
#######################################################
#                                                     #
#                        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_1-D1
# Molecule2: number of CA atoms  144 ( 1104),  selected  144 , name T0370_D1.pdb
# PARAMETERS: T0370TS168_1-D1.T0370_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T       8           -
LGA    -       -      A       9           -
LGA    -       -      K      10           -
LGA    -       -      Q      11           -
LGA    -       -      R      12           -
LGA    -       -      I      13           -
LGA    T       8      Q      14          4.004
LGA    -       -      D      15           -
LGA    -       -      T      16           -
LGA    A       9      L      17          1.681
LGA    K      10      N      18          2.392
LGA    Q      11      R      19          3.460
LGA    R      12      L      20          5.314
LGA    I      13      E      21          5.161
LGA    -       -      L      22           -
LGA    Q      14      D      23          4.044
LGA    D      15      V      24           -
LGA    T      16      D      25           -
LGA    L      17      A      26           #
LGA    N      18      -       -           -
LGA    R      19      -       -           -
LGA    L      20      W      27           #
LGA    E      21      V      28           -
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    A      33      -       -           -
LGA    D      34      -       -           -
LGA    G      35      -       -           -
LGA    G      36      -       -           -
LGA    A      37      -       -           -
LGA    P      38      -       -           -
LGA    Y      39      S      29          1.345
LGA    L      40      T      30          2.575
LGA    V      41      -       -           -
LGA    P      42      -       -           -
LGA    L      43      -       -           -
LGA    S      44      -       -           -
LGA    Y      45      -       -           -
LGA    L      46      -       -           -
LGA    W      47      -       -           -
LGA    D      48      -       -           -
LGA    G      49      -       -           -
LGA    E      50      -       -           -
LGA    T      51      -       -           -
LGA    F      52      -       -           -
LGA    L      53      -       -           -
LGA    V      54      -       -           -
LGA    A      55      -       -           -
LGA    T      56      -       -           -
LGA    P      57      A      31          2.786
LGA    A      58      G      32          1.570
LGA    A      59      A      33          1.455
LGA    S      60      D      34          1.196
LGA    P      61      -       -           -
LGA    T      62      -       -           -
LGA    G      63      -       -           -
LGA    R      64      G      35          4.798
LGA    N      65      G      36          1.302
LGA    L      66      A      37          2.268
LGA    S      67      -       -           -
LGA    E      68      -       -           -
LGA    T      69      -       -           -
LGA    G      70      P      38          2.077
LGA    R      71      Y      39          4.233
LGA    V      72      L      40          1.694
LGA    R      73      V      41          1.961
LGA    L      74      P      42          5.035
LGA    -       -      L      43           -
LGA    -       -      S      44           -
LGA    -       -      Y      45           -
LGA    -       -      L      46           -
LGA    -       -      W      47           -
LGA    -       -      D      48           -
LGA    -       -      G      49           -
LGA    -       -      E      50           -
LGA    -       -      T      51           -
LGA    -       -      F      52           -
LGA    -       -      L      53           -
LGA    -       -      V      54           -
LGA    -       -      A      55           -
LGA    G      75      T      56          3.837
LGA    I      76      P      57           #
LGA    -       -      A      58           -
LGA    -       -      A      59           -
LGA    -       -      S      60           -
LGA    -       -      P      61           -
LGA    -       -      T      62           -
LGA    G      77      G      63          1.306
LGA    P      78      R      64          3.661
LGA    -       -      N      65           -
LGA    -       -      L      66           -
LGA    T      79      S      67          2.259
LGA    -       -      E      68           -
LGA    -       -      T      69           -
LGA    R      80      G      70          3.892
LGA    D      81      R      71          1.754
LGA    L      82      V      72          3.587
LGA    V      83      R      73          2.837
LGA    L      84      L      74          2.484
LGA    V      85      G      75          3.465
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    E      86      V      85          3.308
LGA    G      87      E      86           -
LGA    T      88      G      87           -
LGA    A      89      T      88           -
LGA    L      90      A      89           -
LGA    P      91      L      90           -
LGA    -       -      P      91           -
LGA    -       -      L      92           -
LGA    -       -      E      93           -
LGA    -       -      P      94           -
LGA    -       -      A      95           -
LGA    -       -      G      96           -
LGA    -       -      L      97           -
LGA    -       -      P      98           -
LGA    -       -      D      99           -
LGA    -       -      G     100           -
LGA    L      92      V     101          3.784
LGA    E      93      G     102          3.263
LGA    -       -      D     103           -
LGA    -       -      T     104           -
LGA    -       -      F     105           -
LGA    -       -      A     106           -
LGA    -       -      E     107           -
LGA    -       -      K     108           -
LGA    -       -      T     109           -
LGA    -       -      G     110           -
LGA    -       -      F     111           -
LGA    -       -      D     112           -
LGA    -       -      P     113           -
LGA    P      94      R     114           #
LGA    A      95      R     115           -
LGA    G      96      L     116           -
LGA    L      97      T     117           -
LGA    P      98      T     118           -
LGA    D      99      S     119           -
LGA    -       -      Y     120           -
LGA    G     100      L     121          3.140
LGA    V     101      Y     122          3.704
LGA    G     102      F     123          1.128
LGA    D     103      R     124          3.374
LGA    T     104      I     125          4.018
LGA    F     105      S     126           #
LGA    A     106      -       -           -
LGA    E     107      P     127          3.734
LGA    K     108      R     128          3.222
LGA    T     109      -       -           -
LGA    G     110      -       -           -
LGA    F     111      -       -           -
LGA    D     112      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    P     113      M     145          1.987
LGA    R     114      R     146          2.119
LGA    R     115      D     147          2.843
LGA    L     116      G     148           -
LGA    T     117      E     149           -
LGA    T     118      W     150           -
LGA    S     119      L     151           -
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     44    3.15     9.09     16.812     1.355

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.535769 * X  +  -0.365478 * Y  +  -0.761168 * Z  +   3.727530
  Y_new =  -0.744887 * X  +  -0.629084 * Y  +  -0.222252 * Z  +  30.248528
  Z_new =  -0.397611 * X  +   0.686060 * Y  +  -0.609284 * Z  +  12.661850 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.296993   -0.844600  [ DEG:   131.6080    -48.3920 ]
  Theta =   0.408912    2.732681  [ DEG:    23.4289    156.5711 ]
  Phi   =  -0.947259    2.194333  [ DEG:   -54.2740    125.7260 ]
 
# 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_1-D1                               
REMARK     2: T0370_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0370TS168_1-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   44   3.15    9.09  16.812
REMARK  ---------------------------------------------------------- 
MOLECULE T0370TS168_1-D1
PFRMAT TS
TARGET T0370
MODEL 1
PARENT N/A
ATOM      8  CA  THR     8      18.139  39.584  25.652  1.00 25.00           C
ATOM      9  CA  ALA     9      15.028  37.438  25.033  1.00 25.00           C
ATOM     10  CA  LYS    10      13.477  40.247  22.942  1.00 25.00           C
ATOM     11  CA  GLN    11      16.705  40.543  20.902  1.00 25.00           C
ATOM     12  CA  ARG    12      16.712  36.759  20.318  1.00 25.00           C
ATOM     13  CA  ILE    13      13.060  36.903  19.176  1.00 25.00           C
ATOM     14  CA  GLN    14      13.898  39.765  16.772  1.00 25.00           C
ATOM     15  CA  ASP    15      16.837  37.754  15.364  1.00 25.00           C
ATOM     16  CA  THR    16      14.555  34.717  14.872  1.00 25.00           C
ATOM     17  CA  LEU    17      11.986  36.910  13.066  1.00 25.00           C
ATOM     18  CA  ASN    18      14.738  38.311  10.801  1.00 25.00           C
ATOM     19  CA  ARG    19      15.929  34.759  10.009  1.00 25.00           C
ATOM     20  CA  LEU    20      12.341  33.718   9.164  1.00 25.00           C
ATOM     21  CA  GLU    21      11.974  36.759   6.866  1.00 25.00           C
ATOM     22  CA  LEU    22      13.869  34.508   4.427  1.00 25.00           C
ATOM     23  CA  ASP    23      16.483  31.864   5.468  1.00 25.00           C
ATOM     24  CA  VAL    24      15.506  29.758   8.491  1.00 25.00           C
ATOM     25  CA  ASP    25      14.643  26.158   7.512  1.00 25.00           C
ATOM     26  CA  ALA    26      10.912  27.023   7.522  1.00 25.00           C
ATOM     27  CA  TRP    27      11.588  30.077   5.313  1.00 25.00           C
ATOM     28  CA  VAL    28      13.604  27.906   2.885  1.00 25.00           C
ATOM     29  CA  SER    29      10.745  25.360   2.753  1.00 25.00           C
ATOM     30  CA  THR    30       8.242  28.170   2.042  1.00 25.00           C
ATOM     31  CA  ALA    31       8.683  27.527  -1.683  1.00 25.00           C
ATOM     32  CA  GLY    32      11.248  24.810  -2.272  1.00 25.00           C
ATOM     33  CA  ALA    33      13.474  21.980  -1.000  1.00 25.00           C
ATOM     34  CA  ASP    34      15.275  21.898   2.333  1.00 25.00           C
ATOM     35  CA  GLY    35      13.604  18.546   3.092  1.00 25.00           C
ATOM     36  CA  GLY    36      11.239  20.610   5.324  1.00 25.00           C
ATOM     37  CA  ALA    37       8.634  22.494   7.420  1.00 25.00           C
ATOM     38  CA  PRO    38       5.491  22.690   9.573  1.00 25.00           C
ATOM     39  CA  TYR    39       4.983  26.337  10.672  1.00 25.00           C
ATOM     40  CA  LEU    40       1.199  25.968  10.550  1.00 25.00           C
ATOM     41  CA  VAL    41      -0.825  26.733  13.686  1.00 25.00           C
ATOM     42  CA  PRO    42       0.893  28.957  16.209  1.00 25.00           C
ATOM     43  CA  LEU    43       0.867  32.717  16.327  1.00 25.00           C
ATOM     44  CA  SER    44       0.379  34.896  13.264  1.00 25.00           C
ATOM     45  CA  TYR    45       2.389  35.736  10.185  1.00 25.00           C
ATOM     46  CA  LEU    46       3.092  39.482   9.686  1.00 25.00           C
ATOM     47  CA  TRP    47       0.717  41.765  11.655  1.00 25.00           C
ATOM     48  CA  ASP    48       0.812  45.097  13.489  1.00 25.00           C
ATOM     49  CA  GLY    49       4.591  44.836  12.910  1.00 25.00           C
ATOM     50  CA  GLU    50       5.175  41.250  14.059  1.00 25.00           C
ATOM     51  CA  THR    51       5.196  37.478  14.230  1.00 25.00           C
ATOM     52  CA  PHE    52       5.228  33.645  13.837  1.00 25.00           C
ATOM     53  CA  LEU    53       3.763  30.596  12.110  1.00 25.00           C
ATOM     54  CA  VAL    54       0.128  30.406  10.991  1.00 25.00           C
ATOM     55  CA  ALA    55      -2.984  28.668   9.524  1.00 25.00           C
ATOM     56  CA  THR    56      -3.640  24.913   9.560  1.00 25.00           C
ATOM     57  CA  PRO    57      -2.964  21.207   9.937  1.00 25.00           C
ATOM     58  CA  ALA    58      -4.768  17.876   9.808  1.00 25.00           C
ATOM     59  CA  ALA    59      -5.011  14.605  11.710  1.00 25.00           C
ATOM     60  CA  SER    60      -4.318  13.095   8.313  1.00 25.00           C
ATOM     61  CA  PRO    61      -2.580   9.986   9.678  1.00 25.00           C
ATOM     62  CA  THR    62      -2.016   7.173   7.223  1.00 25.00           C
ATOM     63  CA  GLY    63      -2.053   9.632   4.259  1.00 25.00           C
ATOM     64  CA  ARG    64       1.559  10.523   4.984  1.00 25.00           C
ATOM     65  CA  ASN    65       0.943  13.982   3.427  1.00 25.00           C
ATOM     66  CA  LEU    66      -1.226  16.298   5.597  1.00 25.00           C
ATOM     67  CA  SER    67      -2.232  17.856   2.314  1.00 25.00           C
ATOM     68  CA  GLU    68       1.322  18.569   1.070  1.00 25.00           C
ATOM     69  CA  THR    69       3.087  19.390   4.301  1.00 25.00           C
ATOM     70  CA  GLY    70       2.274  22.809   5.709  1.00 25.00           C
ATOM     71  CA  ARG    71       4.263  26.040   5.267  1.00 25.00           C
ATOM     72  CA  VAL    72       2.737  29.211   6.795  1.00 25.00           C
ATOM     73  CA  ARG    73      -0.182  31.523   5.903  1.00 25.00           C
ATOM     74  CA  LEU    74      -1.903  34.317   7.834  1.00 25.00           C
ATOM     75  CA  GLY    75      -3.939  33.522  10.967  1.00 25.00           C
ATOM     76  CA  ILE    76      -4.261  31.153  13.999  1.00 25.00           C
ATOM     77  CA  GLY    77      -5.743  27.646  13.691  1.00 25.00           C
ATOM     78  CA  PRO    78      -7.526  24.983  15.775  1.00 25.00           C
ATOM     79  CA  THR    79      -5.533  22.305  17.599  1.00 25.00           C
ATOM     80  CA  ARG    80      -2.796  24.905  18.065  1.00 25.00           C
ATOM     81  CA  ASP    81      -0.245  22.256  17.217  1.00 25.00           C
ATOM     82  CA  LEU    82       0.831  21.884  13.633  1.00 25.00           C
ATOM     83  CA  VAL    83       3.792  23.925  15.013  1.00 25.00           C
ATOM     84  CA  LEU    84       5.852  27.054  15.350  1.00 25.00           C
ATOM     85  CA  VAL    85       8.666  29.607  15.261  1.00 25.00           C
ATOM     86  CA  GLU    86       8.558  29.154  19.052  1.00 25.00           C
ATOM     87  CA  GLY    87       5.360  31.060  18.731  1.00 25.00           C
ATOM     88  CA  THR    88       5.312  34.804  19.241  1.00 25.00           C
ATOM     89  CA  ALA    89       2.317  37.080  19.631  1.00 25.00           C
ATOM     90  CA  LEU    90      -1.195  38.445  18.918  1.00 25.00           C
ATOM     91  CA  PRO    91      -2.963  40.679  21.421  1.00 25.00           C
ATOM     92  CA  LEU    92      -1.972  38.756  24.550  1.00 25.00           C
ATOM     93  CA  GLU    93      -4.364  39.377  27.370  1.00 25.00           C
ATOM     94  CA  PRO    94      -7.846  38.861  28.680  1.00 25.00           C
ATOM     95  CA  ALA    95      -7.128  35.141  28.371  1.00 25.00           C
ATOM     96  CA  GLY    96      -4.746  32.200  28.004  1.00 25.00           C
ATOM     97  CA  LEU    97      -4.262  29.090  25.852  1.00 25.00           C
ATOM     98  CA  PRO    98      -7.779  27.947  25.246  1.00 25.00           C
ATOM     99  CA  ASP    99     -10.480  30.583  24.849  1.00 25.00           C
ATOM    100  CA  GLY   100     -10.852  32.165  21.368  1.00 25.00           C
ATOM    101  CA  VAL   101      -8.093  29.780  20.145  1.00 25.00           C
ATOM    102  CA  GLY   102      -4.474  30.936  20.297  1.00 25.00           C
ATOM    103  CA  ASP   103      -2.150  33.077  22.408  1.00 25.00           C
ATOM    104  CA  THR   104       1.486  32.085  22.202  1.00 25.00           C
ATOM    105  CA  PHE   105       0.942  28.403  21.461  1.00 25.00           C
ATOM    106  CA  ALA   106       3.427  25.954  19.948  1.00 25.00           C
ATOM    107  CA  GLU   107       5.315  23.312  21.905  1.00 25.00           C
ATOM    108  CA  LYS   108       6.582  20.376  23.945  1.00 25.00           C
ATOM    109  CA  THR   109       4.611  19.831  27.205  1.00 25.00           C
ATOM    110  CA  GLY   110       6.118  22.839  28.976  1.00 25.00           C
ATOM    111  CA  PHE   111       9.783  22.259  28.097  1.00 25.00           C
ATOM    112  CA  ASP   112      13.293  20.973  28.690  1.00 25.00           C
ATOM    113  CA  PRO   113      14.846  22.847  25.731  1.00 25.00           C
ATOM    114  CA  ARG   114      15.369  20.295  22.924  1.00 25.00           C
ATOM    115  CA  ARG   115      12.102  18.541  23.876  1.00 25.00           C
ATOM    116  CA  LEU   116      10.071  16.442  21.438  1.00 25.00           C
ATOM    117  CA  THR   117      13.218  15.611  19.488  1.00 25.00           C
ATOM    118  CA  THR   118      13.412  18.507  17.129  1.00 25.00           C
ATOM    119  CA  SER   119      10.915  21.258  16.381  1.00 25.00           C
ATOM    120  CA  TYR   120       8.517  22.499  13.754  1.00 25.00           C
ATOM    121  CA  LEU   121      10.269  25.689  12.451  1.00 25.00           C
ATOM    122  CA  TYR   122      11.064  29.277  11.599  1.00 25.00           C
ATOM    123  CA  PHE   123       8.283  30.972   9.744  1.00 25.00           C
ATOM    124  CA  ARG   124       7.007  34.185   8.053  1.00 25.00           C
ATOM    125  CA  ILE   125       7.975  37.351   9.957  1.00 25.00           C
ATOM    126  CA  SER   126       8.908  40.280   7.646  1.00 25.00           C
ATOM    127  CA  PRO   127       9.553  41.057   4.023  1.00 25.00           C
ATOM    128  CA  ARG   128       8.352  39.431   0.771  1.00 25.00           C
ATOM    129  CA  ARG   129       6.983  36.445   2.740  1.00 25.00           C
ATOM    130  CA  VAL   130       5.155  38.823   5.121  1.00 25.00           C
ATOM    131  CA  GLN   131       3.655  40.698   2.138  1.00 25.00           C
ATOM    132  CA  ALA   132       2.499  37.383   0.605  1.00 25.00           C
ATOM    133  CA  TRP   133       0.896  36.375   3.934  1.00 25.00           C
ATOM    134  CA  ARG   134      -0.896  39.754   4.123  1.00 25.00           C
ATOM    135  CA  GLU   135      -2.175  39.303   0.542  1.00 25.00           C
ATOM    136  CA  ALA   136      -3.443  35.795   1.409  1.00 25.00           C
ATOM    137  CA  ASN   137      -5.228  37.178   4.503  1.00 25.00           C
ATOM    138  CA  GLU   138      -6.845  39.921   2.374  1.00 25.00           C
ATOM    139  CA  LEU   139      -8.002  37.300  -0.168  1.00 25.00           C
ATOM    140  CA  SER   140      -9.488  35.182   2.656  1.00 25.00           C
ATOM    141  CA  GLY   141     -11.319  38.254   4.030  1.00 25.00           C
ATOM    142  CA  ARG   142     -12.702  39.019   0.541  1.00 25.00           C
ATOM    143  CA  GLU   143     -13.895  35.397   0.192  1.00 25.00           C
ATOM    144  CA  LEU   144     -15.602  35.604   3.615  1.00 25.00           C
ATOM    145  CA  MET   145     -13.904  32.388   4.562  1.00 25.00           C
ATOM    146  CA  ARG   146     -13.927  29.842   1.681  1.00 25.00           C
ATOM    147  CA  ASP   147     -11.948  28.472  -1.274  1.00 25.00           C
ATOM    148  CA  GLY   148      -8.356  27.511  -0.465  1.00 25.00           C
ATOM    149  CA  GLU   149      -6.308  27.817   2.707  1.00 25.00           C
ATOM    150  CA  TRP   150      -4.050  25.398   4.596  1.00 25.00           C
ATOM    151  CA  LEU   151      -0.634  26.552   3.527  1.00 25.00           C
TER
END
