36      V      43          2.063
LGA    I      37      S      44          3.406
LGA    Y      38      A      45          3.166
LGA    G      39      L      46           -
LGA    Y      40      S      47           -
LGA    G      41      P      48           -
LGA    I      42      -       -           -
LGA    V      43      -       -           -
LGA    S      44      -       -           -
LGA    A      45      -       -           -
LGA    L      46      -       -           -
LGA    S      47      -       -           -
LGA    P      48      -       -           -
LGA    P      49      -       -           -
LGA    G      50      -       -           -
LGA    V      51      P      49           #
LGA    N      52      G      50           #
LGA    F      53      -       -           -
LGA    L      54      V      51           #
LGA    V      55      N      52          1.501
LGA    A      56      F      53          5.578
LGA    D      57      L      54           #
LGA    A      58      V      55          2.081
LGA    L      59      A      56          4.669
LGA    K      60      D      57           #
LGA    Q      61      A      58          2.795
LGA    H      62      L      59          4.816
LGA    R      63      -       -           -
LGA    H      64      -       -           -
LGA    R      65      K      60           #
LGA    R      66      Q      61           -
LGA    D      67      -       -           -
LGA    D      68      H      62           #
LGA    V      69      R      63           -
LGA    I      70      H      64           -
LGA    V      71      R      65           -
LGA    M      72      -       -           -
LGA    L      73      -       -           -
LGA    S      74      -       -           -
LGA    A      75      -       -           -
LGA    R      76      -       -           -
LGA    G      77      -       -           -
LGA    V      78      -       -           -
LGA    T      79      -       -           -
LGA    A      80      R      66          1.413
LGA    P      81      D      67          3.177
LGA    I      82      -       -           -
LGA    A      83      -       -           -
LGA    A      84      D      68           #
LGA    A      85      V      69           -
LGA    G      86      I      70           -
LGA    Y      87      V      71           -
LGA    Q      88      M      72           -
LGA    L      89      L      73           -
LGA    P      90      S      74           -
LGA    M      91      A      75           -
LGA    Q      92      R      76           -
LGA    V      93      G      77           -
LGA    S      94      V      78           -
LGA    -       -      T      79           -
LGA    -       -      A      80           -
LGA    -       -      P      81           -
LGA    -       -      I      82           -
LGA    -       -      A      83           -
LGA    -       -      A      84           -
LGA    -       -      A      85           -
LGA    -       -      G      86           -
LGA    -       -      Y      87           -
LGA    -       -      Q      88           -
LGA    -       -      L      89           -
LGA    -       -      P      90           -
LGA    -       -      M      91           -
LGA    -       -      Q      92           -
LGA    -       -      V      93           -
LGA    -       -      S      94           -
LGA    -       -      S      95           -
LGA    -       -      A      96           -
LGA    -       -      A      97           -
LGA    -       -      D      98           -
LGA    S      95      A      99           #
LGA    A      96      A     100          0.288
LGA    A      97      R     101          0.575
LGA    D      98      L     102          1.220
LGA    A      99      A     103          1.056
LGA    A     100      V     104          0.468
LGA    R     101      R     105          1.421
LGA    L     102      M     106          1.906
LGA    A     103      E     107          1.062
LGA    V     104      N     108          1.001
LGA    R     105      D     109          2.221
LGA    M     106      G     110          2.125
LGA    E     107      A     111          1.036
LGA    N     108      T     112          1.766
LGA    D     109      A     113          2.558
LGA    G     110      W     114          1.834
LGA    A     111      R     115          1.054
LGA    T     112      A     116          1.976
LGA    A     113      V     117          1.882
LGA    W     114      V     118          0.888
LGA    R     115      E     119          1.593
LGA    A     116      H     120          2.406
LGA    V     117      A     121          1.542
LGA    V     118      -       -           -
LGA    E     119      -       -           -
LGA    H     120      E     122          1.903
LGA    A     121      T     123          4.927
LGA    E     122      A     124          3.489
LGA    T     123      D     125          5.732
LGA    -       -      D     126           -
LGA    A     124      R     127          2.501
LGA    -       -      V     128           -
LGA    -       -      F     129           -
LGA    -       -      A     130           -
LGA    D     125      S     131          1.041
LGA    D     126      T     132          1.510
LGA    R     127      A     133          1.550
LGA    V     128      L     134          0.909
LGA    F     129      T     135          0.949
LGA    A     130      E     136          1.032
LGA    S     131      S     137          0.837
LGA    T     132      A     138          0.785
LGA    A     133      V     139          0.751
LGA    L     134      M     140          0.748
LGA    T     135      A     141          0.780
LGA    E     136      T     142          1.115
LGA    S     137      R     143          1.146
LGA    A     138      W     144          1.166
LGA    V     139      N     145          1.192
LGA    M     140      R     146          1.436
LGA    A     141      V     147          1.193
LGA    T     142      L     148          0.933
LGA    R     143      G     149          1.070
LGA    W     144      A     150          1.048
LGA    N     145      W     151          1.142
LGA    R     146      P     152          2.608
LGA    V     147      I     153          2.009
LGA    L     148      T     154           #
LGA    G     149      -       -           -
LGA    A     150      A     155          1.137
LGA    W     151      A     156          2.080
LGA    P     152      F     157          3.280
LGA    I     153      P     158           -
LGA    T     154      -       -           -
LGA    A     155      -       -           -
LGA    A     156      -       -           -
LGA    F     157      -       -           -
LGA    P     158      -       -           -
LGA    G     159      -       -           -
LGA    G     160      -       -           -
LGA    D     161      -       -           -
LGA    E     162      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  162  142    5.0     69    2.36     7.25     40.157     2.804

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.464387 * X  +   0.885292 * Y  +  -0.024565 * Z  +  21.309050
  Y_new =  -0.484179 * X  +   0.277010 * Y  +   0.829962 * Z  +  14.683027
  Z_new =   0.741563 * X  +  -0.373530 * Y  +   0.557279 * Z  +  15.955344 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.590496    2.551097  [ DEG:   -33.8329    146.1671 ]
  Theta =  -0.835397   -2.306195  [ DEG:   -47.8647   -132.1353 ]
  Phi   =  -0.806260    2.335332  [ DEG:   -46.1953    133.8047 ]
 
# 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: T0385TS168_2                                  
REMARK     2: T0385.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0385TS168_2.T0385.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  162  142   5.0   69   2.36    7.25  40.157
REMARK  ---------------------------------------------------------- 
MOLECULE T0385TS168_2
PFRMAT TS
TARGET T0385
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      14.474  12.278 -12.121  1.00 25.00           C
ATOM      2  CA  THR     2      12.551   8.955 -12.076  1.00 25.00           C
ATOM      3  CA  SER     3      10.810   5.650 -11.574  1.00 25.00           C
ATOM      4  CA  SER     4      10.850   2.231  -9.947  1.00 25.00           C
ATOM      5  CA  GLU     5      13.258   3.243  -7.222  1.00 25.00           C
ATOM      6  CA  PRO     6      15.759   1.585  -4.829  1.00 25.00           C
ATOM      7  CA  ALA     7      12.862   0.990  -2.349  1.00 25.00           C
ATOM      8  CA  HIS     8      10.520   2.172   0.460  1.00 25.00           C
ATOM      9  CA  GLY     9       9.870  -1.148   2.263  1.00 25.00           C
ATOM     10  CA  ALA    10       6.795  -1.170   4.465  1.00 25.00           C
ATOM     11  CA  THR    11       5.803   1.606   6.880  1.00 25.00           C
ATOM     12  CA  PRO    12       2.294   2.837   7.790  1.00 25.00           C
ATOM     13  CA  LYS    13       0.720   5.640   9.814  1.00 25.00           C
ATOM     14  CA  ARG    14      -0.270   9.256  10.644  1.00 25.00           C
ATOM     15  CA  SER    15       1.943   8.655  13.696  1.00 25.00           C
ATOM     16  CA  PRO    16      -0.232  11.380  15.209  1.00 25.00           C
ATOM     17  CA  SER    17       0.500   9.842  18.557  1.00 25.00           C
ATOM     18  CA  GLU    18      -0.256   6.716  20.519  1.00 25.00           C
ATOM     19  CA  GLY    19       3.043   7.316  22.318  1.00 25.00           C
ATOM     20  CA  SER    20       5.204   6.742  25.398  1.00 25.00           C
ATOM     21  CA  ALA    21       8.511   8.095  24.237  1.00 25.00           C
ATOM     22  CA  ASP    22      11.594  10.094  25.316  1.00 25.00           C
ATOM     23  CA  ASN    23      13.644   6.865  25.523  1.00 25.00           C
ATOM     24  CA  ALA    24      12.466   5.862  22.021  1.00 25.00           C
ATOM     25  CA  ALA    25      13.442   9.313  20.677  1.00 25.00           C
ATOM     26  CA  LEU    26      16.898   8.992  22.295  1.00 25.00           C
ATOM     27  CA  CYS    27      17.338   5.527  20.725  1.00 25.00           C
ATOM     28  CA  ASP    28      16.346   6.926  17.300  1.00 25.00           C
ATOM     29  CA  ALA    29      18.868   9.779  17.707  1.00 25.00           C
ATOM     30  CA  LEU    30      21.601   7.264  18.638  1.00 25.00           C
ATOM     31  CA  ALA    31      20.748   5.158  15.555  1.00 25.00           C
ATOM     32  CA  VAL    32      20.927   8.279  13.343  1.00 25.00           C
ATOM     33  CA  GLU    33      24.336   9.174  14.842  1.00 25.00           C
ATOM     34  CA  HIS    34      25.589   5.616  14.181  1.00 25.00           C
ATOM     35  CA  ALA    35      24.362   5.831  10.559  1.00 25.00           C
ATOM     36  CA  THR    36      26.152   9.189  10.125  1.00 25.00           C
ATOM     37  CA  ILE    37      29.374   7.682  11.546  1.00 25.00           C
ATOM     38  CA  TYR    38      29.082   4.722   9.134  1.00 25.00           C
ATOM     39  CA  GLY    39      32.744   5.886   8.966  1.00 25.00           C
ATOM     40  CA  TYR    40      34.243   6.539  12.430  1.00 25.00           C
ATOM     41  CA  GLY    41      32.952   7.025  16.022  1.00 25.00           C
ATOM     42  CA  ILE    42      35.527   9.637  16.914  1.00 25.00           C
ATOM     43  CA  VAL    43      35.498  13.175  18.459  1.00 25.00           C
ATOM     44  CA  SER    44      35.960  16.765  17.191  1.00 25.00           C
ATOM     45  CA  ALA    45      33.692  19.580  16.204  1.00 25.00           C
ATOM     46  CA  LEU    46      36.431  21.644  14.464  1.00 25.00           C
ATOM     47  CA  SER    47      37.243  21.419  10.756  1.00 25.00           C
ATOM     48  CA  PRO    48      40.099  20.741   8.336  1.00 25.00           C
ATOM     49  CA  PRO    49      40.551  20.115   4.670  1.00 25.00           C
ATOM     50  CA  GLY    50      39.956  18.085   1.531  1.00 25.00           C
ATOM     51  CA  VAL    51      36.159  18.551   1.348  1.00 25.00           C
ATOM     52  CA  ASN    52      35.655  14.766   1.642  1.00 25.00           C
ATOM     53  CA  PHE    53      37.978  14.669   4.687  1.00 25.00           C
ATOM     54  CA  LEU    54      36.025  17.542   6.298  1.00 25.00           C
ATOM     55  CA  VAL    55      32.731  15.695   5.658  1.00 25.00           C
ATOM     56  CA  ALA    56      34.178  12.518   7.231  1.00 25.00           C
ATOM     57  CA  ASP    57      35.319  14.523  10.289  1.00 25.00           C
ATOM     58  CA  ALA    58      31.826  16.058  10.617  1.00 25.00           C
ATOM     59  CA  LEU    59      30.249  12.574  10.408  1.00 25.00           C
ATOM     60  CA  LYS    60      32.640  11.304  13.117  1.00 25.00           C
ATOM     61  CA  GLN    61      31.737  14.283  15.348  1.00 25.00           C
ATOM     62  CA  HIS    62      28.010  13.573  14.828  1.00 25.00           C
ATOM     63  CA  ARG    63      28.557   9.894  15.741  1.00 25.00           C
ATOM     64  CA  HIS    64      30.444  10.936  18.906  1.00 25.00           C
ATOM     65  CA  ARG    65      27.592  13.307  19.857  1.00 25.00           C
ATOM     66  CA  ARG    66      25.046  10.497  19.325  1.00 25.00           C
ATOM     67  CA  ASP    67      27.133   8.156  21.522  1.00 25.00           C
ATOM     68  CA  ASP    68      27.305  10.834  24.255  1.00 25.00           C
ATOM     69  CA  VAL    69      23.508  11.300  24.072  1.00 25.00           C
ATOM     70  CA  ILE    70      23.005   7.514  24.367  1.00 25.00           C
ATOM     71  CA  VAL    71      25.326   7.418  27.410  1.00 25.00           C
ATOM     72  CA  MET    72      23.373  10.290  29.022  1.00 25.00           C
ATOM     73  CA  LEU    73      20.080   8.444  28.382  1.00 25.00           C
ATOM     74  CA  SER    74      21.527   5.266  29.956  1.00 25.00           C
ATOM     75  CA  ALA    75      22.669   7.271  33.013  1.00 25.00           C
ATOM     76  CA  ARG    76      25.615   4.824  32.948  1.00 25.00           C
ATOM     77  CA  GLY    77      28.717   3.961  30.889  1.00 25.00           C
ATOM     78  CA  VAL    78      31.139   6.870  30.128  1.00 25.00           C
ATOM     79  CA  THR    79      33.721   9.626  30.649  1.00 25.00           C
ATOM     80  CA  ALA    80      32.569  12.481  28.413  1.00 25.00           C
ATOM     81  CA  PRO    81      35.323  12.885  25.782  1.00 25.00           C
ATOM     82  CA  ILE    82      32.694  13.675  23.113  1.00 25.00           C
ATOM     83  CA  ALA    83      31.097  16.280  25.423  1.00 25.00           C
ATOM     84  CA  ALA    84      34.526  17.869  26.043  1.00 25.00           C
ATOM     85  CA  ALA    85      36.180  18.187  22.656  1.00 25.00           C
ATOM     86  CA  GLY    86      38.688  20.366  20.774  1.00 25.00           C
ATOM     87  CA  TYR    87      35.724  22.643  20.150  1.00 25.00           C
ATOM     88  CA  GLN    88      36.606  26.297  19.465  1.00 25.00           C
ATOM     89  CA  LEU    89      34.165  28.112  17.102  1.00 25.00           C
ATOM     90  CA  PRO    90      32.060  25.021  16.233  1.00 25.00           C
ATOM     91  CA  MET    91      28.816  25.417  14.268  1.00 25.00           C
ATOM     92  CA  GLN    92      29.152  22.024  12.495  1.00 25.00           C
ATOM     93  CA  VAL    93      28.714  19.048  14.824  1.00 25.00           C
ATOM     94  CA  SER    94      26.200  17.997  12.158  1.00 25.00           C
ATOM     95  CA  SER    95      24.229  16.362   9.385  1.00 25.00           C
ATOM     96  CA  ALA    96      20.496  16.232   9.850  1.00 25.00           C
ATOM     97  CA  ALA    97      17.668  15.339  12.273  1.00 25.00           C
ATOM     98  CA  ASP    98      19.956  12.844  14.063  1.00 25.00           C
ATOM     99  CA  ALA    99      22.688  15.513  14.347  1.00 25.00           C
ATOM    100  CA  ALA   100      20.149  17.992  15.788  1.00 25.00           C
ATOM    101  CA  ARG   101      18.997  15.371  18.333  1.00 25.00           C
ATOM    102  CA  LEU   102      22.634  14.713  19.337  1.00 25.00           C
ATOM    103  CA  ALA   103      23.220  18.472  19.772  1.00 25.00           C
ATOM    104  CA  VAL   104      20.078  18.736  21.945  1.00 25.00           C
ATOM    105  CA  ARG   105      21.281  15.795  24.083  1.00 25.00           C
ATOM    106  CA  MET   106      24.703  17.463  24.497  1.00 25.00           C
ATOM    107  CA  GLU   107      23.009  20.735  25.544  1.00 25.00           C
ATOM    108  CA  ASN   108      20.873  18.840  28.097  1.00 25.00           C
ATOM    109  CA  ASP   109      24.006  17.137  29.492  1.00 25.00           C
ATOM    110  CA  GLY   110      25.751  20.534  29.784  1.00 25.00           C
ATOM    111  CA  ALA   111      22.710  21.967  31.616  1.00 25.00           C
ATOM    112  CA  THR   112      22.718  18.983  34.016  1.00 25.00           C
ATOM    113  CA  ALA   113      26.455  19.496  34.680  1.00 25.00           C
ATOM    114  CA  TRP   114      25.847  23.212  35.378  1.00 25.00           C
ATOM    115  CA  ARG   115      23.019  22.319  37.801  1.00 25.00           C
ATOM    116  CA  ALA   116      25.307  19.823  39.590  1.00 25.00           C
ATOM    117  CA  VAL   117      28.038  22.494  39.875  1.00 25.00           C
ATOM    118  CA  VAL   118      25.498  24.972  41.315  1.00 25.00           C
ATOM    119  CA  GLU   119      24.347  22.351  43.860  1.00 25.00           C
ATOM    120  CA  HIS   120      27.984  21.692  44.864  1.00 25.00           C
ATOM    121  CA  ALA   121      28.570  25.453  45.300  1.00 25.00           C
ATOM    122  CA  GLU   122      29.836  26.715  41.958  1.00 25.00           C
ATOM    123  CA  THR   123      29.702  26.938  38.197  1.00 25.00           C
ATOM    124  CA  ALA   124      29.928  26.387  34.399  1.00 25.00           C
ATOM    125  CA  ASP   125      28.438  26.387  30.862  1.00 25.00           C
ATOM    126  CA  ASP   126      30.893  26.586  27.930  1.00 25.00           C
ATOM    127  CA  ARG   127      30.078  22.969  26.970  1.00 25.00           C
ATOM    128  CA  VAL   128      26.332  23.755  27.097  1.00 25.00           C
ATOM    129  CA  PHE   129      26.876  26.827  24.875  1.00 25.00           C
ATOM    130  CA  ALA   130      28.860  24.703  22.381  1.00 25.00           C
ATOM    131  CA  SER   131      26.054  22.097  22.331  1.00 25.00           C
ATOM    132  CA  THR   132      23.471  24.854  21.704  1.00 25.00           C
ATOM    133  CA  ALA   133      25.601  26.231  18.834  1.00 25.00           C
ATOM    134  CA  LEU   134      25.871  22.724  17.320  1.00 25.00           C
ATOM    135  CA  THR   135      22.073  22.293  17.577  1.00 25.00           C
ATOM    136  CA  GLU   136      21.550  25.679  15.864  1.00 25.00           C
ATOM    137  CA  SER   137      23.955  24.661  13.063  1.00 25.00           C
ATOM    138  CA  ALA   138      22.071  21.358  12.611  1.00 25.00           C
ATOM    139  CA  VAL   139      18.746  23.250  12.431  1.00 25.00           C
ATOM    140  CA  MET   140      20.212  25.625   9.808  1.00 25.00           C
ATOM    141  CA  ALA   141      21.455  22.636   7.760  1.00 25.00           C
ATOM    142  CA  THR   142      17.984  21.028   7.956  1.00 25.00           C
ATOM    143  CA  ARG   143      16.374  24.303   6.797  1.00 25.00           C
ATOM    144  CA  TRP   144      18.830  24.502   3.865  1.00 25.00           C
ATOM    145  CA  ASN   145      18.014  20.886   2.905  1.00 25.00           C
ATOM    146  CA  ARG   146      14.354  21.840   2.499  1.00 25.00           C
ATOM    147  CA  VAL   147      10.645  22.182   3.397  1.00 25.00           C
ATOM    148  CA  LEU   148       9.107  20.734   6.567  1.00 25.00           C
ATOM    149  CA  GLY   149       5.632  20.777   5.090  1.00 25.00           C
ATOM    150  CA  ALA   150       5.827  17.031   4.213  1.00 25.00           C
ATOM    151  CA  TRP   151       3.866  14.434   2.254  1.00 25.00           C
ATOM    152  CA  PRO   152       2.330  17.517   0.631  1.00 25.00           C
ATOM    153  CA  ILE   153       0.112  17.262  -2.512  1.00 25.00           C
ATOM    154  CA  THR   154      -3.658  17.805  -2.638  1.00 25.00           C
ATOM    155  CA  ALA   155      -6.310  16.308  -4.888  1.00 25.00           C
ATOM    156  CA  ALA   156      -9.703  16.102  -3.212  1.00 25.00           C
ATOM    157  CA  PHE   157      -8.976  12.381  -3.152  1.00 25.00           C
ATOM    158  CA  PRO   158     -12.175  11.383  -4.905  1.00 25.00           C
ATOM    159  CA  GLY   159     -12.651   7.612  -4.609  1.00 25.00           C
ATOM    160  CA  GLY   160     -11.237   4.941  -6.875  1.00 25.00           C
ATOM    161  CA  ASP   161     -10.404   1.309  -5.898  1.00 25.00           C
ATOM    162  CA  GLU   162      -6.839   1.810  -4.634  1.00 25.00           C
TER
END
