
#######################################################
#                                                     #
#                        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  156 (  156),  selected  156 , name T0364TS168_2
# Molecule2: number of CA atoms  153 ( 1220),  selected  153 , name T0364.pdb
# PARAMETERS: T0364TS168_2.T0364.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    P       2      P       2          1.732
LGA    A       3      A       3          1.870
LGA    L       4      L       4          1.376
LGA    I       5      I       5          2.353
LGA    -       -      T       6           -
LGA    T       6      Y       7          2.318
LGA    Y       7      R       8          2.884
LGA    R       8      T       9          3.786
LGA    T       9      T      10           #
LGA    T      10      V      11           #
LGA    V      11      Q      12          2.205
LGA    Q      12      E      13          4.043
LGA    E      13      D      14          4.571
LGA    D      14      W      15          4.290
LGA    W      15      V      16          1.038
LGA    V      16      D      17          1.647
LGA    D      17      Y      18          1.513
LGA    Y      18      N      19          5.307
LGA    N      19      G      20           -
LGA    G      20      -       -           -
LGA    H      21      -       -           -
LGA    L      22      H      21          3.610
LGA    R      23      L      22           #
LGA    D      24      -       -           -
LGA    A      25      -       -           -
LGA    F      26      -       -           -
LGA    Y      27      R      23          2.627
LGA    L      28      D      24          2.908
LGA    L      29      A      25          2.310
LGA    I      30      F      26          1.593
LGA    F      31      Y      27          1.891
LGA    S      32      L      28          1.940
LGA    Y      33      L      29          1.977
LGA    A      34      I      30          1.838
LGA    T      35      F      31          1.585
LGA    D      36      S      32          2.071
LGA    A      37      Y      33          2.475
LGA    L      38      A      34          2.104
LGA    M      39      T      35          2.024
LGA    D      40      D      36          2.790
LGA    R      41      A      37          2.909
LGA    I      42      L      38          2.358
LGA    G      43      M      39          4.765
LGA    L      44      D      40          5.486
LGA    D      45      R      41           -
LGA    A      46      I      42           -
LGA    D      47      G      43           -
LGA    S      48      -       -           -
LGA    R      49      -       -           -
LGA    G      50      L      44          3.974
LGA    Q      51      -       -           -
LGA    S      52      -       -           -
LGA    G      53      D      45          4.114
LGA    -       -      A      46           -
LGA    -       -      D      47           -
LGA    -       -      S      48           -
LGA    -       -      R      49           -
LGA    N      54      G      50          5.271
LGA    -       -      Q      51           -
LGA    -       -      S      52           -
LGA    -       -      G      53           -
LGA    -       -      N      54           -
LGA    S      55      S      55          1.477
LGA    L      56      L      56          1.348
LGA    F      57      F      57          0.576
LGA    T      58      T      58          0.677
LGA    L      59      L      59          1.750
LGA    E      60      E      60          2.549
LGA    A      61      A      61          1.055
LGA    H      62      H      62          3.338
LGA    I      63      I      63          0.697
LGA    N      64      N      64          0.991
LGA    Y      65      Y      65          1.279
LGA    L      66      L      66          1.741
LGA    H      67      H      67          0.678
LGA    E      68      E      68          3.926
LGA    V      69      V      69          1.806
LGA    K      70      K      70          4.883
LGA    L      71      L      71           #
LGA    G      72      G      72          1.995
LGA    T      73      T      73          2.764
LGA    E      74      E      74          3.375
LGA    V      75      V      75          3.456
LGA    W      76      W      76          2.330
LGA    V      77      V      77          1.597
LGA    Q      78      Q      78          0.940
LGA    T      79      T      79          0.861
LGA    Q      80      Q      80          0.762
LGA    I      81      I      81          2.536
LGA    L      82      L      82          3.507
LGA    G      83      G      83          0.911
LGA    F      84      F      84          1.577
LGA    D      85      D      85          4.207
LGA    R      86      R      86           -
LGA    K      87      K      87           #
LGA    R      88      R      88          3.370
LGA    L      89      L      89          3.094
LGA    H      90      H      90          3.401
LGA    V      91      V      91          2.660
LGA    Y      92      Y      92          2.331
LGA    H      93      H      93          1.544
LGA    S      94      S      94          1.591
LGA    L      95      L      95          1.328
LGA    H      96      H      96          1.327
LGA    R      97      R      97          3.152
LGA    A      98      A      98          5.017
LGA    G      99      G      99          2.609
LGA    F     100      F     100          3.413
LGA    D     101      D     101          1.371
LGA    E     102      E     102          2.480
LGA    V     103      V     103          2.773
LGA    L     104      L     104          2.023
LGA    A     105      A     105          3.252
LGA    A     106      A     106          3.167
LGA    S     107      S     107          3.406
LGA    E     108      E     108          3.969
LGA    Q     109      Q     109           #
LGA    M     110      -       -           -
LGA    L     111      M     110          3.680
LGA    L     112      L     111          1.004
LGA    H     113      L     112          1.846
LGA    V     114      H     113          2.660
LGA    D     115      V     114          2.291
LGA    -       -      D     115           -
LGA    -       -      L     116           -
LGA    L     116      Q     120          0.676
LGA    A     117      S     121           #
LGA    G     118      A     122           -
LGA    P     119      -       -           -
LGA    Q     120      -       -           -
LGA    S     121      -       -           -
LGA    A     122      -       -           -
LGA    P     123      P     123           #
LGA    F     124      F     124          2.605
LGA    G     125      G     125          2.046
LGA    H     126      H     126           #
LGA    T     127      T     127           #
LGA    T     128      T     128          4.354
LGA    V     129      V     129          3.899
LGA    C     130      C     130          3.664
LGA    R     131      R     131          2.134
LGA    L     132      L     132          0.869
LGA    N     133      N     133          2.490
LGA    H     134      H     134          1.324
LGA    L     135      L     135          1.432
LGA    V     136      V     136          3.030
LGA    E     137      E     137          3.613
LGA    Q     138      Q     138          3.348
LGA    Q     139      Q     139          4.303
LGA    E     140      E     140           #
LGA    G     141      G     141           -
LGA    A     142      A     142           -
LGA    Q     143      Q     143           -
LGA    A     144      A     144           -
LGA    P     145      P     145           -
LGA    Q     146      Q     146           -
LGA    Y     147      Y     147           -
LGA    M     148      M     148           -
LGA    G     149      G     149           -
LGA    R     150      R     150           -
LGA    T     151      T     151           -
LGA    I     152      I     152           -
LGA    K     153      K     153           -
LGA    L     154      L     154           -
LGA    P     155      P     155           -
LGA    A     156      A     156           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  156  153    5.0    108    2.78    65.74     41.097     3.747

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.840692 * X  +  -0.427732 * Y  +  -0.332088 * Z  +  45.152538
  Y_new =  -0.169736 * X  +  -0.374210 * Y  +   0.911678 * Z  +  10.103895
  Z_new =  -0.514224 * X  +   0.822808 * Y  +   0.241994 * Z  +   6.173003 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.284754   -1.856839  [ DEG:    73.6110   -106.3890 ]
  Theta =   0.540103    2.601490  [ DEG:    30.9456    149.0544 ]
  Phi   =  -2.942370    0.199222  [ DEG:  -168.5854     11.4146 ]
 
# 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: T0364TS168_2                                  
REMARK     2: T0364.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0364TS168_2.T0364.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  156  153   5.0  108   2.78   65.74  41.097
REMARK  ---------------------------------------------------------- 
MOLECULE T0364TS168_2
PFRMAT TS
TARGET T0364
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      28.247   9.248   9.223  1.00 25.00           C
ATOM      2  CA  PRO     2      29.837  11.932   7.035  1.00 25.00           C
ATOM      3  CA  ALA     3      33.416  12.524   8.117  1.00 25.00           C
ATOM      4  CA  LEU     4      36.599  12.025   6.044  1.00 25.00           C
ATOM      5  CA  ILE     5      38.971  11.505   3.094  1.00 25.00           C
ATOM      6  CA  THR     6      38.890   8.422   0.771  1.00 25.00           C
ATOM      7  CA  TYR     7      41.484   7.893  -1.973  1.00 25.00           C
ATOM      8  CA  ARG     8      43.686   5.279  -3.648  1.00 25.00           C
ATOM      9  CA  THR     9      45.775   2.151  -3.246  1.00 25.00           C
ATOM     10  CA  THR    10      47.378   0.047  -5.999  1.00 25.00           C
ATOM     11  CA  VAL    11      44.734  -2.637  -6.396  1.00 25.00           C
ATOM     12  CA  GLN    12      43.674  -6.305  -6.269  1.00 25.00           C
ATOM     13  CA  GLU    13      45.321  -7.012  -9.679  1.00 25.00           C
ATOM     14  CA  ASP    14      49.053  -7.137  -8.831  1.00 25.00           C
ATOM     15  CA  TRP    15      48.252  -8.676  -5.418  1.00 25.00           C
ATOM     16  CA  VAL    16      47.948 -12.377  -4.444  1.00 25.00           C
ATOM     17  CA  ASP    17      49.965 -14.294  -7.053  1.00 25.00           C
ATOM     18  CA  TYR    18      49.002 -17.999  -7.398  1.00 25.00           C
ATOM     19  CA  ASN    19      50.573 -18.520  -3.973  1.00 25.00           C
ATOM     20  CA  GLY    20      49.579 -18.343  -0.297  1.00 25.00           C
ATOM     21  CA  HIS    21      48.608 -14.990   1.141  1.00 25.00           C
ATOM     22  CA  LEU    22      47.301 -11.469   0.911  1.00 25.00           C
ATOM     23  CA  ARG    23      50.938 -10.577   0.319  1.00 25.00           C
ATOM     24  CA  ASP    24      52.049  -9.022   3.570  1.00 25.00           C
ATOM     25  CA  ALA    25      54.546  -6.465   2.196  1.00 25.00           C
ATOM     26  CA  PHE    26      52.132  -5.598  -0.647  1.00 25.00           C
ATOM     27  CA  TYR    27      49.285  -5.147   1.875  1.00 25.00           C
ATOM     28  CA  LEU    28      51.500  -2.859   4.004  1.00 25.00           C
ATOM     29  CA  LEU    29      52.389  -0.794   0.903  1.00 25.00           C
ATOM     30  CA  ILE    30      48.677  -0.487   0.012  1.00 25.00           C
ATOM     31  CA  PHE    31      47.889   0.652   3.584  1.00 25.00           C
ATOM     32  CA  SER    32      50.687   3.260   3.395  1.00 25.00           C
ATOM     33  CA  TYR    33      49.315   4.525   0.051  1.00 25.00           C
ATOM     34  CA  ALA    34      45.805   4.788   1.562  1.00 25.00           C
ATOM     35  CA  THR    35      47.208   6.741   4.542  1.00 25.00           C
ATOM     36  CA  ASP    36      49.042   9.111   2.156  1.00 25.00           C
ATOM     37  CA  ALA    37      45.815   9.645   0.166  1.00 25.00           C
ATOM     38  CA  LEU    38      43.914  10.401   3.404  1.00 25.00           C
ATOM     39  CA  MET    39      46.613  12.915   4.431  1.00 25.00           C
ATOM     40  CA  ASP    40      46.388  14.596   0.998  1.00 25.00           C
ATOM     41  CA  ARG    41      42.579  14.808   1.323  1.00 25.00           C
ATOM     42  CA  ILE    42      42.939  16.364   4.805  1.00 25.00           C
ATOM     43  CA  GLY    43      45.655  17.228   7.382  1.00 25.00           C
ATOM     44  CA  LEU    44      48.382  17.628   4.711  1.00 25.00           C
ATOM     45  CA  ASP    45      50.696  15.147   6.433  1.00 25.00           C
ATOM     46  CA  ALA    46      50.770  16.641   9.960  1.00 25.00           C
ATOM     47  CA  ASP    47      50.619  20.326  10.995  1.00 25.00           C
ATOM     48  CA  SER    48      54.433  20.415  11.328  1.00 25.00           C
ATOM     49  CA  ARG    49      54.798  18.848   7.853  1.00 25.00           C
ATOM     50  CA  GLY    50      52.396  21.453   6.399  1.00 25.00           C
ATOM     51  CA  GLN    51      54.403  24.264   8.053  1.00 25.00           C
ATOM     52  CA  SER    52      55.765  25.683   4.789  1.00 25.00           C
ATOM     53  CA  GLY    53      56.655  22.784   2.539  1.00 25.00           C
ATOM     54  CA  ASN    54      58.392  19.888   4.396  1.00 25.00           C
ATOM     55  CA  SER    55      56.585  16.886   2.931  1.00 25.00           C
ATOM     56  CA  LEU    56      55.776  14.227   5.535  1.00 25.00           C
ATOM     57  CA  PHE    57      59.134  12.570   6.452  1.00 25.00           C
ATOM     58  CA  THR    58      56.852   9.719   7.541  1.00 25.00           C
ATOM     59  CA  LEU    59      57.670   8.076  10.854  1.00 25.00           C
ATOM     60  CA  GLU    60      55.021   7.495  13.500  1.00 25.00           C
ATOM     61  CA  ALA    61      54.401   3.799  12.929  1.00 25.00           C
ATOM     62  CA  HIS    62      53.519   0.990  10.555  1.00 25.00           C
ATOM     63  CA  ILE    63      50.240  -0.852  11.193  1.00 25.00           C
ATOM     64  CA  ASN    64      47.285  -2.519  12.851  1.00 25.00           C
ATOM     65  CA  TYR    65      46.728  -5.039   9.992  1.00 25.00           C
ATOM     66  CA  LEU    66      43.622  -7.201   9.790  1.00 25.00           C
ATOM     67  CA  HIS    67      40.589  -8.568   7.867  1.00 25.00           C
ATOM     68  CA  GLU    68      38.537  -8.017   4.663  1.00 25.00           C
ATOM     69  CA  VAL    69      39.313  -7.168   1.071  1.00 25.00           C
ATOM     70  CA  LYS    70      35.981  -7.393  -0.807  1.00 25.00           C
ATOM     71  CA  LEU    71      34.211  -6.807  -4.085  1.00 25.00           C
ATOM     72  CA  GLY    72      36.939  -4.782  -5.755  1.00 25.00           C
ATOM     73  CA  THR    73      35.731  -1.855  -3.617  1.00 25.00           C
ATOM     74  CA  GLU    74      38.211  -1.277  -0.750  1.00 25.00           C
ATOM     75  CA  VAL    75      41.204   1.076  -1.168  1.00 25.00           C
ATOM     76  CA  TRP    76      40.123   3.123   1.855  1.00 25.00           C
ATOM     77  CA  VAL    77      41.713   5.327   4.539  1.00 25.00           C
ATOM     78  CA  GLN    78      39.313   7.731   6.377  1.00 25.00           C
ATOM     79  CA  THR    79      41.900   9.855   8.217  1.00 25.00           C
ATOM     80  CA  GLN    80      41.857  11.431  11.699  1.00 25.00           C
ATOM     81  CA  ILE    81      44.523  14.096  11.198  1.00 25.00           C
ATOM     82  CA  LEU    82      44.677  15.458  14.747  1.00 25.00           C
ATOM     83  CA  GLY    83      46.520  15.957  18.002  1.00 25.00           C
ATOM     84  CA  PHE    84      48.828  18.833  17.271  1.00 25.00           C
ATOM     85  CA  ASP    85      50.068  19.556  20.846  1.00 25.00           C
ATOM     86  CA  ARG    86      52.171  16.659  21.998  1.00 25.00           C
ATOM     87  CA  LYS    87      53.569  16.233  18.491  1.00 25.00           C
ATOM     88  CA  ARG    88      52.810  14.630  15.109  1.00 25.00           C
ATOM     89  CA  LEU    89      49.370  13.593  14.084  1.00 25.00           C
ATOM     90  CA  HIS    90      47.518  10.326  14.496  1.00 25.00           C
ATOM     91  CA  VAL    91      46.310   9.085  11.135  1.00 25.00           C
ATOM     92  CA  TYR    92      45.796   5.601  12.653  1.00 25.00           C
ATOM     93  CA  HIS    93      43.066   5.216  10.050  1.00 25.00           C
ATOM     94  CA  SER    94      40.397   2.515   9.865  1.00 25.00           C
ATOM     95  CA  LEU    95      39.356   0.993   6.600  1.00 25.00           C
ATOM     96  CA  HIS    96      36.576  -0.473   4.542  1.00 25.00           C
ATOM     97  CA  ARG    97      35.155  -3.824   3.447  1.00 25.00           C
ATOM     98  CA  ALA    98      31.706  -5.425   3.476  1.00 25.00           C
ATOM     99  CA  GLY    99      28.242  -5.520   5.069  1.00 25.00           C
ATOM    100  CA  PHE   100      28.919  -5.498   8.755  1.00 25.00           C
ATOM    101  CA  ASP   101      31.609  -2.833   8.505  1.00 25.00           C
ATOM    102  CA  GLU   102      35.395  -3.276   8.979  1.00 25.00           C
ATOM    103  CA  VAL   103      39.191  -3.795   9.325  1.00 25.00           C
ATOM    104  CA  LEU   104      40.896  -3.765   5.927  1.00 25.00           C
ATOM    105  CA  ALA   105      44.474  -2.485   5.985  1.00 25.00           C
ATOM    106  CA  ALA   106      45.717   0.219   8.307  1.00 25.00           C
ATOM    107  CA  SER   107      48.428   2.864   8.074  1.00 25.00           C
ATOM    108  CA  GLU   108      50.263   5.400  10.234  1.00 25.00           C
ATOM    109  CA  GLN   109      51.818   6.545   6.973  1.00 25.00           C
ATOM    110  CA  MET   110      50.150   9.936   7.305  1.00 25.00           C
ATOM    111  CA  LEU   111      52.450  11.264  10.090  1.00 25.00           C
ATOM    112  CA  LEU   112      55.361  13.566  10.920  1.00 25.00           C
ATOM    113  CA  HIS   113      58.901  14.807  11.613  1.00 25.00           C
ATOM    114  CA  VAL   114      59.531  17.627   9.170  1.00 25.00           C
ATOM    115  CA  ASP   115      62.149  20.262   8.229  1.00 25.00           C
ATOM    116  CA  LEU   116      65.921  20.035   8.668  1.00 25.00           C
ATOM    117  CA  ALA   117      67.473  22.333  11.258  1.00 25.00           C
ATOM    118  CA  GLY   118      67.872  23.981  14.593  1.00 25.00           C
ATOM    119  CA  PRO   119      66.180  27.325  14.032  1.00 25.00           C
ATOM    120  CA  GLN   120      64.213  30.429  14.864  1.00 25.00           C
ATOM    121  CA  SER   121      60.709  29.232  15.973  1.00 25.00           C
ATOM    122  CA  ALA   122      56.963  28.792  16.050  1.00 25.00           C
ATOM    123  CA  PRO   123      53.491  29.515  14.839  1.00 25.00           C
ATOM    124  CA  PHE   124      52.484  27.266  11.882  1.00 25.00           C
ATOM    125  CA  GLY   125      50.710  28.833   8.887  1.00 25.00           C
ATOM    126  CA  HIS   126      49.606  27.907   5.321  1.00 25.00           C
ATOM    127  CA  THR   127      46.401  26.414   3.852  1.00 25.00           C
ATOM    128  CA  THR   128      47.198  23.040   5.478  1.00 25.00           C
ATOM    129  CA  VAL   129      47.786  24.772   8.842  1.00 25.00           C
ATOM    130  CA  CYS   130      44.444  26.612   8.507  1.00 25.00           C
ATOM    131  CA  ARG   131      42.676  23.308   7.719  1.00 25.00           C
ATOM    132  CA  LEU   132      44.292  21.682  10.787  1.00 25.00           C
ATOM    133  CA  ASN   133      43.158  24.619  12.970  1.00 25.00           C
ATOM    134  CA  HIS   134      39.596  24.291  11.603  1.00 25.00           C
ATOM    135  CA  LEU   135      39.626  20.536  12.356  1.00 25.00           C
ATOM    136  CA  VAL   136      40.838  21.234  15.920  1.00 25.00           C
ATOM    137  CA  GLU   137      38.046  23.815  16.389  1.00 25.00           C
ATOM    138  CA  GLN   138      35.464  21.287  15.121  1.00 25.00           C
ATOM    139  CA  GLN   139      36.812  18.652  17.551  1.00 25.00           C
ATOM    140  CA  GLU   140      34.782  20.452  20.156  1.00 25.00           C
ATOM    141  CA  GLY   141      32.278  23.014  19.022  1.00 25.00           C
ATOM    142  CA  ALA   142      29.394  24.955  17.380  1.00 25.00           C
ATOM    143  CA  GLN   143      25.721  25.061  16.363  1.00 25.00           C
ATOM    144  CA  ALA   144      24.461  28.618  15.878  1.00 25.00           C
ATOM    145  CA  PRO   145      26.286  29.346  12.639  1.00 25.00           C
ATOM    146  CA  GLN   146      23.565  29.489   9.976  1.00 25.00           C
ATOM    147  CA  TYR   147      22.831  28.290   6.488  1.00 25.00           C
ATOM    148  CA  MET   148      25.130  31.014   5.330  1.00 25.00           C
ATOM    149  CA  GLY   149      27.965  29.979   3.026  1.00 25.00           C
ATOM    150  CA  ARG   150      28.847  28.253  -0.296  1.00 25.00           C
ATOM    151  CA  THR   151      29.469  27.015  -3.821  1.00 25.00           C
ATOM    152  CA  ILE   152      32.406  25.626  -5.819  1.00 25.00           C
ATOM    153  CA  LYS   153      32.687  24.724  -9.501  1.00 25.00           C
ATOM    154  CA  LEU   154      35.099  21.993  -8.405  1.00 25.00           C
ATOM    155  CA  PRO   155      37.819  20.881 -10.734  1.00 25.00           C
ATOM    156  CA  ALA   156      41.529  20.014 -10.855  1.00 25.00           C
TER
END
