
#######################################################
#                                                     #
#                        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  147 (  147),  selected  147 , name T0373TS168_5
# Molecule2: number of CA atoms  140 ( 1047),  selected  140 , name T0373.pdb
# PARAMETERS: T0373TS168_5.T0373.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      P       2           -
LGA    P       2      T       3           -
LGA    T       3      N       4           -
LGA    N       4      Q       5           -
LGA    Q       5      D       6           -
LGA    D       6      L       7           -
LGA    L       7      Q       8           -
LGA    Q       8      L       9           -
LGA    L       9      -       -           -
LGA    A      10      -       -           -
LGA    A      11      -       -           -
LGA    H      12      A      10           #
LGA    L      13      A      11           -
LGA    R      14      H      12           -
LGA    -       -      L      13           -
LGA    S      15      R      14           #
LGA    -       -      S      15           -
LGA    -       -      Q      16           -
LGA    Q      16      V      17           #
LGA    V      17      -       -           -
LGA    T      18      -       -           -
LGA    T      19      T      18          3.638
LGA    L      20      T      19           #
LGA    T      21      -       -           -
LGA    R      22      -       -           -
LGA    R      23      L      20           #
LGA    -       -      T      21           -
LGA    L      24      R      22          4.551
LGA    R      25      R      23           -
LGA    R      26      L      24           -
LGA    -       -      R      25           -
LGA    E      27      R      26          4.365
LGA    A      28      E      27           -
LGA    Q      29      A      28           -
LGA    A      30      Q      29           -
LGA    D      31      -       -           -
LGA    P      32      A      30           #
LGA    V      33      D      31          4.491
LGA    Q      34      P      32          4.469
LGA    -       -      V      33           -
LGA    -       -      Q      34           -
LGA    F      35      F      35          3.270
LGA    S      36      S      36           #
LGA    Q      37      Q      37           -
LGA    L      38      L      38           -
LGA    V      39      V      39          2.716
LGA    V      40      V      40           #
LGA    L      41      L      41           -
LGA    G      42      G      42           -
LGA    A      43      A      43          3.548
LGA    I      44      -       -           -
LGA    D      45      I      44           #
LGA    R      46      D      45           -
LGA    -       -      R      46           -
LGA    L      47      L      47           #
LGA    G      48      G      48           -
LGA    G      49      G      49           -
LGA    D      50      D      50           #
LGA    V      51      V      51          2.938
LGA    T      52      T      52          2.344
LGA    P      53      P      53          2.032
LGA    S      54      S      54          4.967
LGA    E      55      E      55           #
LGA    L      56      L      56          3.952
LGA    A      57      A      57          3.724
LGA    A      58      A      58           -
LGA    -       -      A      59           -
LGA    -       -      E      60           -
LGA    -       -      R      61           -
LGA    A      59      M      62          3.676
LGA    E      60      R      63          3.367
LGA    R      61      S      64           #
LGA    M      62      S      65           #
LGA    R      63      N      66          1.991
LGA    -       -      L      67           -
LGA    S      64      A      68          3.956
LGA    S      65      A      69          2.529
LGA    N      66      L      70          2.057
LGA    L      67      -       -           -
LGA    A      68      -       -           -
LGA    A      69      L      71          3.024
LGA    L      70      R      72           -
LGA    L      71      E      73           -
LGA    -       -      L      74           -
LGA    R      72      E      75           #
LGA    E      73      R      76           -
LGA    L      74      -       -           -
LGA    E      75      -       -           -
LGA    R      76      -       -           -
LGA    G      77      -       -           -
LGA    G      78      -       -           -
LGA    L      79      -       -           -
LGA    I      80      -       -           -
LGA    V      81      -       -           -
LGA    R      82      -       -           -
LGA    H      83      G      77          5.011
LGA    A      84      G      78           -
LGA    D      85      -       -           -
LGA    P      86      -       -           -
LGA    Q      87      -       -           -
LGA    D      88      -       -           -
LGA    G      89      -       -           -
LGA    R      90      -       -           -
LGA    R      91      -       -           -
LGA    T      92      -       -           -
LGA    R      93      L      79           #
LGA    V      94      I      80          4.600
LGA    S      95      V      81          4.621
LGA    L      96      R      82           #
LGA    -       -      H      83           -
LGA    -       -      A      84           -
LGA    -       -      D      85           -
LGA    -       -      P      86           -
LGA    -       -      R      91           -
LGA    -       -      T      92           -
LGA    -       -      R      93           -
LGA    -       -      V      94           -
LGA    -       -      S      95           -
LGA    S      97      L      96          1.685
LGA    S      98      S      97          2.737
LGA    E      99      S      98          2.766
LGA    -       -      E      99           -
LGA    G     100      G     100          1.024
LGA    R     101      R     101          1.579
LGA    R     102      R     102          1.810
LGA    N     103      N     103          1.234
LGA    L     104      L     104          1.094
LGA    Y     105      Y     105          1.079
LGA    G     106      G     106          1.021
LGA    N     107      N     107          1.228
LGA    R     108      R     108          1.333
LGA    A     109      A     109          1.331
LGA    K     110      K     110          1.245
LGA    R     111      R     111          1.318
LGA    E     112      E     112          1.387
LGA    E     113      E     113          1.078
LGA    W     114      W     114          0.769
LGA    L     115      L     115          1.265
LGA    V     116      V     116          1.355
LGA    R     117      R     117          0.911
LGA    A     118      A     118          0.977
LGA    M     119      M     119          2.018
LGA    H     120      H     120          2.364
LGA    A     121      A     121          1.613
LGA    C     122      C     122          1.825
LGA    L     123      L     123          2.877
LGA    -       -      D     124           -
LGA    -       -      E     125           -
LGA    -       -      S     126           -
LGA    D     124      E     127           #
LGA    E     125      R     128          4.870
LGA    -       -      A     129           -
LGA    S     126      L     130           #
LGA    E     127      L     131           #
LGA    R     128      -       -           -
LGA    A     129      A     132          4.509
LGA    L     130      A     133           -
LGA    L     131      A     134           -
LGA    A     132      G     135           -
LGA    A     133      P     136          5.088
LGA    -       -      L     137           -
LGA    -       -      L     138           -
LGA    A     134      T     139           #
LGA    G     135      R     140           -
LGA    P     136      L     141           -
LGA    -       -      A     142           -
LGA    L     137      Q     143           #
LGA    L     138      F     144           -
LGA    T     139      E     145           -
LGA    R     140      -       -           -
LGA    L     141      -       -           -
LGA    A     142      -       -           -
LGA    Q     143      -       -           -
LGA    F     144      -       -           -
LGA    E     145      -       -           -
LGA    E     146      -       -           -
LGA    P     147      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  147  140    5.0     54    2.95    66.67     26.292     1.772

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.240010 * X  +   0.876433 * Y  +  -0.417446 * Z  +  45.415169
  Y_new =   0.010107 * X  +   0.432248 * Y  +   0.901698 * Z  +   0.162009
  Z_new =   0.970718 * X  +   0.212198 * Y  +  -0.112602 * Z  +  57.599670 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.058658   -1.082934  [ DEG:   117.9524    -62.0476 ]
  Theta =  -1.328200   -1.813392  [ DEG:   -76.1003   -103.8997 ]
  Phi   =   3.099508   -0.042085  [ DEG:   177.5887     -2.4113 ]
 
# 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: T0373TS168_5                                  
REMARK     2: T0373.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0373TS168_5.T0373.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  147  140   5.0   54   2.95   66.67  26.292
REMARK  ---------------------------------------------------------- 
MOLECULE T0373TS168_5
PFRMAT TS
TARGET T0373
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      59.531 -22.877  59.536  1.00 25.00           C
ATOM      2  CA  PRO     2      62.695 -23.114  57.419  1.00 25.00           C
ATOM      3  CA  THR     3      63.636 -19.902  59.315  1.00 25.00           C
ATOM      4  CA  ASN     4      65.027 -16.399  59.523  1.00 25.00           C
ATOM      5  CA  GLN     5      63.747 -14.275  56.603  1.00 25.00           C
ATOM      6  CA  ASP     6      60.140 -14.764  57.798  1.00 25.00           C
ATOM      7  CA  LEU     7      61.146 -13.720  61.342  1.00 25.00           C
ATOM      8  CA  GLN     8      62.876 -10.596  59.957  1.00 25.00           C
ATOM      9  CA  LEU     9      59.743  -9.729  57.933  1.00 25.00           C
ATOM     10  CA  ALA    10      57.574 -10.156  61.061  1.00 25.00           C
ATOM     11  CA  ALA    11      59.933  -7.878  63.039  1.00 25.00           C
ATOM     12  CA  HIS    12      59.756  -5.244  60.264  1.00 25.00           C
ATOM     13  CA  LEU    13      55.931  -5.440  60.290  1.00 25.00           C
ATOM     14  CA  ARG    14      55.911  -5.009  64.095  1.00 25.00           C
ATOM     15  CA  SER    15      58.215  -1.965  63.787  1.00 25.00           C
ATOM     16  CA  GLN    16      55.909  -0.456  61.129  1.00 25.00           C
ATOM     17  CA  VAL    17      52.878  -1.026  63.400  1.00 25.00           C
ATOM     18  CA  THR    18      54.710   0.660  66.310  1.00 25.00           C
ATOM     19  CA  THR    19      55.578   3.642  64.068  1.00 25.00           C
ATOM     20  CA  LEU    20      51.917   3.918  62.977  1.00 25.00           C
ATOM     21  CA  THR    21      50.794   3.837  66.637  1.00 25.00           C
ATOM     22  CA  ARG    22      53.318   6.587  67.497  1.00 25.00           C
ATOM     23  CA  ARG    23      52.038   8.710  64.578  1.00 25.00           C
ATOM     24  CA  LEU    24      48.431   8.221  65.772  1.00 25.00           C
ATOM     25  CA  ARG    25      49.437   9.265  69.317  1.00 25.00           C
ATOM     26  CA  ARG    26      51.167  12.389  67.932  1.00 25.00           C
ATOM     27  CA  GLU    27      48.034  13.257  65.908  1.00 25.00           C
ATOM     28  CA  ALA    28      47.085  16.838  66.991  1.00 25.00           C
ATOM     29  CA  GLN    29      46.704  16.928  70.806  1.00 25.00           C
ATOM     30  CA  ALA    30      44.253  15.181  73.038  1.00 25.00           C
ATOM     31  CA  ASP    31      44.543  12.040  70.836  1.00 25.00           C
ATOM     32  CA  PRO    32      42.527   9.498  68.852  1.00 25.00           C
ATOM     33  CA  VAL    33      41.781   7.003  66.078  1.00 25.00           C
ATOM     34  CA  GLN    34      42.795   3.759  67.653  1.00 25.00           C
ATOM     35  CA  PHE    35      44.243   3.095  64.218  1.00 25.00           C
ATOM     36  CA  SER    36      44.286   2.462  60.442  1.00 25.00           C
ATOM     37  CA  GLN    37      47.579   0.535  60.778  1.00 25.00           C
ATOM     38  CA  LEU    38      46.086  -1.571  63.607  1.00 25.00           C
ATOM     39  CA  VAL    39      43.006  -2.320  61.458  1.00 25.00           C
ATOM     40  CA  VAL    40      45.262  -3.363  58.544  1.00 25.00           C
ATOM     41  CA  LEU    41      47.252  -5.659  60.875  1.00 25.00           C
ATOM     42  CA  GLY    42      43.998  -7.226  62.150  1.00 25.00           C
ATOM     43  CA  ALA    43      42.832  -7.794  58.546  1.00 25.00           C
ATOM     44  CA  ILE    44      46.185  -9.437  57.693  1.00 25.00           C
ATOM     45  CA  ASP    45      45.880 -11.708  60.762  1.00 25.00           C
ATOM     46  CA  ARG    46      42.327 -12.683  59.718  1.00 25.00           C
ATOM     47  CA  LEU    47      43.680 -13.971  56.373  1.00 25.00           C
ATOM     48  CA  GLY    48      42.802 -17.688  56.483  1.00 25.00           C
ATOM     49  CA  GLY    49      39.134 -18.892  56.558  1.00 25.00           C
ATOM     50  CA  ASP    50      36.382 -16.330  55.933  1.00 25.00           C
ATOM     51  CA  VAL    51      38.199 -12.986  55.999  1.00 25.00           C
ATOM     52  CA  THR    52      35.419 -11.608  58.163  1.00 25.00           C
ATOM     53  CA  PRO    53      36.332 -10.302  61.633  1.00 25.00           C
ATOM     54  CA  SER    54      35.059 -11.094  65.158  1.00 25.00           C
ATOM     55  CA  GLU    55      37.616 -13.927  65.473  1.00 25.00           C
ATOM     56  CA  LEU    56      40.409 -11.565  64.340  1.00 25.00           C
ATOM     57  CA  ALA    57      39.290  -8.965  66.919  1.00 25.00           C
ATOM     58  CA  ALA    58      39.293 -11.643  69.657  1.00 25.00           C
ATOM     59  CA  ALA    59      42.819 -12.726  68.627  1.00 25.00           C
ATOM     60  CA  GLU    60      43.999  -9.085  68.748  1.00 25.00           C
ATOM     61  CA  ARG    61      42.464  -8.080  72.063  1.00 25.00           C
ATOM     62  CA  MET    62      39.671  -5.745  70.898  1.00 25.00           C
ATOM     63  CA  ARG    63      36.364  -7.715  71.016  1.00 25.00           C
ATOM     64  CA  SER    64      34.696  -4.330  70.308  1.00 25.00           C
ATOM     65  CA  SER    65      31.964  -3.928  67.654  1.00 25.00           C
ATOM     66  CA  ASN    66      33.876  -0.998  66.096  1.00 25.00           C
ATOM     67  CA  LEU    67      37.081  -3.093  66.028  1.00 25.00           C
ATOM     68  CA  ALA    68      35.193  -5.970  64.347  1.00 25.00           C
ATOM     69  CA  ALA    69      33.782  -3.551  61.735  1.00 25.00           C
ATOM     70  CA  LEU    70      37.297  -2.189  61.060  1.00 25.00           C
ATOM     71  CA  LEU    71      38.626  -5.756  60.643  1.00 25.00           C
ATOM     72  CA  ARG    72      35.786  -6.554  58.200  1.00 25.00           C
ATOM     73  CA  GLU    73      36.582  -3.384  56.204  1.00 25.00           C
ATOM     74  CA  LEU    74      40.282  -4.363  56.077  1.00 25.00           C
ATOM     75  CA  GLU    75      39.339  -7.868  54.855  1.00 25.00           C
ATOM     76  CA  ARG    76      37.104  -6.347  52.142  1.00 25.00           C
ATOM     77  CA  GLY    77      38.597  -2.911  51.432  1.00 25.00           C
ATOM     78  CA  GLY    78      40.730  -0.102  52.958  1.00 25.00           C
ATOM     79  CA  LEU    79      42.968   0.838  55.886  1.00 25.00           C
ATOM     80  CA  ILE    80      40.003   0.967  58.276  1.00 25.00           C
ATOM     81  CA  VAL    81      38.044   4.185  58.021  1.00 25.00           C
ATOM     82  CA  ARG    82      36.074   7.009  59.537  1.00 25.00           C
ATOM     83  CA  HIS    83      32.655   6.372  61.042  1.00 25.00           C
ATOM     84  CA  ALA    84      30.398   8.553  63.133  1.00 25.00           C
ATOM     85  CA  ASP    85      26.696   9.535  63.447  1.00 25.00           C
ATOM     86  CA  PRO    86      25.941  12.196  66.109  1.00 25.00           C
ATOM     87  CA  GLN    87      26.639  12.652  69.821  1.00 25.00           C
ATOM     88  CA  ASP    88      30.422  13.031  70.303  1.00 25.00           C
ATOM     89  CA  GLY    89      31.912   9.873  68.776  1.00 25.00           C
ATOM     90  CA  ARG    90      34.086   7.516  66.783  1.00 25.00           C
ATOM     91  CA  ARG    91      37.065   5.115  67.238  1.00 25.00           C
ATOM     92  CA  THR    92      38.544   3.303  64.245  1.00 25.00           C
ATOM     93  CA  ARG    93      35.449   2.373  62.233  1.00 25.00           C
ATOM     94  CA  VAL    94      32.902   0.982  59.695  1.00 25.00           C
ATOM     95  CA  SER    95      30.998  -1.522  57.545  1.00 25.00           C
ATOM     96  CA  LEU    96      30.533  -3.869  54.610  1.00 25.00           C
ATOM     97  CA  SER    97      33.328  -2.831  52.270  1.00 25.00           C
ATOM     98  CA  SER    98      31.158  -0.178  50.652  1.00 25.00           C
ATOM     99  CA  GLU    99      30.708   3.049  52.665  1.00 25.00           C
ATOM    100  CA  GLY   100      33.829   2.226  54.727  1.00 25.00           C
ATOM    101  CA  ARG   101      35.813   1.587  51.513  1.00 25.00           C
ATOM    102  CA  ARG   102      34.623   4.936  50.085  1.00 25.00           C
ATOM    103  CA  ASN   103      35.671   6.714  53.311  1.00 25.00           C
ATOM    104  CA  LEU   104      39.117   5.051  53.136  1.00 25.00           C
ATOM    105  CA  TYR   105      39.491   6.153  49.488  1.00 25.00           C
ATOM    106  CA  GLY   106      38.535   9.735  50.446  1.00 25.00           C
ATOM    107  CA  ASN   107      41.112   9.692  53.278  1.00 25.00           C
ATOM    108  CA  ARG   108      43.793   8.427  50.853  1.00 25.00           C
ATOM    109  CA  ALA   109      42.904  11.213  48.380  1.00 25.00           C
ATOM    110  CA  LYS   110      43.152  13.813  51.181  1.00 25.00           C
ATOM    111  CA  ARG   111      46.574  12.427  52.199  1.00 25.00           C
ATOM    112  CA  GLU   112      47.756  12.611  48.560  1.00 25.00           C
ATOM    113  CA  GLU   113      46.543  16.236  48.323  1.00 25.00           C
ATOM    114  CA  TRP   114      48.401  17.096  51.560  1.00 25.00           C
ATOM    115  CA  LEU   115      51.588  15.475  50.190  1.00 25.00           C
ATOM    116  CA  VAL   116      51.243  17.482  46.945  1.00 25.00           C
ATOM    117  CA  ARG   117      50.794  20.707  48.960  1.00 25.00           C
ATOM    118  CA  ALA   118      53.916  19.884  51.021  1.00 25.00           C
ATOM    119  CA  MET   119      55.899  19.246  47.808  1.00 25.00           C
ATOM    120  CA  HIS   120      54.709  22.594  46.379  1.00 25.00           C
ATOM    121  CA  ALA   121      55.758  24.372  49.605  1.00 25.00           C
ATOM    122  CA  CYS   122      58.224  22.371  51.659  1.00 25.00           C
ATOM    123  CA  LEU   123      60.326  19.214  51.276  1.00 25.00           C
ATOM    124  CA  ASP   124      60.079  15.636  50.095  1.00 25.00           C
ATOM    125  CA  GLU   125      58.182  12.528  48.834  1.00 25.00           C
ATOM    126  CA  SER   126      59.414   9.514  50.849  1.00 25.00           C
ATOM    127  CA  GLU   127      55.864   8.900  52.148  1.00 25.00           C
ATOM    128  CA  ARG   128      54.499   9.077  48.574  1.00 25.00           C
ATOM    129  CA  ALA   129      57.159   6.580  47.409  1.00 25.00           C
ATOM    130  CA  LEU   130      56.234   4.219  50.279  1.00 25.00           C
ATOM    131  CA  LEU   131      52.531   4.486  49.340  1.00 25.00           C
ATOM    132  CA  ALA   132      53.376   3.703  45.687  1.00 25.00           C
ATOM    133  CA  ALA   133      55.420   0.658  46.787  1.00 25.00           C
ATOM    134  CA  ALA   134      52.500  -0.553  48.949  1.00 25.00           C
ATOM    135  CA  GLY   135      50.105  -0.137  45.990  1.00 25.00           C
ATOM    136  CA  PRO   136      52.492  -2.121  43.748  1.00 25.00           C
ATOM    137  CA  LEU   137      52.693  -4.898  46.378  1.00 25.00           C
ATOM    138  CA  LEU   138      48.871  -5.000  46.599  1.00 25.00           C
ATOM    139  CA  THR   139      48.632  -5.238  42.783  1.00 25.00           C
ATOM    140  CA  ARG   140      51.171  -8.104  42.780  1.00 25.00           C
ATOM    141  CA  LEU   141      49.163  -9.921  45.487  1.00 25.00           C
ATOM    142  CA  ALA   142      45.956  -9.474  43.443  1.00 25.00           C
ATOM    143  CA  GLN   143      47.713 -10.863  40.337  1.00 25.00           C
ATOM    144  CA  PHE   144      50.331 -13.484  41.140  1.00 25.00           C
ATOM    145  CA  GLU   145      51.508 -16.258  38.757  1.00 25.00           C
ATOM    146  CA  GLU   146      54.816 -16.147  36.802  1.00 25.00           C
ATOM    147  CA  PRO   147      54.876 -12.497  37.768  1.00 25.00           C
TER
END
