
#######################################################
#                                                     #
#                        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  144 (  144),  selected  144 , name T0370TS168_5-D1
# Molecule2: number of CA atoms  144 ( 1104),  selected  144 , name T0370_D1.pdb
# PARAMETERS: T0370TS168_5-D1.T0370_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       8      T       8           -
LGA    A       9      A       9           -
LGA    K      10      K      10           -
LGA    Q      11      Q      11           -
LGA    -       -      R      12           -
LGA    -       -      I      13           -
LGA    -       -      Q      14           -
LGA    -       -      D      15           -
LGA    -       -      T      16           -
LGA    -       -      L      17           -
LGA    -       -      N      18           -
LGA    -       -      R      19           -
LGA    -       -      L      20           -
LGA    -       -      E      21           -
LGA    -       -      L      22           -
LGA    -       -      D      23           -
LGA    -       -      V      24           -
LGA    -       -      D      25           -
LGA    -       -      A      26           -
LGA    -       -      W      27           -
LGA    -       -      V      28           -
LGA    -       -      S      29           -
LGA    -       -      T      30           -
LGA    -       -      A      31           -
LGA    -       -      G      32           -
LGA    R      12      A      33           #
LGA    I      13      D      34          3.664
LGA    Q      14      -       -           -
LGA    D      15      G      35           #
LGA    T      16      G      36          1.799
LGA    L      17      A      37          3.124
LGA    N      18      P      38          2.400
LGA    R      19      -       -           -
LGA    L      20      -       -           -
LGA    E      21      Y      39          1.403
LGA    L      22      L      40          4.640
LGA    D      23      -       -           -
LGA    V      24      -       -           -
LGA    D      25      V      41          2.954
LGA    A      26      P      42          1.882
LGA    W      27      -       -           -
LGA    V      28      -       -           -
LGA    S      29      L      43          3.475
LGA    T      30      S      44           -
LGA    A      31      Y      45           -
LGA    G      32      L      46           -
LGA    A      33      W      47           -
LGA    D      34      D      48           -
LGA    G      35      G      49           -
LGA    G      36      E      50           -
LGA    -       -      T      51           -
LGA    -       -      F      52           -
LGA    -       -      L      53           -
LGA    -       -      V      54           -
LGA    A      37      A      55           #
LGA    P      38      T      56          4.794
LGA    Y      39      P      57          1.210
LGA    L      40      A      58          5.464
LGA    V      41      A      59           #
LGA    P      42      S      60          4.114
LGA    L      43      P      61          3.353
LGA    S      44      T      62          1.397
LGA    -       -      G      63           -
LGA    -       -      R      64           -
LGA    Y      45      N      65          2.421
LGA    L      46      L      66          3.915
LGA    W      47      S      67           #
LGA    D      48      E      68          4.368
LGA    G      49      -       -           -
LGA    E      50      -       -           -
LGA    T      51      T      69           #
LGA    F      52      G      70           #
LGA    L      53      R      71           #
LGA    V      54      V      72          3.759
LGA    A      55      R      73          3.420
LGA    T      56      L      74          4.208
LGA    P      57      G      75          4.548
LGA    A      58      I      76          2.117
LGA    A      59      G      77          3.699
LGA    S      60      -       -           -
LGA    P      61      P      78           #
LGA    T      62      T      79           #
LGA    G      63      R      80          2.796
LGA    R      64      D      81           #
LGA    N      65      L      82          4.287
LGA    L      66      V      83          4.335
LGA    S      67      L      84          4.760
LGA    E      68      V      85           -
LGA    T      69      E      86           -
LGA    G      70      -       -           -
LGA    R      71      -       -           -
LGA    V      72      -       -           -
LGA    R      73      -       -           -
LGA    L      74      -       -           -
LGA    G      75      -       -           -
LGA    I      76      -       -           -
LGA    G      77      -       -           -
LGA    P      78      -       -           -
LGA    T      79      -       -           -
LGA    R      80      -       -           -
LGA    D      81      -       -           -
LGA    L      82      -       -           -
LGA    V      83      -       -           -
LGA    L      84      -       -           -
LGA    V      85      G      87          3.519
LGA    E      86      T      88          1.818
LGA    G      87      A      89          1.229
LGA    T      88      L      90          2.166
LGA    A      89      P      91          4.646
LGA    L      90      L      92          2.179
LGA    -       -      E      93           -
LGA    -       -      P      94           -
LGA    P      91      A      95           #
LGA    L      92      G      96           #
LGA    E      93      L      97          4.929
LGA    P      94      P      98          3.701
LGA    A      95      D      99          3.478
LGA    G      96      G     100          3.540
LGA    L      97      V     101          1.808
LGA    P      98      G     102          5.251
LGA    D      99      D     103          3.040
LGA    G     100      T     104          4.149
LGA    V     101      F     105          1.588
LGA    -       -      A     106           -
LGA    -       -      E     107           -
LGA    G     102      K     108           #
LGA    D     103      -       -           -
LGA    T     104      T     109           #
LGA    -       -      G     110           -
LGA    -       -      F     111           -
LGA    -       -      D     112           -
LGA    -       -      P     113           -
LGA    -       -      R     114           -
LGA    -       -      R     115           -
LGA    -       -      L     116           -
LGA    -       -      T     117           -
LGA    -       -      T     118           -
LGA    -       -      S     119           -
LGA    -       -      Y     120           -
LGA    -       -      L     121           -
LGA    -       -      Y     122           -
LGA    -       -      F     123           -
LGA    F     105      R     124           #
LGA    A     106      I     125          2.921
LGA    E     107      S     126          1.559
LGA    K     108      P     127           #
LGA    T     109      R     128           -
LGA    G     110      R     129           -
LGA    -       -      V     130           -
LGA    -       -      Q     131           -
LGA    -       -      A     132           -
LGA    -       -      W     133           -
LGA    -       -      R     134           -
LGA    -       -      E     135           -
LGA    -       -      A     136           -
LGA    -       -      N     137           -
LGA    -       -      E     138           -
LGA    -       -      L     139           -
LGA    -       -      S     140           -
LGA    -       -      G     141           -
LGA    -       -      R     142           -
LGA    -       -      E     143           -
LGA    -       -      L     144           -
LGA    -       -      M     145           -
LGA    -       -      R     146           -
LGA    F     111      D     147           #
LGA    D     112      G     148          2.559
LGA    P     113      E     149          5.721
LGA    R     114      -       -           -
LGA    R     115      -       -           -
LGA    L     116      -       -           -
LGA    T     117      W     150           #
LGA    T     118      L     151           -
LGA    S     119      -       -           -
LGA    Y     120      -       -           -
LGA    L     121      -       -           -
LGA    Y     122      -       -           -
LGA    F     123      -       -           -
LGA    R     124      -       -           -
LGA    I     125      -       -           -
LGA    S     126      -       -           -
LGA    P     127      -       -           -
LGA    R     128      -       -           -
LGA    R     129      -       -           -
LGA    V     130      -       -           -
LGA    Q     131      -       -           -
LGA    A     132      -       -           -
LGA    W     133      -       -           -
LGA    R     134      -       -           -
LGA    E     135      -       -           -
LGA    A     136      -       -           -
LGA    N     137      -       -           -
LGA    E     138      -       -           -
LGA    L     139      -       -           -
LGA    S     140      -       -           -
LGA    G     141      -       -           -
LGA    R     142      -       -           -
LGA    E     143      -       -           -
LGA    L     144      -       -           -
LGA    M     145      -       -           -
LGA    R     146      -       -           -
LGA    D     147      -       -           -
LGA    G     148      -       -           -
LGA    E     149      -       -           -
LGA    W     150      -       -           -
LGA    L     151      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  144  144    5.0     47    3.50    14.89     18.210     1.306

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.770773 * X  +  -0.379803 * Y  +  -0.511526 * Z  +  -1.849360
  Y_new =  -0.543257 * X  +   0.811239 * Y  +   0.216248 * Z  +  26.782240
  Z_new =   0.332838 * X  +   0.444568 * Y  +  -0.831612 * Z  +  13.719317 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.650661   -0.490932  [ DEG:   151.8717    -28.1283 ]
  Theta =  -0.339312   -2.802281  [ DEG:   -19.4411   -160.5589 ]
  Phi   =  -2.527639    0.613954  [ DEG:  -144.8230     35.1770 ]
 
# 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: T0370TS168_5-D1                               
REMARK     2: T0370_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0370TS168_5-D1.T0370_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  144  144   5.0   47   3.50   14.89  18.210
REMARK  ---------------------------------------------------------- 
MOLECULE T0370TS168_5-D1
PFRMAT TS
TARGET T0370
MODEL 5
PARENT N/A
ATOM      8  CA  THR     8       1.327   5.517  10.552  1.00 25.00           C
ATOM      9  CA  ALA     9      -1.997   7.312   9.929  1.00 25.00           C
ATOM     10  CA  LYS    10      -0.987  10.083  12.372  1.00 25.00           C
ATOM     11  CA  GLN    11       2.382  10.459  10.591  1.00 25.00           C
ATOM     12  CA  ARG    12       0.598  10.691   7.211  1.00 25.00           C
ATOM     13  CA  ILE    13      -1.756  13.368   8.610  1.00 25.00           C
ATOM     14  CA  GLN    14       1.242  15.339   9.949  1.00 25.00           C
ATOM     15  CA  ASP    15       2.950  15.112   6.529  1.00 25.00           C
ATOM     16  CA  THR    16      -0.245  16.353   4.822  1.00 25.00           C
ATOM     17  CA  LEU    17      -0.449  19.284   7.279  1.00 25.00           C
ATOM     18  CA  ASN    18       3.213  20.158   6.576  1.00 25.00           C
ATOM     19  CA  ARG    19       2.540  20.058   2.808  1.00 25.00           C
ATOM     20  CA  LEU    20      -0.492  22.352   3.263  1.00 25.00           C
ATOM     21  CA  GLU    21       1.630  24.789   5.318  1.00 25.00           C
ATOM     22  CA  LEU    22       5.148  24.681   3.854  1.00 25.00           C
ATOM     23  CA  ASP    23       4.505  28.081   2.270  1.00 25.00           C
ATOM     24  CA  VAL    24       5.051  30.642   5.000  1.00 25.00           C
ATOM     25  CA  ASP    25       3.924  31.694   8.505  1.00 25.00           C
ATOM     26  CA  ALA    26       3.849  35.362   7.407  1.00 25.00           C
ATOM     27  CA  TRP    27       1.766  34.424   4.333  1.00 25.00           C
ATOM     28  CA  VAL    28      -0.670  32.469   6.549  1.00 25.00           C
ATOM     29  CA  SER    29      -0.977  35.474   8.904  1.00 25.00           C
ATOM     30  CA  THR    30      -1.670  37.772   5.920  1.00 25.00           C
ATOM     31  CA  ALA    31       1.434  39.623   7.154  1.00 25.00           C
ATOM     32  CA  GLY    32       1.446  40.963   3.610  1.00 25.00           C
ATOM     33  CA  ALA    33      -2.218  41.970   3.215  1.00 25.00           C
ATOM     34  CA  ASP    34      -2.058  43.218   6.855  1.00 25.00           C
ATOM     35  CA  GLY    35      -5.881  43.280   7.206  1.00 25.00           C
ATOM     36  CA  GLY    36      -5.868  40.519   9.838  1.00 25.00           C
ATOM     37  CA  ALA    37      -5.646  36.926  11.182  1.00 25.00           C
ATOM     38  CA  PRO    38      -7.528  34.312   9.158  1.00 25.00           C
ATOM     39  CA  TYR    39      -9.200  33.658  12.520  1.00 25.00           C
ATOM     40  CA  LEU    40      -8.364  33.824  16.198  1.00 25.00           C
ATOM     41  CA  VAL    41      -8.533  30.065  16.243  1.00 25.00           C
ATOM     42  CA  PRO    42      -8.299  28.308  12.893  1.00 25.00           C
ATOM     43  CA  LEU    43      -6.551  29.382   9.731  1.00 25.00           C
ATOM     44  CA  SER    44      -4.771  26.297  11.176  1.00 25.00           C
ATOM     45  CA  TYR    45      -2.868  22.964  11.228  1.00 25.00           C
ATOM     46  CA  LEU    46      -3.886  20.635  14.059  1.00 25.00           C
ATOM     47  CA  TRP    47      -5.917  17.389  14.196  1.00 25.00           C
ATOM     48  CA  ASP    48      -8.441  15.511  16.347  1.00 25.00           C
ATOM     49  CA  GLY    49     -11.288  17.220  14.550  1.00 25.00           C
ATOM     50  CA  GLU    50      -9.914  20.225  12.565  1.00 25.00           C
ATOM     51  CA  THR    51      -8.259  23.286  14.087  1.00 25.00           C
ATOM     52  CA  PHE    52      -5.815  25.153  16.331  1.00 25.00           C
ATOM     53  CA  LEU    53      -2.018  25.177  15.663  1.00 25.00           C
ATOM     54  CA  VAL    54       1.008  26.689  13.907  1.00 25.00           C
ATOM     55  CA  ALA    55       4.406  27.820  15.137  1.00 25.00           C
ATOM     56  CA  THR    56       4.141  31.183  13.411  1.00 25.00           C
ATOM     57  CA  PRO    57       7.156  33.481  13.325  1.00 25.00           C
ATOM     58  CA  ALA    58      10.358  35.456  12.945  1.00 25.00           C
ATOM     59  CA  ALA    59      12.639  35.854  15.976  1.00 25.00           C
ATOM     60  CA  SER    60      15.058  33.508  14.274  1.00 25.00           C
ATOM     61  CA  PRO    61      18.254  35.420  15.258  1.00 25.00           C
ATOM     62  CA  THR    62      20.093  33.642  12.460  1.00 25.00           C
ATOM     63  CA  GLY    63      18.041  34.066   9.240  1.00 25.00           C
ATOM     64  CA  ARG    64      17.784  30.230   9.283  1.00 25.00           C
ATOM     65  CA  ASN    65      17.430  28.079  12.360  1.00 25.00           C
ATOM     66  CA  LEU    66      13.622  28.501  12.342  1.00 25.00           C
ATOM     67  CA  SER    67      13.232  24.874  11.387  1.00 25.00           C
ATOM     68  CA  GLU    68      11.832  22.576   8.723  1.00 25.00           C
ATOM     69  CA  THR    69       8.284  23.731   9.545  1.00 25.00           C
ATOM     70  CA  GLY    70       4.657  23.971  10.768  1.00 25.00           C
ATOM     71  CA  ARG    71       4.226  26.906   8.347  1.00 25.00           C
ATOM     72  CA  VAL    72       0.903  28.196   9.688  1.00 25.00           C
ATOM     73  CA  ARG    73      -1.685  30.231  11.624  1.00 25.00           C
ATOM     74  CA  LEU    74      -4.544  32.052  13.474  1.00 25.00           C
ATOM     75  CA  GLY    75      -3.951  29.885  16.563  1.00 25.00           C
ATOM     76  CA  ILE    76      -6.422  29.211  19.400  1.00 25.00           C
ATOM     77  CA  GLY    77      -9.681  29.047  21.356  1.00 25.00           C
ATOM     78  CA  PRO    78      -9.678  32.794  22.010  1.00 25.00           C
ATOM     79  CA  THR    79      -6.436  34.663  21.518  1.00 25.00           C
ATOM     80  CA  ARG    80      -3.156  33.845  19.874  1.00 25.00           C
ATOM     81  CA  ASP    81      -2.701  35.775  16.572  1.00 25.00           C
ATOM     82  CA  LEU    82      -0.030  34.375  14.323  1.00 25.00           C
ATOM     83  CA  VAL    83       0.779  31.517  16.694  1.00 25.00           C
ATOM     84  CA  LEU    84       0.789  28.264  18.694  1.00 25.00           C
ATOM     85  CA  VAL    85       2.442  24.920  18.906  1.00 25.00           C
ATOM     86  CA  GLU    86       1.118  24.009  22.326  1.00 25.00           C
ATOM     87  CA  GLY    87      -2.137  25.283  20.884  1.00 25.00           C
ATOM     88  CA  THR    88      -2.836  26.276  24.521  1.00 25.00           C
ATOM     89  CA  ALA    89      -3.142  29.801  23.158  1.00 25.00           C
ATOM     90  CA  LEU    90      -6.443  30.141  25.016  1.00 25.00           C
ATOM     91  CA  PRO    91      -7.660  32.504  27.662  1.00 25.00           C
ATOM     92  CA  LEU    92      -4.723  33.882  29.555  1.00 25.00           C
ATOM     93  CA  GLU    93      -7.074  33.959  32.543  1.00 25.00           C
ATOM     94  CA  PRO    94      -9.930  36.122  31.270  1.00 25.00           C
ATOM     95  CA  ALA    95      -7.967  38.915  29.568  1.00 25.00           C
ATOM     96  CA  GLY    96      -4.291  38.891  30.292  1.00 25.00           C
ATOM     97  CA  LEU    97      -3.020  38.592  26.729  1.00 25.00           C
ATOM     98  CA  PRO    98      -1.238  41.907  27.495  1.00 25.00           C
ATOM     99  CA  ASP    99      -1.573  44.761  24.937  1.00 25.00           C
ATOM    100  CA  GLY   100      -4.525  42.785  23.581  1.00 25.00           C
ATOM    101  CA  VAL   101      -2.361  40.964  21.043  1.00 25.00           C
ATOM    102  CA  GLY   102      -0.589  37.900  22.354  1.00 25.00           C
ATOM    103  CA  ASP   103       2.658  39.696  21.558  1.00 25.00           C
ATOM    104  CA  THR   104       4.107  36.385  20.375  1.00 25.00           C
ATOM    105  CA  PHE   105       2.752  32.927  21.131  1.00 25.00           C
ATOM    106  CA  ALA   106       4.302  29.603  22.102  1.00 25.00           C
ATOM    107  CA  GLU   107       4.419  27.797  25.498  1.00 25.00           C
ATOM    108  CA  LYS   108       4.008  25.373  28.398  1.00 25.00           C
ATOM    109  CA  THR   109       5.963  27.375  30.991  1.00 25.00           C
ATOM    110  CA  GLY   110       8.901  29.527  29.965  1.00 25.00           C
ATOM    111  CA  PHE   111      10.407  26.195  28.822  1.00 25.00           C
ATOM    112  CA  ASP   112      11.789  22.750  29.652  1.00 25.00           C
ATOM    113  CA  PRO   113       8.139  21.713  29.601  1.00 25.00           C
ATOM    114  CA  ARG   114       5.633  19.240  28.095  1.00 25.00           C
ATOM    115  CA  ARG   115       8.501  16.927  27.056  1.00 25.00           C
ATOM    116  CA  LEU   116      10.862  19.547  25.810  1.00 25.00           C
ATOM    117  CA  THR   117      10.093  18.405  22.278  1.00 25.00           C
ATOM    118  CA  THR   118       7.060  20.639  22.340  1.00 25.00           C
ATOM    119  CA  SER   119       7.026  22.756  19.107  1.00 25.00           C
ATOM    120  CA  TYR   120       5.662  22.707  15.590  1.00 25.00           C
ATOM    121  CA  LEU   121       2.114  21.730  14.879  1.00 25.00           C
ATOM    122  CA  TYR   122       0.992  20.172  18.214  1.00 25.00           C
ATOM    123  CA  PHE   123      -2.717  20.688  18.957  1.00 25.00           C
ATOM    124  CA  ARG   124      -6.500  20.330  18.362  1.00 25.00           C
ATOM    125  CA  ILE   125      -9.810  22.031  18.902  1.00 25.00           C
ATOM    126  CA  SER   126     -13.305  20.996  19.813  1.00 25.00           C
ATOM    127  CA  PRO   127     -15.452  24.112  20.495  1.00 25.00           C
ATOM    128  CA  ARG   128     -16.097  27.790  19.644  1.00 25.00           C
ATOM    129  CA  ARG   129     -12.658  28.034  17.978  1.00 25.00           C
ATOM    130  CA  VAL   130     -13.392  24.874  15.942  1.00 25.00           C
ATOM    131  CA  GLN   131     -16.762  26.330  14.852  1.00 25.00           C
ATOM    132  CA  ALA   132     -15.043  29.587  13.802  1.00 25.00           C
ATOM    133  CA  TRP   133     -12.456  27.603  11.793  1.00 25.00           C
ATOM    134  CA  ARG   134     -15.259  25.638  10.077  1.00 25.00           C
ATOM    135  CA  GLU   135     -17.058  28.907   9.218  1.00 25.00           C
ATOM    136  CA  ALA   136     -13.815  30.339   7.768  1.00 25.00           C
ATOM    137  CA  ASN   137     -13.328  27.175   5.667  1.00 25.00           C
ATOM    138  CA  GLU   138     -16.926  27.444   4.382  1.00 25.00           C
ATOM    139  CA  LEU   139     -16.349  31.118   3.465  1.00 25.00           C
ATOM    140  CA  SER   140     -13.138  30.175   1.604  1.00 25.00           C
ATOM    141  CA  GLY   141     -15.015  27.432  -0.297  1.00 25.00           C
ATOM    142  CA  ARG   142     -17.761  29.930  -1.240  1.00 25.00           C
ATOM    143  CA  GLU   143     -15.115  32.409  -2.475  1.00 25.00           C
ATOM    144  CA  LEU   144     -13.474  29.653  -4.567  1.00 25.00           C
ATOM    145  CA  MET   145     -10.488  28.987  -2.291  1.00 25.00           C
ATOM    146  CA  ARG   146      -9.436  26.640  -5.094  1.00 25.00           C
ATOM    147  CA  ASP   147      -7.391  29.622  -6.224  1.00 25.00           C
ATOM    148  CA  GLY   148      -4.722  28.713  -3.664  1.00 25.00           C
ATOM    149  CA  GLU   149      -3.804  29.106  -0.038  1.00 25.00           C
ATOM    150  CA  TRP   150      -1.226  29.412   2.664  1.00 25.00           C
ATOM    151  CA  LEU   151      -2.865  27.213   5.290  1.00 25.00           C
TER
END
