
#######################################################
#                                                     #
#                        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  160 (  160),  selected  160 , name T0374TS393_4
# Molecule2: number of CA atoms  160 ( 2486),  selected  160 , name T0374.pdb
# PARAMETERS: T0374TS393_4.T0374.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    Q       2      M       1          4.526
LGA    L       3      Q       2          2.937
LGA    S       4      L       3          2.991
LGA    H       5      S       4          4.315
LGA    R       6      H       5          1.468
LGA    P       7      R       6          2.148
LGA    -       -      P       7           -
LGA    A       8      A       8          4.025
LGA    E       9      E       9          5.365
LGA    T      10      T      10           #
LGA    G      11      G      11          1.809
LGA    D      12      D      12          0.968
LGA    L      13      L      13          1.609
LGA    E      14      E      14          1.742
LGA    T      15      T      15          2.457
LGA    V      16      V      16          2.630
LGA    A      17      A      17          1.937
LGA    G      18      G      18          2.587
LGA    F      19      F      19          2.709
LGA    P      20      P      20          2.490
LGA    Q      21      -       -           -
LGA    D      22      -       -           -
LGA    R      23      Q      21          2.090
LGA    D      24      D      22          1.707
LGA    E      25      R      23           #
LGA    L      26      D      24           #
LGA    F      27      -       -           -
LGA    Y      28      E      25          4.442
LGA    C      29      L      26          3.807
LGA    Y      30      F      27          3.931
LGA    P      31      Y      28           -
LGA    K      32      C      29           -
LGA    -       -      Y      30           -
LGA    -       -      P      31           -
LGA    -       -      K      32           -
LGA    A      33      A      33           #
LGA    I      34      I      34          3.387
LGA    W      35      -       -           -
LGA    P      36      W      35           #
LGA    F      37      P      36           #
LGA    S      38      F      37          4.530
LGA    -       -      S      38           -
LGA    V      39      V      39          2.306
LGA    A      40      A      40          2.406
LGA    Q      41      Q      41          2.627
LGA    L      42      L      42          1.911
LGA    A      43      A      43          1.774
LGA    A      44      A      44          2.317
LGA    A      45      A      45          2.299
LGA    I      46      I      46          2.060
LGA    A      47      A      47          2.216
LGA    E      48      E      48          2.725
LGA    R      49      R      49          5.050
LGA    R      50      R      50          1.728
LGA    G      51      G      51          2.341
LGA    S      52      S      52          1.687
LGA    T      53      T      53          1.462
LGA    V      54      V      54          1.436
LGA    A      55      A      55          2.340
LGA    V      56      V      56          0.656
LGA    H      57      H      57          2.463
LGA    D      58      D      58          2.726
LGA    G      59      G      59          3.788
LGA    Q      60      Q      60          3.123
LGA    V      61      V      61          2.444
LGA    L      62      L      62          2.338
LGA    G      63      G      63          1.661
LGA    F      64      F      64          2.364
LGA    A      65      A      65          1.656
LGA    N      66      N      66          3.074
LGA    F      67      F      67          2.849
LGA    Y      68      Y      68          2.839
LGA    Q      69      Q      69          1.375
LGA    W      70      W      70          3.752
LGA    Q      71      Q      71          3.027
LGA    H      72      H      72           #
LGA    G      73      G      73           -
LGA    D      74      D      74          3.673
LGA    F      75      F      75          1.944
LGA    C      76      C      76          1.284
LGA    A      77      A      77          4.465
LGA    L      78      L      78          1.742
LGA    G      79      G      79          3.557
LGA    N      80      N      80          3.398
LGA    M      81      M      81          3.711
LGA    M      82      M      82          2.846
LGA    V      83      V      83          2.662
LGA    A      84      A      84          3.111
LGA    P      85      P      85          3.491
LGA    A      86      A      86          1.839
LGA    A      87      A      87          1.581
LGA    R      88      R      88          3.776
LGA    G      89      G      89          3.307
LGA    L      90      L      90          3.231
LGA    G      91      G      91          1.923
LGA    V      92      V      92          0.846
LGA    A      93      A      93          1.368
LGA    R      94      R      94          1.340
LGA    Y      95      Y      95          0.855
LGA    L      96      L      96          0.572
LGA    I      97      I      97          0.885
LGA    G      98      G      98          1.100
LGA    V      99      V      99          0.870
LGA    M     100      M     100          0.460
LGA    E     101      E     101          1.057
LGA    N     102      N     102          1.497
LGA    L     103      L     103          0.873
LGA    A     104      A     104          0.690
LGA    R     105      R     105          1.653
LGA    E     106      E     106          1.739
LGA    Q     107      Q     107          1.611
LGA    Y     108      Y     108          2.933
LGA    K     109      K     109          3.443
LGA    A     110      A     110          1.961
LGA    R     111      R     111          2.842
LGA    L     112      L     112          2.097
LGA    M     113      M     113          1.672
LGA    K     114      K     114          1.772
LGA    I     115      I     115          2.915
LGA    S     116      S     116          1.971
LGA    C     117      C     117          3.162
LGA    F     118      F     118          2.801
LGA    N     119      N     119          2.298
LGA    A     120      A     120          2.894
LGA    N     121      N     121          1.869
LGA    A     122      A     122          1.231
LGA    A     123      A     123          1.221
LGA    G     124      G     124          0.751
LGA    L     125      L     125          0.530
LGA    L     126      L     126          0.664
LGA    L     127      L     127          0.831
LGA    Y     128      Y     128          1.236
LGA    T     129      T     129          0.894
LGA    Q     130      Q     130          1.177
LGA    L     131      L     131          0.797
LGA    G     132      G     132          1.060
LGA    Y     133      Y     133          1.390
LGA    Q     134      Q     134          1.040
LGA    P     135      P     135          0.966
LGA    R     136      R     136          1.198
LGA    A     137      A     137          2.803
LGA    I     138      I     138          1.936
LGA    A     139      A     139          0.461
LGA    E     140      E     140          1.259
LGA    R     141      R     141          2.146
LGA    H     142      H     142          2.408
LGA    D     143      D     143           -
LGA    -       -      P     144           -
LGA    P     144      D     145           #
LGA    D     145      G     146          2.708
LGA    G     146      R     147          1.834
LGA    R     147      R     148          4.062
LGA    R     148      V     149          2.290
LGA    V     149      A     150          4.970
LGA    A     150      L     151          4.832
LGA    L     151      I     152           #
LGA    I     152      Q     153           #
LGA    Q     153      M     154          3.859
LGA    M     154      D     155          1.179
LGA    D     155      K     156          1.834
LGA    K     156      P     157          2.299
LGA    P     157      L     158          4.501
LGA    L     158      E     159          2.416
LGA    E     159      P     160          3.937
LGA    P     160      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  160  160    5.0    140    2.56    83.57     57.716     5.272

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.232936 * X  +   0.765588 * Y  +   0.599679 * Z  +  16.792610
  Y_new =  -0.918209 * X  +   0.029996 * Y  +  -0.394958 * Z  +  12.116826
  Z_new =  -0.320363 * X  +  -0.642631 * Y  +   0.695983 * Z  +   8.893349 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.745563    2.396030  [ DEG:   -42.7176    137.2824 ]
  Theta =   0.326113    2.815480  [ DEG:    18.6849    161.3151 ]
  Phi   =  -1.819240    1.322353  [ DEG:  -104.2348     75.7652 ]
 
# 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: T0374TS393_4                                  
REMARK     2: T0374.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0374TS393_4.T0374.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  160  160   5.0  140   2.56   83.57  57.716
REMARK  ---------------------------------------------------------- 
MOLECULE T0374TS393_4
PFRMAT TS
TARGET T0374
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      21.548  34.044   3.320  1.00 25.00           C
ATOM      2  CA  GLN     2      21.908  30.660   4.993  1.00 25.00           C
ATOM      3  CA  LEU     3      21.810  28.589   8.193  1.00 25.00           C
ATOM      4  CA  SER     4      18.596  27.689  10.004  1.00 25.00           C
ATOM      5  CA  HIS     5      16.950  24.289   9.396  1.00 25.00           C
ATOM      6  CA  ARG     6      13.390  25.436   9.386  1.00 25.00           C
ATOM      7  CA  PRO     7       9.797  24.468   8.896  1.00 25.00           C
ATOM      8  CA  ALA     8       7.010  25.513   6.553  1.00 25.00           C
ATOM      9  CA  GLU     9       5.093  28.264   4.762  1.00 25.00           C
ATOM     10  CA  THR    10       2.350  27.484   2.230  1.00 25.00           C
ATOM     11  CA  GLY    11       4.516  24.690   0.873  1.00 25.00           C
ATOM     12  CA  ASP    12       7.681  22.598   1.133  1.00 25.00           C
ATOM     13  CA  LEU    13       6.426  18.997   0.774  1.00 25.00           C
ATOM     14  CA  GLU    14       8.194  18.690  -2.608  1.00 25.00           C
ATOM     15  CA  THR    15      11.435  20.022  -1.062  1.00 25.00           C
ATOM     16  CA  VAL    16      11.140  17.491   1.797  1.00 25.00           C
ATOM     17  CA  ALA    17      10.601  14.664  -0.728  1.00 25.00           C
ATOM     18  CA  GLY    18      13.683  15.801  -2.697  1.00 25.00           C
ATOM     19  CA  PHE    19      16.257  15.024  -0.057  1.00 25.00           C
ATOM     20  CA  PRO    20      15.479  11.429  -0.959  1.00 25.00           C
ATOM     21  CA  GLN    21      15.415  10.848  -4.689  1.00 25.00           C
ATOM     22  CA  ASP    22      18.708  12.419  -5.883  1.00 25.00           C
ATOM     23  CA  ARG    23      19.053   9.075  -7.777  1.00 25.00           C
ATOM     24  CA  ASP    24      18.652   6.419  -5.029  1.00 25.00           C
ATOM     25  CA  GLU    25      22.205   5.506  -6.128  1.00 25.00           C
ATOM     26  CA  LEU    26      23.653   7.972  -3.581  1.00 25.00           C
ATOM     27  CA  PHE    27      21.465   6.454  -0.830  1.00 25.00           C
ATOM     28  CA  TYR    28      20.329   4.017   1.901  1.00 25.00           C
ATOM     29  CA  CYS    29      17.557   3.253  -0.557  1.00 25.00           C
ATOM     30  CA  TYR    30      15.693   0.071  -1.515  1.00 25.00           C
ATOM     31  CA  PRO    31      14.572   0.750  -5.112  1.00 25.00           C
ATOM     32  CA  LYS    32      13.262   2.698  -8.100  1.00 25.00           C
ATOM     33  CA  ALA    33       9.753   1.587  -9.197  1.00 25.00           C
ATOM     34  CA  ILE    34       7.595   1.375  -6.054  1.00 25.00           C
ATOM     35  CA  TRP    35       9.135   1.876  -2.615  1.00 25.00           C
ATOM     36  CA  PRO    36       5.578   1.927  -1.408  1.00 25.00           C
ATOM     37  CA  PHE    37       5.620   5.638  -2.049  1.00 25.00           C
ATOM     38  CA  SER    38       5.180   9.191  -3.341  1.00 25.00           C
ATOM     39  CA  VAL    39       3.453  12.363  -2.143  1.00 25.00           C
ATOM     40  CA  ALA    40       0.577  10.563  -0.366  1.00 25.00           C
ATOM     41  CA  GLN    41       3.081   8.702   1.854  1.00 25.00           C
ATOM     42  CA  LEU    42       4.816  12.006   2.710  1.00 25.00           C
ATOM     43  CA  ALA    43       1.438  13.579   3.596  1.00 25.00           C
ATOM     44  CA  ALA    44       0.606  10.586   5.837  1.00 25.00           C
ATOM     45  CA  ALA    45       4.001  10.912   7.577  1.00 25.00           C
ATOM     46  CA  ILE    46       3.384  14.650   8.136  1.00 25.00           C
ATOM     47  CA  ALA    47      -0.068  13.885   9.605  1.00 25.00           C
ATOM     48  CA  GLU    48       1.477  11.270  11.939  1.00 25.00           C
ATOM     49  CA  ARG    49       2.071  13.174  15.122  1.00 25.00           C
ATOM     50  CA  ARG    50       5.854  13.373  15.781  1.00 25.00           C
ATOM     51  CA  GLY    51       6.784  15.835  12.998  1.00 25.00           C
ATOM     52  CA  SER    52       9.370  18.268  11.513  1.00 25.00           C
ATOM     53  CA  THR    53      12.511  20.067  10.440  1.00 25.00           C
ATOM     54  CA  VAL    54      13.387  20.484   6.705  1.00 25.00           C
ATOM     55  CA  ALA    55      15.226  23.235   4.764  1.00 25.00           C
ATOM     56  CA  VAL    56      17.153  26.447   4.627  1.00 25.00           C
ATOM     57  CA  HIS    57      18.181  27.995   1.259  1.00 25.00           C
ATOM     58  CA  ASP    58      18.222  30.630  -1.482  1.00 25.00           C
ATOM     59  CA  GLY    59      15.215  28.691  -2.776  1.00 25.00           C
ATOM     60  CA  GLN    60      16.925  25.366  -3.007  1.00 25.00           C
ATOM     61  CA  VAL    61      16.584  22.986  -0.085  1.00 25.00           C
ATOM     62  CA  LEU    62      19.237  20.321   0.653  1.00 25.00           C
ATOM     63  CA  GLY    63      18.790  19.193   4.277  1.00 25.00           C
ATOM     64  CA  PHE    64      16.198  16.454   5.108  1.00 25.00           C
ATOM     65  CA  ALA    65      15.689  15.697   8.808  1.00 25.00           C
ATOM     66  CA  ASN    66      12.834  13.180   8.805  1.00 25.00           C
ATOM     67  CA  PHE    67      11.971  13.724  12.448  1.00 25.00           C
ATOM     68  CA  TYR    68      10.471  10.760  14.332  1.00 25.00           C
ATOM     69  CA  GLN    69       9.383   8.663  17.295  1.00 25.00           C
ATOM     70  CA  TRP    70       9.068   5.827  19.835  1.00 25.00           C
ATOM     71  CA  GLN    71       6.256   6.836  22.265  1.00 25.00           C
ATOM     72  CA  HIS    72       6.536   4.484  25.286  1.00 25.00           C
ATOM     73  CA  GLY    73       9.852   3.582  26.940  1.00 25.00           C
ATOM     74  CA  ASP    74      12.605   5.618  25.193  1.00 25.00           C
ATOM     75  CA  PHE    75      13.043   7.972  22.238  1.00 25.00           C
ATOM     76  CA  CYS    76      12.682  11.317  20.446  1.00 25.00           C
ATOM     77  CA  ALA    77      14.796  12.811  17.698  1.00 25.00           C
ATOM     78  CA  LEU    78      16.091  11.625  14.369  1.00 25.00           C
ATOM     79  CA  GLY    79      16.494   9.985  10.977  1.00 25.00           C
ATOM     80  CA  ASN    80      17.007  10.794   7.330  1.00 25.00           C
ATOM     81  CA  MET    81      20.505  12.383   7.230  1.00 25.00           C
ATOM     82  CA  MET    82      19.699  12.839   3.504  1.00 25.00           C
ATOM     83  CA  VAL    83      21.951  15.739   2.510  1.00 25.00           C
ATOM     84  CA  ALA    84      22.025  16.418  -1.261  1.00 25.00           C
ATOM     85  CA  PRO    85      25.613  17.312  -2.184  1.00 25.00           C
ATOM     86  CA  ALA    86      25.824  20.710  -3.935  1.00 25.00           C
ATOM     87  CA  ALA    87      23.768  22.312  -1.130  1.00 25.00           C
ATOM     88  CA  ARG    88      26.736  21.315   0.980  1.00 25.00           C
ATOM     89  CA  GLY    89      30.137  20.873   2.736  1.00 25.00           C
ATOM     90  CA  LEU    90      29.886  23.844   5.089  1.00 25.00           C
ATOM     91  CA  GLY    91      26.872  22.940   7.233  1.00 25.00           C
ATOM     92  CA  VAL    92      23.385  21.412   6.629  1.00 25.00           C
ATOM     93  CA  ALA    93      23.551  18.019   8.398  1.00 25.00           C
ATOM     94  CA  ARG    94      24.814  19.717  11.590  1.00 25.00           C
ATOM     95  CA  TYR    95      21.951  22.255  11.401  1.00 25.00           C
ATOM     96  CA  LEU    96      19.425  19.410  10.963  1.00 25.00           C
ATOM     97  CA  ILE    97      20.907  17.595  13.993  1.00 25.00           C
ATOM     98  CA  GLY    98      20.660  20.805  16.068  1.00 25.00           C
ATOM     99  CA  VAL    99      17.006  21.239  15.006  1.00 25.00           C
ATOM    100  CA  MET   100      16.263  17.613  15.988  1.00 25.00           C
ATOM    101  CA  GLU   101      17.918  18.172  19.397  1.00 25.00           C
ATOM    102  CA  ASN   102      15.827  21.339  19.919  1.00 25.00           C
ATOM    103  CA  LEU   103      12.642  19.414  19.018  1.00 25.00           C
ATOM    104  CA  ALA   104      13.581  16.651  21.498  1.00 25.00           C
ATOM    105  CA  ARG   105      14.183  19.270  24.226  1.00 25.00           C
ATOM    106  CA  GLU   106      10.777  20.857  23.488  1.00 25.00           C
ATOM    107  CA  GLN   107       7.446  19.207  22.650  1.00 25.00           C
ATOM    108  CA  TYR   108       6.520  15.864  24.168  1.00 25.00           C
ATOM    109  CA  LYS   109       8.622  14.145  26.813  1.00 25.00           C
ATOM    110  CA  ALA   110      12.296  14.197  25.873  1.00 25.00           C
ATOM    111  CA  ARG   111      14.990  11.568  25.523  1.00 25.00           C
ATOM    112  CA  LEU   112      17.454  10.681  22.751  1.00 25.00           C
ATOM    113  CA  MET   113      18.883  10.298  19.276  1.00 25.00           C
ATOM    114  CA  LYS   114      17.192   7.452  17.307  1.00 25.00           C
ATOM    115  CA  ILE   115      17.746   5.399  14.169  1.00 25.00           C
ATOM    116  CA  SER   116      19.702   2.280  13.071  1.00 25.00           C
ATOM    117  CA  CYS   117      22.938   1.523  11.139  1.00 25.00           C
ATOM    118  CA  PHE   118      25.057   1.825   8.033  1.00 25.00           C
ATOM    119  CA  ASN   119      27.932  -0.570   7.209  1.00 25.00           C
ATOM    120  CA  ALA   120      29.021   0.846   3.887  1.00 25.00           C
ATOM    121  CA  ASN   121      27.506   4.314   4.019  1.00 25.00           C
ATOM    122  CA  ALA   122      30.585   5.447   5.976  1.00 25.00           C
ATOM    123  CA  ALA   123      30.074   9.243   5.979  1.00 25.00           C
ATOM    124  CA  GLY   124      26.719   8.814   7.775  1.00 25.00           C
ATOM    125  CA  LEU   125      28.377   6.555  10.385  1.00 25.00           C
ATOM    126  CA  LEU   126      31.138   9.154  10.919  1.00 25.00           C
ATOM    127  CA  LEU   127      28.503  11.898  11.359  1.00 25.00           C
ATOM    128  CA  TYR   128      26.638   9.732  13.909  1.00 25.00           C
ATOM    129  CA  THR   129      29.902   9.128  15.819  1.00 25.00           C
ATOM    130  CA  GLN   130      30.614  12.891  15.842  1.00 25.00           C
ATOM    131  CA  LEU   131      27.459  14.900  16.688  1.00 25.00           C
ATOM    132  CA  GLY   132      27.808  12.695  19.800  1.00 25.00           C
ATOM    133  CA  TYR   133      27.067   8.966  20.013  1.00 25.00           C
ATOM    134  CA  GLN   134      26.967   5.177  19.531  1.00 25.00           C
ATOM    135  CA  PRO   135      27.317   1.965  17.418  1.00 25.00           C
ATOM    136  CA  ARG   136      25.002  -0.436  19.279  1.00 25.00           C
ATOM    137  CA  ALA   137      21.710  -0.772  17.364  1.00 25.00           C
ATOM    138  CA  ILE   138      22.249  -2.573  14.057  1.00 25.00           C
ATOM    139  CA  ALA   139      19.827  -5.389  13.239  1.00 25.00           C
ATOM    140  CA  GLU   140      20.020  -5.914   9.506  1.00 25.00           C
ATOM    141  CA  ARG   141      16.513  -6.835   8.511  1.00 25.00           C
ATOM    142  CA  HIS   142      15.458  -7.640   4.895  1.00 25.00           C
ATOM    143  CA  ASP   143      13.370 -10.136   3.009  1.00 25.00           C
ATOM    144  CA  PRO   144      15.985  -9.769   0.276  1.00 25.00           C
ATOM    145  CA  ASP   145      18.231  -9.801  -2.812  1.00 25.00           C
ATOM    146  CA  GLY   146      21.356  -8.211  -1.521  1.00 25.00           C
ATOM    147  CA  ARG   147      22.775  -5.671   0.891  1.00 25.00           C
ATOM    148  CA  ARG   148      21.403  -3.310   3.507  1.00 25.00           C
ATOM    149  CA  VAL   149      20.811  -0.405   5.939  1.00 25.00           C
ATOM    150  CA  ALA   150      19.105   2.313   7.962  1.00 25.00           C
ATOM    151  CA  LEU   151      20.664   5.526   9.272  1.00 25.00           C
ATOM    152  CA  ILE   152      22.638   6.417  12.333  1.00 25.00           C
ATOM    153  CA  GLN   153      22.274   7.741  15.828  1.00 25.00           C
ATOM    154  CA  MET   154      21.950   6.307  19.334  1.00 25.00           C
ATOM    155  CA  ASP   155      22.569   8.172  22.588  1.00 25.00           C
ATOM    156  CA  LYS   156      23.558   9.252  26.110  1.00 25.00           C
ATOM    157  CA  PRO   157      24.310  12.748  27.230  1.00 25.00           C
ATOM    158  CA  LEU   158      22.094  15.810  27.553  1.00 25.00           C
ATOM    159  CA  GLU   159      21.144  17.129  31.033  1.00 25.00           C
ATOM    160  CA  PRO   160      23.178  20.343  30.806  1.00 25.00           C
TER
END
