
#######################################################
#                                                     #
#                        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_4-D1
# Molecule2: number of CA atoms  144 ( 1104),  selected  144 , name T0370_D1.pdb
# PARAMETERS: T0370TS168_4-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           -
LGA    -       -      K      10           -
LGA    -       -      Q      11           -
LGA    -       -      R      12           -
LGA    -       -      I      13           -
LGA    -       -      Q      14           -
LGA    -       -      D      15           -
LGA    -       -      T      16           -
LGA    -       -      L      17           -
LGA    A       9      N      18           #
LGA    K      10      R      19           -
LGA    Q      11      L      20           -
LGA    -       -      E      21           -
LGA    R      12      L      22          4.013
LGA    I      13      D      23          2.257
LGA    Q      14      V      24          2.845
LGA    D      15      -       -           -
LGA    T      16      -       -           -
LGA    L      17      D      25          1.286
LGA    N      18      A      26          3.771
LGA    R      19      W      27          2.842
LGA    L      20      V      28          3.464
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           -
LGA    -       -      L      40           -
LGA    E      21      V      41          3.489
LGA    L      22      P      42          3.386
LGA    D      23      L      43          4.631
LGA    V      24      -       -           -
LGA    D      25      S      44           #
LGA    A      26      Y      45           -
LGA    W      27      L      46           -
LGA    V      28      W      47           -
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      -       -           -
LGA    L      40      -       -           -
LGA    V      41      -       -           -
LGA    P      42      -       -           -
LGA    L      43      D      48          4.333
LGA    S      44      G      49          4.851
LGA    Y      45      E      50           #
LGA    -       -      T      51           -
LGA    L      46      F      52           #
LGA    W      47      -       -           -
LGA    D      48      -       -           -
LGA    G      49      -       -           -
LGA    E      50      -       -           -
LGA    T      51      -       -           -
LGA    F      52      -       -           -
LGA    L      53      -       -           -
LGA    V      54      L      53          4.194
LGA    A      55      V      54           -
LGA    T      56      A      55           -
LGA    P      57      T      56           -
LGA    A      58      P      57           -
LGA    A      59      A      58           -
LGA    S      60      A      59           -
LGA    P      61      S      60           -
LGA    T      62      P      61           -
LGA    G      63      T      62           -
LGA    R      64      G      63           -
LGA    N      65      R      64           -
LGA    L      66      N      65           -
LGA    S      67      -       -           -
LGA    E      68      -       -           -
LGA    T      69      -       -           -
LGA    G      70      -       -           -
LGA    R      71      -       -           -
LGA    V      72      -       -           -
LGA    R      73      -       -           -
LGA    L      74      -       -           -
LGA    G      75      L      66           #
LGA    I      76      S      67          4.655
LGA    -       -      E      68           -
LGA    G      77      T      69          3.731
LGA    P      78      G      70           #
LGA    T      79      R      71          4.328
LGA    R      80      V      72          0.756
LGA    D      81      R      73          4.732
LGA    L      82      -       -           -
LGA    V      83      -       -           -
LGA    L      84      -       -           -
LGA    V      85      -       -           -
LGA    E      86      -       -           -
LGA    G      87      -       -           -
LGA    T      88      -       -           -
LGA    A      89      -       -           -
LGA    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    V     101      L      74           #
LGA    G     102      G      75          3.178
LGA    -       -      I      76           -
LGA    -       -      G      77           -
LGA    -       -      P      78           -
LGA    -       -      T      79           -
LGA    -       -      R      80           -
LGA    -       -      D      81           -
LGA    -       -      L      82           -
LGA    D     103      V      83          2.244
LGA    T     104      L      84          3.820
LGA    F     105      V      85          2.904
LGA    A     106      E      86          2.673
LGA    E     107      G      87          3.790
LGA    K     108      -       -           -
LGA    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      T      88           #
LGA    S     119      A      89          4.241
LGA    Y     120      L      90          1.486
LGA    L     121      P      91          1.894
LGA    Y     122      L      92          2.747
LGA    -       -      E      93           -
LGA    -       -      P      94           -
LGA    F     123      A      95           #
LGA    R     124      G      96          3.089
LGA    I     125      L      97          3.193
LGA    S     126      P      98          2.452
LGA    P     127      D      99          2.212
LGA    R     128      G     100          2.979
LGA    R     129      V     101          2.350
LGA    V     130      -       -           -
LGA    Q     131      -       -           -
LGA    A     132      G     102          3.380
LGA    W     133      D     103          4.671
LGA    R     134      T     104           #
LGA    E     135      F     105           #
LGA    A     136      A     106          1.878
LGA    N     137      E     107           -
LGA    E     138      K     108           -
LGA    -       -      T     109           -
LGA    L     139      G     110          4.064
LGA    S     140      F     111          2.472
LGA    -       -      D     112           -
LGA    -       -      P     113           -
LGA    -       -      R     114           -
LGA    G     141      R     115          5.078
LGA    R     142      L     116           -
LGA    E     143      -       -           -
LGA    L     144      -       -           -
LGA    M     145      -       -           -
LGA    R     146      -       -           -
LGA    D     147      T     117          4.463
LGA    G     148      T     118          2.096
LGA    E     149      S     119          3.661
LGA    W     150      Y     120          2.490
LGA    -       -      L     121           -
LGA    L     151      Y     122          4.210
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     45    3.43     4.44     16.436     1.274

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.007323 * X  +  -0.413880 * Y  +  -0.910302 * Z  +   0.944213
  Y_new =  -0.813489 * X  +  -0.526935 * Y  +   0.246122 * Z  +  32.939083
  Z_new =  -0.581535 * X  +   0.742323 * Y  +  -0.332828 * Z  +  21.661781 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.992286   -1.149307  [ DEG:   114.1496    -65.8504 ]
  Theta =   0.620614    2.520979  [ DEG:    35.5586    144.4414 ]
  Phi   =  -1.579798    1.561794  [ DEG:   -90.5158     89.4842 ]
 
# 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_4-D1                               
REMARK     2: T0370_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0370TS168_4-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   45   3.43    4.44  16.436
REMARK  ---------------------------------------------------------- 
MOLECULE T0370TS168_4-D1
PFRMAT TS
TARGET T0370
MODEL 4
PARENT N/A
ATOM      8  CA  THR     8      13.388  48.353  15.890  1.00 25.00           C
ATOM      9  CA  ALA     9      11.370  46.354  18.458  1.00 25.00           C
ATOM     10  CA  LYS    10       8.239  46.661  16.273  1.00 25.00           C
ATOM     11  CA  GLN    11      10.219  45.457  13.224  1.00 25.00           C
ATOM     12  CA  ARG    12      11.537  42.471  15.228  1.00 25.00           C
ATOM     13  CA  ILE    13       7.974  41.615  16.342  1.00 25.00           C
ATOM     14  CA  GLN    14       6.768  41.800  12.711  1.00 25.00           C
ATOM     15  CA  ASP    15       9.624  39.495  11.619  1.00 25.00           C
ATOM     16  CA  THR    16       8.712  37.012  14.388  1.00 25.00           C
ATOM     17  CA  LEU    17       5.047  37.083  13.278  1.00 25.00           C
ATOM     18  CA  ASN    18       6.106  36.444   9.654  1.00 25.00           C
ATOM     19  CA  ARG    19       8.278  33.498  10.782  1.00 25.00           C
ATOM     20  CA  LEU    20       5.339  32.063  12.775  1.00 25.00           C
ATOM     21  CA  GLU    21       3.062  32.410   9.715  1.00 25.00           C
ATOM     22  CA  LEU    22       0.756  35.207  11.003  1.00 25.00           C
ATOM     23  CA  ASP    23      -1.289  34.802   7.789  1.00 25.00           C
ATOM     24  CA  VAL    24      -1.886  31.453   9.585  1.00 25.00           C
ATOM     25  CA  ASP    25      -2.946  32.459  13.126  1.00 25.00           C
ATOM     26  CA  ALA    26      -6.500  31.206  12.444  1.00 25.00           C
ATOM     27  CA  TRP    27      -5.106  27.884  11.145  1.00 25.00           C
ATOM     28  CA  VAL    28      -2.937  27.539  14.282  1.00 25.00           C
ATOM     29  CA  SER    29      -5.984  28.230  16.496  1.00 25.00           C
ATOM     30  CA  THR    30      -7.996  25.583  14.594  1.00 25.00           C
ATOM     31  CA  ALA    31     -10.057  26.726  11.645  1.00 25.00           C
ATOM     32  CA  GLY    32     -13.311  26.294  13.674  1.00 25.00           C
ATOM     33  CA  ALA    33     -12.427  24.823  17.104  1.00 25.00           C
ATOM     34  CA  ASP    34     -16.146  24.560  17.479  1.00 25.00           C
ATOM     35  CA  GLY    35     -15.936  28.271  18.468  1.00 25.00           C
ATOM     36  CA  GLY    36     -13.633  28.178  21.492  1.00 25.00           C
ATOM     37  CA  ALA    37     -10.398  30.010  20.683  1.00 25.00           C
ATOM     38  CA  PRO    38      -8.386  33.158  20.962  1.00 25.00           C
ATOM     39  CA  TYR    39      -5.287  30.988  20.837  1.00 25.00           C
ATOM     40  CA  LEU    40      -5.054  31.902  24.550  1.00 25.00           C
ATOM     41  CA  VAL    41      -2.031  33.319  26.410  1.00 25.00           C
ATOM     42  CA  PRO    42      -1.455  37.057  25.633  1.00 25.00           C
ATOM     43  CA  LEU    43       1.992  35.449  25.883  1.00 25.00           C
ATOM     44  CA  SER    44       5.513  36.711  25.178  1.00 25.00           C
ATOM     45  CA  TYR    45       5.179  34.483  22.140  1.00 25.00           C
ATOM     46  CA  LEU    46       6.058  36.499  19.019  1.00 25.00           C
ATOM     47  CA  TRP    47       6.719  39.530  21.193  1.00 25.00           C
ATOM     48  CA  ASP    48       7.478  42.079  23.936  1.00 25.00           C
ATOM     49  CA  GLY    49       4.964  44.682  25.257  1.00 25.00           C
ATOM     50  CA  GLU    50       2.093  42.934  23.402  1.00 25.00           C
ATOM     51  CA  THR    51       1.384  40.469  20.580  1.00 25.00           C
ATOM     52  CA  PHE    52       0.511  36.732  20.397  1.00 25.00           C
ATOM     53  CA  LEU    53      -0.665  33.443  21.905  1.00 25.00           C
ATOM     54  CA  VAL    54       0.412  30.387  23.910  1.00 25.00           C
ATOM     55  CA  ALA    55      -2.205  28.322  25.682  1.00 25.00           C
ATOM     56  CA  THR    56      -3.305  29.276  29.152  1.00 25.00           C
ATOM     57  CA  PRO    57      -5.174  26.495  30.923  1.00 25.00           C
ATOM     58  CA  ALA    58      -6.321  23.921  33.429  1.00 25.00           C
ATOM     59  CA  ALA    59      -6.014  23.495  37.237  1.00 25.00           C
ATOM     60  CA  SER    60      -5.714  27.122  38.455  1.00 25.00           C
ATOM     61  CA  PRO    61      -7.740  27.801  41.602  1.00 25.00           C
ATOM     62  CA  THR    62      -5.111  26.641  44.138  1.00 25.00           C
ATOM     63  CA  GLY    63      -2.713  23.761  43.453  1.00 25.00           C
ATOM     64  CA  ARG    64       0.228  23.770  41.083  1.00 25.00           C
ATOM     65  CA  ASN    65       1.362  27.186  39.710  1.00 25.00           C
ATOM     66  CA  LEU    66       1.757  28.732  36.264  1.00 25.00           C
ATOM     67  CA  SER    67       3.949  31.278  38.054  1.00 25.00           C
ATOM     68  CA  GLU    68       1.295  34.073  38.088  1.00 25.00           C
ATOM     69  CA  THR    69       0.052  33.546  34.525  1.00 25.00           C
ATOM     70  CA  GLY    70       0.498  33.766  30.771  1.00 25.00           C
ATOM     71  CA  ARG    71       3.572  31.616  30.232  1.00 25.00           C
ATOM     72  CA  VAL    72       2.067  28.695  28.339  1.00 25.00           C
ATOM     73  CA  ARG    73       1.680  26.113  25.603  1.00 25.00           C
ATOM     74  CA  LEU    74       1.512  25.534  21.838  1.00 25.00           C
ATOM     75  CA  GLY    75      -1.045  27.481  19.854  1.00 25.00           C
ATOM     76  CA  ILE    76      -3.537  24.654  19.054  1.00 25.00           C
ATOM     77  CA  GLY    77      -3.698  22.485  15.949  1.00 25.00           C
ATOM     78  CA  PRO    78      -2.215  22.711  12.412  1.00 25.00           C
ATOM     79  CA  THR    79       1.262  21.127  12.845  1.00 25.00           C
ATOM     80  CA  ARG    80       2.874  23.230  15.528  1.00 25.00           C
ATOM     81  CA  ASP    81       2.359  26.970  16.182  1.00 25.00           C
ATOM     82  CA  LEU    82       1.356  30.572  15.693  1.00 25.00           C
ATOM     83  CA  VAL    83       2.752  30.944  19.192  1.00 25.00           C
ATOM     84  CA  LEU    84       4.704  29.839  22.285  1.00 25.00           C
ATOM     85  CA  VAL    85       5.824  31.610  25.497  1.00 25.00           C
ATOM     86  CA  GLU    86       6.289  28.019  26.744  1.00 25.00           C
ATOM     87  CA  GLY    87       8.739  27.308  23.917  1.00 25.00           C
ATOM     88  CA  THR    88      11.128  29.677  25.726  1.00 25.00           C
ATOM     89  CA  ALA    89      11.024  33.178  24.103  1.00 25.00           C
ATOM     90  CA  LEU    90      11.325  34.256  27.755  1.00 25.00           C
ATOM     91  CA  PRO    91      14.995  33.558  28.570  1.00 25.00           C
ATOM     92  CA  LEU    92      15.379  29.866  29.405  1.00 25.00           C
ATOM     93  CA  GLU    93      19.178  29.739  29.512  1.00 25.00           C
ATOM     94  CA  PRO    94      19.952  30.487  25.895  1.00 25.00           C
ATOM     95  CA  ALA    95      19.895  27.054  24.362  1.00 25.00           C
ATOM     96  CA  GLY    96      16.165  26.528  23.560  1.00 25.00           C
ATOM     97  CA  LEU    97      14.508  26.050  20.216  1.00 25.00           C
ATOM     98  CA  PRO    98      17.407  24.895  18.048  1.00 25.00           C
ATOM     99  CA  ASP    99      16.044  22.176  15.738  1.00 25.00           C
ATOM    100  CA  GLY   100      13.574  22.884  13.025  1.00 25.00           C
ATOM    101  CA  VAL   101      10.810  24.141  15.275  1.00 25.00           C
ATOM    102  CA  GLY   102      10.782  27.293  13.186  1.00 25.00           C
ATOM    103  CA  ASP   103      13.264  29.740  14.786  1.00 25.00           C
ATOM    104  CA  THR   104      10.827  29.656  17.690  1.00 25.00           C
ATOM    105  CA  PHE   105       7.760  27.618  18.644  1.00 25.00           C
ATOM    106  CA  ALA   106       6.925  24.308  20.196  1.00 25.00           C
ATOM    107  CA  GLU   107       7.441  21.248  22.312  1.00 25.00           C
ATOM    108  CA  LYS   108       9.061  17.837  22.751  1.00 25.00           C
ATOM    109  CA  THR   109       6.599  17.266  25.590  1.00 25.00           C
ATOM    110  CA  GLY   110       8.580  14.837  27.764  1.00 25.00           C
ATOM    111  CA  PHE   111       5.649  13.240  29.467  1.00 25.00           C
ATOM    112  CA  ASP   112       4.606  11.851  26.093  1.00 25.00           C
ATOM    113  CA  PRO   113       1.209  13.417  25.223  1.00 25.00           C
ATOM    114  CA  ARG   114      -1.543  13.543  22.563  1.00 25.00           C
ATOM    115  CA  ARG   115      -4.223  13.339  25.291  1.00 25.00           C
ATOM    116  CA  LEU   116      -3.807  14.513  28.931  1.00 25.00           C
ATOM    117  CA  THR   117      -0.525  16.431  28.852  1.00 25.00           C
ATOM    118  CA  THR   118      -1.096  18.841  25.968  1.00 25.00           C
ATOM    119  CA  SER   119      -2.011  21.641  23.609  1.00 25.00           C
ATOM    120  CA  TYR   120      -4.738  24.258  23.948  1.00 25.00           C
ATOM    121  CA  LEU   121      -7.751  25.845  22.258  1.00 25.00           C
ATOM    122  CA  TYR   122      -8.502  28.073  25.231  1.00 25.00           C
ATOM    123  CA  PHE   123      -9.041  31.560  26.626  1.00 25.00           C
ATOM    124  CA  ARG   124      -8.695  35.250  27.661  1.00 25.00           C
ATOM    125  CA  ILE   125      -6.038  34.813  30.346  1.00 25.00           C
ATOM    126  CA  SER   126      -5.845  36.638  33.689  1.00 25.00           C
ATOM    127  CA  PRO   127      -5.235  40.319  34.323  1.00 25.00           C
ATOM    128  CA  ARG   128      -2.223  41.636  32.358  1.00 25.00           C
ATOM    129  CA  ARG   129      -2.673  38.861  29.758  1.00 25.00           C
ATOM    130  CA  VAL   130      -6.391  39.730  29.438  1.00 25.00           C
ATOM    131  CA  GLN   131      -5.509  43.427  28.961  1.00 25.00           C
ATOM    132  CA  ALA   132      -2.960  42.496  26.260  1.00 25.00           C
ATOM    133  CA  TRP   133      -5.587  40.346  24.486  1.00 25.00           C
ATOM    134  CA  ARG   134      -8.085  43.246  24.617  1.00 25.00           C
ATOM    135  CA  GLU   135      -5.451  45.612  23.157  1.00 25.00           C
ATOM    136  CA  ALA   136      -4.729  43.113  20.345  1.00 25.00           C
ATOM    137  CA  ASN   137      -8.474  42.837  19.595  1.00 25.00           C
ATOM    138  CA  GLU   138      -8.757  46.655  19.479  1.00 25.00           C
ATOM    139  CA  LEU   139      -5.774  46.828  17.083  1.00 25.00           C
ATOM    140  CA  SER   140      -7.389  44.173  14.843  1.00 25.00           C
ATOM    141  CA  GLY   141     -10.671  46.145  14.830  1.00 25.00           C
ATOM    142  CA  ARG   142      -8.778  49.337  13.886  1.00 25.00           C
ATOM    143  CA  GLU   143      -7.014  47.479  11.040  1.00 25.00           C
ATOM    144  CA  LEU   144     -10.381  46.155   9.785  1.00 25.00           C
ATOM    145  CA  MET   145      -8.574  42.798  10.160  1.00 25.00           C
ATOM    146  CA  ARG   146     -11.573  41.521   8.200  1.00 25.00           C
ATOM    147  CA  ASP   147     -14.502  41.294  10.600  1.00 25.00           C
ATOM    148  CA  GLY   148     -13.665  38.474  12.911  1.00 25.00           C
ATOM    149  CA  GLU   149     -11.632  35.569  14.248  1.00 25.00           C
ATOM    150  CA  TRP   150      -9.683  32.677  15.671  1.00 25.00           C
ATOM    151  CA  LEU   151      -6.354  34.504  16.401  1.00 25.00           C
TER
END
