
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS168_2
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS168_2.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    M       4      L       6           -
LGA    N       5      K       7           -
LGA    L       6      R       8           -
LGA    K       7      E       9           -
LGA    R       8      -       -           -
LGA    E       9      -       -           -
LGA    Q      10      -       -           -
LGA    E      11      -       -           -
LGA    F      12      -       -           -
LGA    V      13      -       -           -
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      -       -           -
LGA    H      17      -       -           -
LGA    F      18      -       -           -
LGA    D      19      -       -           -
LGA    A      20      -       -           -
LGA    R      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      -       -           -
LGA    E      24      -       -           -
LGA    W      25      -       -           -
LGA    E      26      -       -           -
LGA    N      27      -       -           -
LGA    E      28      -       -           -
LGA    N      29      -       -           -
LGA    G      30      -       -           -
LGA    A      31      -       -           -
LGA    P      32      -       -           -
LGA    E      33      -       -           -
LGA    T      34      -       -           -
LGA    K      35      -       -           -
LGA    V      36      -       -           -
LGA    D      37      -       -           -
LGA    V      38      -       -           -
LGA    N      39      -       -           -
LGA    F      40      -       -           -
LGA    Q      41      -       -           -
LGA    L      42      -       -           -
LGA    L      43      -       -           -
LGA    Q      44      -       -           -
LGA    H      45      -       -           -
LGA    D      46      -       -           -
LGA    Q      47      -       -           -
LGA    E      48      -       -           -
LGA    N      49      -       -           -
LGA    Q      50      -       -           -
LGA    V      51      -       -           -
LGA    T      52      -       -           -
LGA    S      53      Q      10           #
LGA    L      54      E      11          2.906
LGA    I      55      F      12          1.144
LGA    V      56      V      13           #
LGA    I      57      S      14           -
LGA    -       -      Q      15           -
LGA    -       -      Y      16           -
LGA    -       -      H      17           -
LGA    -       -      F      18           -
LGA    -       -      D      19           -
LGA    -       -      A      20           -
LGA    -       -      R      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    -       -      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    -       -      A      31           -
LGA    -       -      P      32           -
LGA    -       -      E      33           -
LGA    -       -      T      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      D      37           -
LGA    -       -      V      38           -
LGA    -       -      N      39           -
LGA    -       -      F      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    -       -      L      43           -
LGA    -       -      Q      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      I      55           -
LGA    -       -      V      56           -
LGA    L      58      I      57          4.664
LGA    S      59      L      58          3.069
LGA    F      60      S      59           #
LGA    M      61      F      60           #
LGA    I      62      M      61           #
LGA    V      63      I      62          2.439
LGA    F      64      V      63          1.917
LGA    D      65      F      64          2.690
LGA    K      66      D      65          2.157
LGA    F      67      K      66          4.089
LGA    V      68      F      67          4.135
LGA    I      69      V      68          4.439
LGA    S      70      I      69          5.093
LGA    G      71      S      70          3.185
LGA    T      72      G      71           #
LGA    I      73      -       -           -
LGA    S      74      -       -           -
LGA    Q      75      -       -           -
LGA    V      76      T      72          3.451
LGA    N      77      I      73          3.647
LGA    H      78      S      74          3.039
LGA    I      79      Q      75          2.964
LGA    D      80      -       -           -
LGA    G      81      -       -           -
LGA    R      82      V      76          5.710
LGA    I      83      N      77          3.071
LGA    V      84      H      78          1.806
LGA    N      85      I      79          3.729
LGA    E      86      D      80          0.786
LGA    P      87      G      81          3.778
LGA    S      88      R      82          0.654
LGA    E      89      I      83          3.343
LGA    L      90      V      84          5.587
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    N      91      P      87          5.635
LGA    -       -      S      88           -
LGA    -       -      E      89           -
LGA    -       -      L      90           -
LGA    Q      92      N      91          3.397
LGA    E      93      Q      92           #
LGA    -       -      E      93           -
LGA    E      94      E      94          3.445
LGA    V      95      V      95          2.443
LGA    E      96      E      96          2.376
LGA    T      97      T      97          0.397
LGA    L      98      L      98          1.832
LGA    A      99      A      99          2.604
LGA    R     100      R     100          3.361
LGA    P     101      P     101          3.289
LGA    C     102      C     102          2.594
LGA    L     103      L     103          2.358
LGA    N     104      N     104          2.441
LGA    M     105      M     105          2.216
LGA    L     106      L     106          1.415
LGA    N     107      N     107          1.374
LGA    R     108      R     108          1.406
LGA    L     109      L     109          1.416
LGA    T     110      T     110          1.407
LGA    Y     111      Y     111          1.260
LGA    E     112      E     112          1.212
LGA    V     113      V     113          1.253
LGA    T     114      T     114          2.815
LGA    E     115      E     115          3.019
LGA    I     116      I     116          1.945
LGA    A     117      A     117          2.919
LGA    -       -      L     118           -
LGA    L     118      D     119          3.850
LGA    D     119      L     120           -
LGA    L     120      P     121           -
LGA    P     121      G     122           -
LGA    G     122      I     123           -
LGA    I     123      N     124           -
LGA    N     124      L     125           -
LGA    L     125      E     126           -
LGA    E     126      F     127           -
LGA    F     127      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     53    3.05    45.28     26.876     1.682

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.882377 * X  +  -0.161094 * Y  +   0.442108 * Z  +  11.523093
  Y_new =   0.059007 * X  +   0.894270 * Y  +   0.443620 * Z  +  29.780518
  Z_new =  -0.466829 * X  +   0.417527 * Y  +  -0.779578 * Z  +   5.956714 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.649887   -0.491706  [ DEG:   151.8273    -28.1727 ]
  Theta =   0.485701    2.655891  [ DEG:    27.8286    152.1714 ]
  Phi   =   3.074819   -0.066774  [ DEG:   176.1741     -3.8259 ]
 
# 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: T0383TS168_2                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS168_2.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   53   3.05   45.28  26.876
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS168_2
PFRMAT TS
TARGET T0383
MODEL 2
PARENT N/A
ATOM      1  CA  SER     1       8.510   7.421   1.268  1.00 25.00           C
ATOM      2  CA  ASN     2       5.911   8.540  -1.279  1.00 25.00           C
ATOM      3  CA  ALA     3       6.111  12.180  -0.116  1.00 25.00           C
ATOM      4  CA  MET     4       5.358  15.659   1.300  1.00 25.00           C
ATOM      5  CA  ASN     5       6.292  19.246   0.505  1.00 25.00           C
ATOM      6  CA  LEU     6       8.545  22.232   1.147  1.00 25.00           C
ATOM      7  CA  LYS     7       7.313  25.040   3.338  1.00 25.00           C
ATOM      8  CA  ARG     8       6.285  28.516   4.452  1.00 25.00           C
ATOM      9  CA  GLU     9       3.370  27.061   6.516  1.00 25.00           C
ATOM     10  CA  GLN    10       1.556  28.504   3.462  1.00 25.00           C
ATOM     11  CA  GLU    11      -0.886  30.523   5.613  1.00 25.00           C
ATOM     12  CA  PHE    12       2.047  32.125   7.484  1.00 25.00           C
ATOM     13  CA  VAL    13       3.712  33.023   4.154  1.00 25.00           C
ATOM     14  CA  SER    14       0.443  34.581   2.910  1.00 25.00           C
ATOM     15  CA  GLN    15       0.154  36.615   6.142  1.00 25.00           C
ATOM     16  CA  TYR    16      -2.455  34.812   8.177  1.00 25.00           C
ATOM     17  CA  HIS    17      -5.655  36.137   9.772  1.00 25.00           C
ATOM     18  CA  PHE    18      -4.510  39.555   8.581  1.00 25.00           C
ATOM     19  CA  ASP    19      -6.907  42.458   9.269  1.00 25.00           C
ATOM     20  CA  ALA    20      -3.978  44.768   9.562  1.00 25.00           C
ATOM     21  CA  ARG    21      -2.889  45.705   6.095  1.00 25.00           C
ATOM     22  CA  ASN    22       0.365  43.768   6.117  1.00 25.00           C
ATOM     23  CA  PHE    23       3.772  44.498   7.638  1.00 25.00           C
ATOM     24  CA  GLU    24       5.340  46.977   5.177  1.00 25.00           C
ATOM     25  CA  TRP    25       7.324  44.138   3.542  1.00 25.00           C
ATOM     26  CA  GLU    26       4.127  42.052   3.231  1.00 25.00           C
ATOM     27  CA  ASN    27       2.314  45.024   1.633  1.00 25.00           C
ATOM     28  CA  GLU    28       5.201  45.485  -0.842  1.00 25.00           C
ATOM     29  CA  ASN    29       2.607  47.650  -2.615  1.00 25.00           C
ATOM     30  CA  GLY    30       0.388  44.845  -3.862  1.00 25.00           C
ATOM     31  CA  ALA    31       2.311  41.915  -5.337  1.00 25.00           C
ATOM     32  CA  PRO    32       6.054  41.666  -4.976  1.00 25.00           C
ATOM     33  CA  GLU    33       8.691  40.391  -2.577  1.00 25.00           C
ATOM     34  CA  THR    34       9.725  37.082  -1.081  1.00 25.00           C
ATOM     35  CA  LYS    35       7.621  35.148   1.481  1.00 25.00           C
ATOM     36  CA  VAL    36       7.091  31.493   0.361  1.00 25.00           C
ATOM     37  CA  ASP    37       9.768  30.701   3.002  1.00 25.00           C
ATOM     38  CA  VAL    38      11.141  29.752   6.453  1.00 25.00           C
ATOM     39  CA  ASN    39      14.075  27.541   7.353  1.00 25.00           C
ATOM     40  CA  PHE    40      16.807  26.378   9.741  1.00 25.00           C
ATOM     41  CA  GLN    41      17.668  22.654   9.954  1.00 25.00           C
ATOM     42  CA  LEU    42      20.941  23.240  11.794  1.00 25.00           C
ATOM     43  CA  LEU    43      22.638  19.803  12.026  1.00 25.00           C
ATOM     44  CA  GLN    44      23.264  16.415  13.672  1.00 25.00           C
ATOM     45  CA  HIS    45      26.441  17.591  15.395  1.00 25.00           C
ATOM     46  CA  ASP    46      26.475  15.941  18.770  1.00 25.00           C
ATOM     47  CA  GLN    47      25.660  18.635  21.367  1.00 25.00           C
ATOM     48  CA  GLU    48      22.325  19.343  19.623  1.00 25.00           C
ATOM     49  CA  ASN    49      21.504  15.603  19.620  1.00 25.00           C
ATOM     50  CA  GLN    50      20.999  12.993  16.951  1.00 25.00           C
ATOM     51  CA  VAL    51      17.253  13.551  17.319  1.00 25.00           C
ATOM     52  CA  THR    52      16.822  17.243  16.506  1.00 25.00           C
ATOM     53  CA  SER    53      16.383  20.296  14.364  1.00 25.00           C
ATOM     54  CA  LEU    54      14.579  23.681  14.645  1.00 25.00           C
ATOM     55  CA  ILE    55      11.582  24.697  12.487  1.00 25.00           C
ATOM     56  CA  VAL    56      11.942  28.499  12.018  1.00 25.00           C
ATOM     57  CA  ILE    57      10.060  31.618  11.029  1.00 25.00           C
ATOM     58  CA  LEU    58       7.073  31.744   8.589  1.00 25.00           C
ATOM     59  CA  SER    59       7.824  35.389   7.659  1.00 25.00           C
ATOM     60  CA  PHE    60      10.910  34.911   5.587  1.00 25.00           C
ATOM     61  CA  MET    61      12.840  34.925   2.259  1.00 25.00           C
ATOM     62  CA  ILE    62      12.798  32.940  -0.984  1.00 25.00           C
ATOM     63  CA  VAL    63      10.104  32.218  -3.572  1.00 25.00           C
ATOM     64  CA  PHE    64       8.838  32.543  -7.084  1.00 25.00           C
ATOM     65  CA  ASP    65       7.966  34.156 -10.394  1.00 25.00           C
ATOM     66  CA  LYS    66       7.765  31.464 -13.113  1.00 25.00           C
ATOM     67  CA  PHE    67       5.973  29.753 -10.204  1.00 25.00           C
ATOM     68  CA  VAL    68       5.242  28.565  -6.603  1.00 25.00           C
ATOM     69  CA  ILE    69       3.611  29.094  -3.198  1.00 25.00           C
ATOM     70  CA  SER    70       4.578  26.048  -1.132  1.00 25.00           C
ATOM     71  CA  GLY    71       8.300  26.696  -1.336  1.00 25.00           C
ATOM     72  CA  THR    72      11.834  27.986  -0.684  1.00 25.00           C
ATOM     73  CA  ILE    73      12.321  26.340   2.694  1.00 25.00           C
ATOM     74  CA  SER    74      13.457  22.974   4.101  1.00 25.00           C
ATOM     75  CA  GLN    75      11.372  23.082   7.338  1.00 25.00           C
ATOM     76  CA  VAL    76       8.558  25.413   8.515  1.00 25.00           C
ATOM     77  CA  ASN    77       6.798  26.880  11.564  1.00 25.00           C
ATOM     78  CA  HIS    78       6.817  29.558  14.320  1.00 25.00           C
ATOM     79  CA  ILE    79       9.020  28.727  17.308  1.00 25.00           C
ATOM     80  CA  ASP    80       5.849  28.044  19.307  1.00 25.00           C
ATOM     81  CA  GLY    81       6.491  28.630  22.981  1.00 25.00           C
ATOM     82  CA  ARG    82       7.024  32.318  23.504  1.00 25.00           C
ATOM     83  CA  ILE    83       9.959  33.164  21.261  1.00 25.00           C
ATOM     84  CA  VAL    84      12.741  33.868  23.707  1.00 25.00           C
ATOM     85  CA  ASN    85      14.124  34.205  27.278  1.00 25.00           C
ATOM     86  CA  GLU    86      15.560  37.225  29.160  1.00 25.00           C
ATOM     87  CA  PRO    87      12.295  38.709  30.428  1.00 25.00           C
ATOM     88  CA  SER    88      12.405  42.289  29.066  1.00 25.00           C
ATOM     89  CA  GLU    89       9.643  40.992  26.783  1.00 25.00           C
ATOM     90  CA  LEU    90      11.235  40.399  23.410  1.00 25.00           C
ATOM     91  CA  ASN    91       9.844  43.615  21.806  1.00 25.00           C
ATOM     92  CA  GLN    92      11.878  45.552  19.252  1.00 25.00           C
ATOM     93  CA  GLU    93      15.633  45.066  18.675  1.00 25.00           C
ATOM     94  CA  GLU    94      15.333  41.378  19.662  1.00 25.00           C
ATOM     95  CA  VAL    95      12.396  40.945  17.242  1.00 25.00           C
ATOM     96  CA  GLU    96      14.430  42.583  14.442  1.00 25.00           C
ATOM     97  CA  THR    97      17.374  40.246  15.180  1.00 25.00           C
ATOM     98  CA  LEU    98      15.031  37.219  15.070  1.00 25.00           C
ATOM     99  CA  ALA    99      13.616  38.406  11.716  1.00 25.00           C
ATOM    100  CA  ARG   100      17.164  38.820  10.336  1.00 25.00           C
ATOM    101  CA  PRO   101      18.062  35.289  11.517  1.00 25.00           C
ATOM    102  CA  CYS   102      14.916  33.900   9.831  1.00 25.00           C
ATOM    103  CA  LEU   103      15.825  35.713   6.583  1.00 25.00           C
ATOM    104  CA  ASN   104      19.369  34.271   6.742  1.00 25.00           C
ATOM    105  CA  MET   105      17.942  30.758   7.281  1.00 25.00           C
ATOM    106  CA  LEU   106      15.608  31.219   4.281  1.00 25.00           C
ATOM    107  CA  ASN   107      18.559  32.371   2.129  1.00 25.00           C
ATOM    108  CA  ARG   108      20.583  29.310   3.223  1.00 25.00           C
ATOM    109  CA  LEU   109      17.643  27.020   2.341  1.00 25.00           C
ATOM    110  CA  THR   110      17.355  28.676  -1.101  1.00 25.00           C
ATOM    111  CA  TYR   111      21.109  28.190  -1.676  1.00 25.00           C
ATOM    112  CA  GLU   112      20.808  24.502  -0.689  1.00 25.00           C
ATOM    113  CA  VAL   113      17.872  24.068  -3.110  1.00 25.00           C
ATOM    114  CA  THR   114      19.907  25.706  -5.910  1.00 25.00           C
ATOM    115  CA  GLU   115      22.850  23.370  -5.171  1.00 25.00           C
ATOM    116  CA  ILE   116      20.507  20.342  -5.282  1.00 25.00           C
ATOM    117  CA  ALA   117      19.092  21.529  -8.636  1.00 25.00           C
ATOM    118  CA  LEU   118      21.472  19.020 -10.230  1.00 25.00           C
ATOM    119  CA  ASP   119      24.410  18.278  -7.848  1.00 25.00           C
ATOM    120  CA  LEU   120      24.870  14.619  -6.889  1.00 25.00           C
ATOM    121  CA  PRO   121      23.657  11.531  -8.714  1.00 25.00           C
ATOM    122  CA  GLY   122      21.370  10.819 -11.650  1.00 25.00           C
ATOM    123  CA  ILE   123      18.683  13.342 -12.539  1.00 25.00           C
ATOM    124  CA  ASN   124      20.087  14.560 -15.833  1.00 25.00           C
ATOM    125  CA  LEU   125      17.642  13.191 -18.419  1.00 25.00           C
ATOM    126  CA  GLU   126      14.236  14.238 -19.671  1.00 25.00           C
ATOM    127  CA  PHE   127      12.125  13.692 -16.588  1.00 25.00           C
TER
END
