
#######################################################
#                                                     #
#                        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 T0385TS393_5
# Molecule2: number of CA atoms  142 ( 1050),  selected  142 , name T0385.pdb
# PARAMETERS: T0385TS393_5.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      V      32           -
LGA    S      17      E      33           -
LGA    E      18      H      34           -
LGA    G      19      A      35           -
LGA    S      20      T      36           -
LGA    A      21      I      37           -
LGA    D      22      Y      38           -
LGA    N      23      G      39           -
LGA    A      24      Y      40           -
LGA    A      25      G      41           -
LGA    L      26      -       -           -
LGA    C      27      I      42          3.610
LGA    D      28      -       -           -
LGA    A      29      V      43           #
LGA    L      30      S      44          3.740
LGA    A      31      A      45          4.819
LGA    -       -      L      46           -
LGA    -       -      S      47           -
LGA    -       -      P      48           -
LGA    -       -      P      49           -
LGA    -       -      G      50           -
LGA    -       -      V      51           -
LGA    V      32      N      52          3.570
LGA    E      33      F      53           #
LGA    H      34      L      54          5.535
LGA    A      35      V      55          4.932
LGA    T      36      A      56          3.720
LGA    I      37      D      57          2.113
LGA    Y      38      -       -           -
LGA    G      39      -       -           -
LGA    Y      40      -       -           -
LGA    G      41      -       -           -
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      -       -           -
LGA    N      52      -       -           -
LGA    F      53      -       -           -
LGA    L      54      -       -           -
LGA    V      55      -       -           -
LGA    A      56      -       -           -
LGA    D      57      -       -           -
LGA    A      58      -       -           -
LGA    L      59      -       -           -
LGA    K      60      -       -           -
LGA    Q      61      A      58          2.183
LGA    H      62      L      59          3.151
LGA    R      63      K      60          1.830
LGA    H      64      Q      61          4.774
LGA    R      65      H      62           #
LGA    R      66      -       -           -
LGA    D      67      R      63          4.959
LGA    D      68      H      64           -
LGA    V      69      R      65           -
LGA    I      70      R      66           -
LGA    -       -      D      67           -
LGA    -       -      D      68           -
LGA    -       -      V      69           -
LGA    -       -      I      70           -
LGA    -       -      V      71           -
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           -
LGA    -       -      P      81           -
LGA    -       -      I      82           -
LGA    V      71      A      83           #
LGA    M      72      A      84           -
LGA    L      73      -       -           -
LGA    S      74      A      85          3.446
LGA    A      75      G      86          1.813
LGA    R      76      -       -           -
LGA    G      77      -       -           -
LGA    V      78      Y      87          0.840
LGA    T      79      Q      88          2.937
LGA    A      80      -       -           -
LGA    P      81      -       -           -
LGA    I      82      L      89           #
LGA    A      83      P      90           #
LGA    A      84      M      91           -
LGA    A      85      Q      92           -
LGA    G      86      V      93           -
LGA    Y      87      S      94           -
LGA    Q      88      S      95           -
LGA    L      89      A      96           -
LGA    P      90      A      97           -
LGA    M      91      D      98           -
LGA    Q      92      -       -           -
LGA    V      93      -       -           -
LGA    S      94      -       -           -
LGA    S      95      A      99          4.219
LGA    A      96      A     100          2.253
LGA    A      97      R     101          2.232
LGA    D      98      L     102          2.818
LGA    A      99      A     103          2.014
LGA    A     100      V     104          0.636
LGA    R     101      R     105          1.471
LGA    L     102      M     106          1.253
LGA    A     103      E     107          0.654
LGA    V     104      N     108          0.610
LGA    R     105      D     109          0.694
LGA    M     106      G     110          0.592
LGA    E     107      A     111          1.370
LGA    N     108      T     112          1.477
LGA    D     109      A     113          0.828
LGA    G     110      W     114          1.652
LGA    A     111      R     115          2.128
LGA    T     112      A     116          1.340
LGA    A     113      V     117          1.772
LGA    W     114      V     118          2.796
LGA    R     115      E     119          2.566
LGA    A     116      H     120          2.244
LGA    V     117      A     121          1.950
LGA    V     118      E     122          3.041
LGA    E     119      -       -           -
LGA    H     120      -       -           -
LGA    A     121      T     123          2.913
LGA    E     122      A     124          3.515
LGA    T     123      D     125          3.067
LGA    -       -      D     126           -
LGA    A     124      R     127          2.065
LGA    D     125      V     128          5.068
LGA    -       -      F     129           -
LGA    -       -      A     130           -
LGA    D     126      S     131          3.832
LGA    R     127      T     132          3.872
LGA    V     128      A     133          3.225
LGA    F     129      L     134          2.371
LGA    A     130      T     135          2.373
LGA    S     131      E     136          2.035
LGA    T     132      S     137          1.487
LGA    A     133      A     138          1.020
LGA    L     134      V     139          0.732
LGA    T     135      M     140          0.775
LGA    E     136      A     141          0.400
LGA    S     137      T     142          0.450
LGA    A     138      R     143          0.617
LGA    V     139      W     144          1.505
LGA    M     140      N     145          1.448
LGA    A     141      R     146          1.673
LGA    T     142      V     147          2.340
LGA    R     143      L     148          2.948
LGA    W     144      G     149          3.383
LGA    N     145      A     150          3.836
LGA    R     146      W     151          4.956
LGA    V     147      P     152           #
LGA    L     148      I     153           -
LGA    G     149      T     154           -
LGA    A     150      A     155           -
LGA    W     151      A     156           -
LGA    P     152      F     157           -
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     67    2.77     7.46     31.005     2.335

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.474718 * X  +   0.162665 * Y  +  -0.864976 * Z  +  26.831970
  Y_new =   0.483992 * X  +   0.772593 * Y  +   0.410917 * Z  +  15.469803
  Z_new =   0.735116 * X  +  -0.613711 * Y  +   0.288035 * Z  +  13.218591 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.131981    2.009611  [ DEG:   -64.8578    115.1422 ]
  Theta =  -0.825837   -2.315755  [ DEG:   -47.3170   -132.6830 ]
  Phi   =   0.795071   -2.346521  [ DEG:    45.5542   -134.4458 ]
 
# 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: T0385TS393_5                                  
REMARK     2: T0385.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0385TS393_5.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   67   2.77    7.46  31.005
REMARK  ---------------------------------------------------------- 
MOLECULE T0385TS393_5
PFRMAT TS
TARGET T0385
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      40.509  23.645  -8.675  1.00 25.00           C
ATOM      2  CA  THR     2      41.842  21.239  -6.035  1.00 25.00           C
ATOM      3  CA  SER     3      42.952  18.390  -8.392  1.00 25.00           C
ATOM      4  CA  SER     4      43.864  14.747  -7.614  1.00 25.00           C
ATOM      5  CA  GLU     5      42.831  11.263  -8.529  1.00 25.00           C
ATOM      6  CA  PRO     6      42.990  10.049  -4.882  1.00 25.00           C
ATOM      7  CA  ALA     7      39.541   8.467  -5.122  1.00 25.00           C
ATOM      8  CA  HIS     8      36.577   6.166  -4.493  1.00 25.00           C
ATOM      9  CA  GLY     9      34.628   5.186  -7.538  1.00 25.00           C
ATOM     10  CA  ALA    10      32.982   1.786  -7.789  1.00 25.00           C
ATOM     11  CA  THR    11      29.451   3.201  -8.251  1.00 25.00           C
ATOM     12  CA  PRO    12      26.407   0.908  -8.531  1.00 25.00           C
ATOM     13  CA  LYS    13      23.717   2.449 -10.833  1.00 25.00           C
ATOM     14  CA  ARG    14      19.929   2.139 -10.541  1.00 25.00           C
ATOM     15  CA  SER    15      17.392   4.197  -8.588  1.00 25.00           C
ATOM     16  CA  PRO    16      13.789   3.943  -7.466  1.00 25.00           C
ATOM     17  CA  SER    17      14.211   1.521  -4.544  1.00 25.00           C
ATOM     18  CA  GLU    18      15.319  -0.674  -1.661  1.00 25.00           C
ATOM     19  CA  GLY    19      14.806  -0.572   2.124  1.00 25.00           C
ATOM     20  CA  SER    20      12.806   2.704   1.801  1.00 25.00           C
ATOM     21  CA  ALA    21      15.844   4.235   3.581  1.00 25.00           C
ATOM     22  CA  ASP    22      15.466   7.907   4.599  1.00 25.00           C
ATOM     23  CA  ASN    23      16.625   7.067   8.152  1.00 25.00           C
ATOM     24  CA  ALA    24      19.661   5.204   6.747  1.00 25.00           C
ATOM     25  CA  ALA    25      20.510   8.209   4.530  1.00 25.00           C
ATOM     26  CA  LEU    26      20.240  10.546   7.552  1.00 25.00           C
ATOM     27  CA  CYS    27      22.548   8.246   9.567  1.00 25.00           C
ATOM     28  CA  ASP    28      25.078   8.226   6.693  1.00 25.00           C
ATOM     29  CA  ALA    29      24.955  12.050   6.524  1.00 25.00           C
ATOM     30  CA  LEU    30      25.528  12.260  10.304  1.00 25.00           C
ATOM     31  CA  ALA    31      28.514   9.880  10.008  1.00 25.00           C
ATOM     32  CA  VAL    32      29.965  12.014   7.178  1.00 25.00           C
ATOM     33  CA  GLU    33      29.538  15.170   9.304  1.00 25.00           C
ATOM     34  CA  HIS    34      31.297  13.457  12.244  1.00 25.00           C
ATOM     35  CA  ALA    35      34.176  12.415   9.944  1.00 25.00           C
ATOM     36  CA  THR    36      34.478  16.007   8.651  1.00 25.00           C
ATOM     37  CA  ILE    37      34.557  17.320  12.248  1.00 25.00           C
ATOM     38  CA  TYR    38      37.289  14.789  13.139  1.00 25.00           C
ATOM     39  CA  GLY    39      39.311  16.342  15.976  1.00 25.00           C
ATOM     40  CA  TYR    40      38.354  16.693  19.681  1.00 25.00           C
ATOM     41  CA  GLY    41      37.519  17.637  23.270  1.00 25.00           C
ATOM     42  CA  ILE    42      34.540  15.259  23.332  1.00 25.00           C
ATOM     43  CA  VAL    43      31.937  17.902  24.035  1.00 25.00           C
ATOM     44  CA  SER    44      29.879  21.040  24.304  1.00 25.00           C
ATOM     45  CA  ALA    45      32.072  24.112  23.961  1.00 25.00           C
ATOM     46  CA  LEU    46      32.333  27.849  23.531  1.00 25.00           C
ATOM     47  CA  SER    47      29.440  30.294  22.875  1.00 25.00           C
ATOM     48  CA  PRO    48      31.698  31.354  19.958  1.00 25.00           C
ATOM     49  CA  PRO    49      34.625  33.652  20.744  1.00 25.00           C
ATOM     50  CA  GLY    50      35.865  34.042  17.139  1.00 25.00           C
ATOM     51  CA  VAL    51      36.625  31.955  14.020  1.00 25.00           C
ATOM     52  CA  ASN    52      39.044  29.776  16.038  1.00 25.00           C
ATOM     53  CA  PHE    53      36.377  29.277  18.741  1.00 25.00           C
ATOM     54  CA  LEU    54      33.819  28.285  16.069  1.00 25.00           C
ATOM     55  CA  VAL    55      36.308  25.785  14.580  1.00 25.00           C
ATOM     56  CA  ALA    56      36.935  24.302  18.055  1.00 25.00           C
ATOM     57  CA  ASP    57      33.163  23.974  18.623  1.00 25.00           C
ATOM     58  CA  ALA    58      32.779  22.227  15.236  1.00 25.00           C
ATOM     59  CA  LEU    59      35.620  19.818  16.129  1.00 25.00           C
ATOM     60  CA  LYS    60      33.951  19.057  19.491  1.00 25.00           C
ATOM     61  CA  GLN    61      30.624  18.386  17.716  1.00 25.00           C
ATOM     62  CA  HIS    62      32.382  16.037  15.256  1.00 25.00           C
ATOM     63  CA  ARG    63      34.033  14.181  18.171  1.00 25.00           C
ATOM     64  CA  HIS    64      30.635  13.832  19.904  1.00 25.00           C
ATOM     65  CA  ARG    65      29.100  12.466  16.673  1.00 25.00           C
ATOM     66  CA  ARG    66      31.964   9.946  16.347  1.00 25.00           C
ATOM     67  CA  ASP    67      31.440   8.843  19.977  1.00 25.00           C
ATOM     68  CA  ASP    68      27.691   8.403  19.327  1.00 25.00           C
ATOM     69  CA  VAL    69      28.452   6.314  16.209  1.00 25.00           C
ATOM     70  CA  ILE    70      30.870   4.136  18.227  1.00 25.00           C
ATOM     71  CA  VAL    71      28.204   3.637  20.930  1.00 25.00           C
ATOM     72  CA  MET    72      25.645   2.645  18.258  1.00 25.00           C
ATOM     73  CA  LEU    73      28.135   0.145  16.768  1.00 25.00           C
ATOM     74  CA  SER    74      28.762  -1.338  20.243  1.00 25.00           C
ATOM     75  CA  ALA    75      24.990  -1.667  20.811  1.00 25.00           C
ATOM     76  CA  ARG    76      23.028  -1.662  17.545  1.00 25.00           C
ATOM     77  CA  GLY    77      19.850  -0.839  19.411  1.00 25.00           C
ATOM     78  CA  VAL    78      21.512   2.102  21.264  1.00 25.00           C
ATOM     79  CA  THR    79      18.423   2.163  23.473  1.00 25.00           C
ATOM     80  CA  ALA    80      19.271   5.692  24.620  1.00 25.00           C
ATOM     81  CA  PRO    81      23.101   5.685  24.640  1.00 25.00           C
ATOM     82  CA  ILE    82      23.146   7.883  21.504  1.00 25.00           C
ATOM     83  CA  ALA    83      20.684  10.315  23.144  1.00 25.00           C
ATOM     84  CA  ALA    84      22.877  10.459  26.280  1.00 25.00           C
ATOM     85  CA  ALA    85      25.531  12.852  27.727  1.00 25.00           C
ATOM     86  CA  GLY    86      28.131  10.509  29.233  1.00 25.00           C
ATOM     87  CA  TYR    87      26.664   7.256  27.965  1.00 25.00           C
ATOM     88  CA  GLN    88      29.363   4.852  29.105  1.00 25.00           C
ATOM     89  CA  LEU    89      31.485   6.810  26.647  1.00 25.00           C
ATOM     90  CA  PRO    90      30.600  10.033  24.880  1.00 25.00           C
ATOM     91  CA  MET    91      27.545  11.582  23.202  1.00 25.00           C
ATOM     92  CA  GLN    92      24.651  12.756  21.078  1.00 25.00           C
ATOM     93  CA  VAL    93      24.417  13.822  17.384  1.00 25.00           C
ATOM     94  CA  SER    94      24.846  15.275  13.908  1.00 25.00           C
ATOM     95  CA  SER    95      22.011  15.685  11.349  1.00 25.00           C
ATOM     96  CA  ALA    96      18.294  15.759  10.372  1.00 25.00           C
ATOM     97  CA  ALA    97      15.496  16.803  12.769  1.00 25.00           C
ATOM     98  CA  ASP    98      16.163  13.713  14.931  1.00 25.00           C
ATOM     99  CA  ALA    99      19.900  14.542  15.005  1.00 25.00           C
ATOM    100  CA  ALA   100      19.107  18.143  16.040  1.00 25.00           C
ATOM    101  CA  ARG   101      16.816  16.863  18.829  1.00 25.00           C
ATOM    102  CA  LEU   102      19.577  14.507  20.049  1.00 25.00           C
ATOM    103  CA  ALA   103      22.081  17.404  20.059  1.00 25.00           C
ATOM    104  CA  VAL   104      19.622  19.554  22.058  1.00 25.00           C
ATOM    105  CA  ARG   105      19.143  16.709  24.576  1.00 25.00           C
ATOM    106  CA  MET   106      22.940  16.346  24.925  1.00 25.00           C
ATOM    107  CA  GLU   107      23.271  20.117  25.508  1.00 25.00           C
ATOM    108  CA  ASN   108      20.532  19.970  28.180  1.00 25.00           C
ATOM    109  CA  ASP   109      22.324  17.050  29.891  1.00 25.00           C
ATOM    110  CA  GLY   110      25.612  19.011  29.848  1.00 25.00           C
ATOM    111  CA  ALA   111      23.849  22.049  31.374  1.00 25.00           C
ATOM    112  CA  THR   112      22.344  19.832  34.110  1.00 25.00           C
ATOM    113  CA  ALA   113      25.802  18.364  34.857  1.00 25.00           C
ATOM    114  CA  TRP   114      27.277  21.890  35.084  1.00 25.00           C
ATOM    115  CA  ARG   115      24.479  22.933  37.481  1.00 25.00           C
ATOM    116  CA  ALA   116      25.146  19.844  39.643  1.00 25.00           C
ATOM    117  CA  VAL   117      28.885  20.673  39.718  1.00 25.00           C
ATOM    118  CA  VAL   118      28.090  24.274  40.752  1.00 25.00           C
ATOM    119  CA  GLU   119      25.799  22.994  43.541  1.00 25.00           C
ATOM    120  CA  HIS   120      28.561  20.637  44.761  1.00 25.00           C
ATOM    121  CA  ALA   121      31.065  23.535  44.770  1.00 25.00           C
ATOM    122  CA  GLU   122      32.783  23.706  41.418  1.00 25.00           C
ATOM    123  CA  THR   123      31.898  24.955  37.905  1.00 25.00           C
ATOM    124  CA  ALA   124      30.157  26.023  34.736  1.00 25.00           C
ATOM    125  CA  ASP   125      27.055  25.475  32.635  1.00 25.00           C
ATOM    126  CA  ASP   126      25.660  28.423  30.627  1.00 25.00           C
ATOM    127  CA  ARG   127      28.675  28.273  28.269  1.00 25.00           C
ATOM    128  CA  VAL   128      28.151  24.510  27.797  1.00 25.00           C
ATOM    129  CA  PHE   129      24.447  25.098  27.020  1.00 25.00           C
ATOM    130  CA  ALA   130      25.386  27.790  24.462  1.00 25.00           C
ATOM    131  CA  SER   131      27.892  25.399  22.828  1.00 25.00           C
ATOM    132  CA  THR   132      25.211  22.670  22.653  1.00 25.00           C
ATOM    133  CA  ALA   133      22.764  25.141  21.049  1.00 25.00           C
ATOM    134  CA  LEU   134      25.423  26.145  18.482  1.00 25.00           C
ATOM    135  CA  THR   135      26.075  22.457  17.679  1.00 25.00           C
ATOM    136  CA  GLU   136      22.318  21.867  17.226  1.00 25.00           C
ATOM    137  CA  SER   137      22.100  24.892  14.887  1.00 25.00           C
ATOM    138  CA  ALA   138      25.061  23.564  12.853  1.00 25.00           C
ATOM    139  CA  VAL   139      23.379  20.132  12.599  1.00 25.00           C
ATOM    140  CA  MET   140      20.130  21.784  11.422  1.00 25.00           C
ATOM    141  CA  ALA   141      22.069  23.775   8.786  1.00 25.00           C
ATOM    142  CA  THR   142      23.773  20.564   7.579  1.00 25.00           C
ATOM    143  CA  ARG   143      20.371  18.821   7.335  1.00 25.00           C
ATOM    144  CA  TRP   144      18.977  21.770   5.327  1.00 25.00           C
ATOM    145  CA  ASN   145      21.992  21.621   2.969  1.00 25.00           C
ATOM    146  CA  ARG   146      20.953  24.854   1.219  1.00 25.00           C
ATOM    147  CA  VAL   147      19.051  23.835  -1.953  1.00 25.00           C
ATOM    148  CA  LEU   148      22.299  21.994  -2.802  1.00 25.00           C
ATOM    149  CA  GLY   149      21.329  21.239  -6.406  1.00 25.00           C
ATOM    150  CA  ALA   150      18.094  20.345  -8.229  1.00 25.00           C
ATOM    151  CA  TRP   151      18.052  16.880  -9.930  1.00 25.00           C
ATOM    152  CA  PRO   152      21.104  17.521 -12.136  1.00 25.00           C
ATOM    153  CA  ILE   153      24.786  18.082 -12.997  1.00 25.00           C
ATOM    154  CA  THR   154      25.926  17.989 -16.625  1.00 25.00           C
ATOM    155  CA  ALA   155      24.456  19.254 -19.896  1.00 25.00           C
ATOM    156  CA  ALA   156      22.926  16.473 -21.938  1.00 25.00           C
ATOM    157  CA  PHE   157      22.002  12.884 -21.300  1.00 25.00           C
ATOM    158  CA  PRO   158      23.117  11.664 -24.779  1.00 25.00           C
ATOM    159  CA  GLY   159      25.788  10.458 -27.137  1.00 25.00           C
ATOM    160  CA  GLY   160      29.570  10.672 -26.840  1.00 25.00           C
ATOM    161  CA  ASP   161      32.375   8.101 -27.153  1.00 25.00           C
ATOM    162  CA  GLU   162      35.195   9.105 -24.827  1.00 25.00           C
TER
END
