
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0366TS393_3
# Molecule2: number of CA atoms   84 (  589),  selected   84 , name T0366.pdb
# PARAMETERS: T0366TS393_3.T0366.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       1      -       -           -
LGA    E       2      -       -           -
LGA    N       3      -       -           -
LGA    L       4      -       -           -
LGA    Y       5      -       -           -
LGA    F       6      -       -           -
LGA    Q       7      -       -           -
LGA    S       8      -       -           -
LGA    M       9      -       -           -
LGA    G      10      -       -           -
LGA    L      11      L      11          1.901
LGA    R      12      R      12          2.033
LGA    T      13      T      13          1.648
LGA    V      14      V      14          2.328
LGA    E      15      E      15          2.135
LGA    M      16      M      16          2.368
LGA    K      17      K      17          3.367
LGA    K      18      -       -           -
LGA    G      19      K      18          2.220
LGA    P      20      -       -           -
LGA    T      21      -       -           -
LGA    D      22      -       -           -
LGA    S      23      S      23          1.952
LGA    L      24      L      24          0.800
LGA    G      25      G      25          0.947
LGA    I      26      I      26          0.659
LGA    S      27      S      27          2.111
LGA    I      28      I      28          2.207
LGA    A      29      A      29          1.685
LGA    G      30      G      30          2.057
LGA    G      31      G      31          3.029
LGA    V      32      V      32          2.338
LGA    G      33      G      33          0.904
LGA    S      34      S      34          2.961
LGA    P      35      P      35          3.224
LGA    L      36      L      36          2.848
LGA    G      37      G      37          3.418
LGA    D      38      D      38          3.734
LGA    V      39      V      39          1.522
LGA    P      40      P      40          1.258
LGA    I      41      I      41          0.547
LGA    F      42      F      42          0.775
LGA    I      43      I      43          0.628
LGA    A      44      A      44          0.943
LGA    M      45      M      45          1.609
LGA    M      46      M      46          0.572
LGA    H      47      H      47          0.504
LGA    P      48      P      48          1.489
LGA    T      49      T      49          1.473
LGA    G      50      G      50          1.573
LGA    V      51      V      51          1.136
LGA    A      52      A      52          1.903
LGA    A      53      A      53          1.254
LGA    Q      54      Q      54          2.272
LGA    T      55      T      55          2.507
LGA    Q      56      Q      56          1.280
LGA    K      57      K      57          1.552
LGA    L      58      L      58          0.996
LGA    R      59      R      59          0.802
LGA    V      60      V      60          0.475
LGA    G      61      G      61          0.488
LGA    D      62      D      62          0.723
LGA    R      63      R      63          1.001
LGA    I      64      I      64          0.826
LGA    V      65      V      65          3.155
LGA    T      66      T      66          2.323
LGA    I      67      I      67          2.524
LGA    C      68      C      68          2.429
LGA    G      69      G      69          2.787
LGA    T      70      T      70          3.590
LGA    S      71      S      71          5.692
LGA    T      72      T      72          2.141
LGA    E      73      E      73          1.120
LGA    G      74      G      74          1.545
LGA    M      75      M      75          1.243
LGA    T      76      T      76          1.289
LGA    H      77      H      77          0.210
LGA    T      78      T      78          0.537
LGA    Q      79      Q      79          0.390
LGA    A      80      A      80          0.542
LGA    V      81      V      81          0.303
LGA    N      82      N      82          0.770
LGA    L      83      L      83          1.160
LGA    L      84      L      84          1.041
LGA    K      85      K      85          1.171
LGA    N      86      N      86          2.405
LGA    A      87      A      87          2.090
LGA    S      88      S      88          1.194
LGA    G      89      G      89          2.261
LGA    S      90      S      90          0.647
LGA    I      91      I      91          0.650
LGA    E      92      E      92          1.423
LGA    M      93      M      93          1.714
LGA    Q      94      Q      94          1.635
LGA    V      95      V      95          1.410
LGA    V      96      V      96          1.394
LGA    A      97      A      97          1.471
LGA    G      98      G      98          2.401
LGA    G      99      -       -           -
LGA    D     100      -       -           -
LGA    V     101      -       -           -
LGA    S     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    S     105      -       -           -
LGA    V     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106   84    5.0     84    1.92    98.81     88.450     4.159

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.365213 * X  +  -0.630144 * Y  +  -0.685229 * Z  +  10.268286
  Y_new =  -0.327549 * X  +   0.602023 * Y  +  -0.728203 * Z  +  22.924603
  Z_new =   0.871396 * X  +   0.490395 * Y  +   0.013464 * Z  +  11.136766 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.543348   -1.598245  [ DEG:    88.4273    -91.5727 ]
  Theta =  -1.058041   -2.083551  [ DEG:   -60.6213   -119.3787 ]
  Phi   =  -0.731083    2.410509  [ DEG:   -41.8880    138.1120 ]
 
# 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: T0366TS393_3                                  
REMARK     2: T0366.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0366TS393_3.T0366.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106   84   5.0   84   1.92   98.81  88.450
REMARK  ---------------------------------------------------------- 
MOLECULE T0366TS393_3
PFRMAT TS
TARGET T0366
MODEL 3
PARENT N/A
ATOM      1  CA  THR     1      24.378  50.033   7.283  1.00 25.00           C
ATOM      2  CA  GLU     2      28.124  49.949   6.734  1.00 25.00           C
ATOM      3  CA  ASN     3      28.490  47.689   9.802  1.00 25.00           C
ATOM      4  CA  LEU     4      27.658  44.231  11.135  1.00 25.00           C
ATOM      5  CA  TYR     5      25.033  41.575  12.034  1.00 25.00           C
ATOM      6  CA  PHE     6      27.098  38.894  13.801  1.00 25.00           C
ATOM      7  CA  GLN     7      25.305  35.590  13.242  1.00 25.00           C
ATOM      8  CA  SER     8      23.014  33.989  10.731  1.00 25.00           C
ATOM      9  CA  MET     9      19.932  34.892  12.698  1.00 25.00           C
ATOM     10  CA  GLY    10      16.127  34.799  12.697  1.00 25.00           C
ATOM     11  CA  LEU    11      16.222  31.003  12.446  1.00 25.00           C
ATOM     12  CA  ARG    12      14.654  31.075   9.034  1.00 25.00           C
ATOM     13  CA  THR    13      11.308  30.150   7.381  1.00 25.00           C
ATOM     14  CA  VAL    14       9.292  26.999   6.557  1.00 25.00           C
ATOM     15  CA  GLU    15       5.902  28.322   5.309  1.00 25.00           C
ATOM     16  CA  MET    16       4.166  24.972   5.170  1.00 25.00           C
ATOM     17  CA  LYS    17       1.481  25.925   2.565  1.00 25.00           C
ATOM     18  CA  LYS    18      -0.242  22.740   3.831  1.00 25.00           C
ATOM     19  CA  GLY    19      -3.193  21.610   1.817  1.00 25.00           C
ATOM     20  CA  PRO    20      -6.570  20.683   3.410  1.00 25.00           C
ATOM     21  CA  THR    21      -7.037  17.032   2.455  1.00 25.00           C
ATOM     22  CA  ASP    22      -3.457  15.972   1.721  1.00 25.00           C
ATOM     23  CA  SER    23      -1.071  17.292   4.291  1.00 25.00           C
ATOM     24  CA  LEU    24       2.378  18.507   5.271  1.00 25.00           C
ATOM     25  CA  GLY    25       3.297  14.812   4.855  1.00 25.00           C
ATOM     26  CA  ILE    26       6.070  15.498   7.394  1.00 25.00           C
ATOM     27  CA  SER    27       6.595  14.536  11.097  1.00 25.00           C
ATOM     28  CA  ILE    28       6.665  14.221  14.895  1.00 25.00           C
ATOM     29  CA  ALA    29       9.360  12.049  16.478  1.00 25.00           C
ATOM     30  CA  GLY    30      12.399  13.351  18.316  1.00 25.00           C
ATOM     31  CA  GLY    31      12.286  14.860  21.822  1.00 25.00           C
ATOM     32  CA  VAL    32      12.150  16.410  25.277  1.00 25.00           C
ATOM     33  CA  GLY    33      10.077  14.510  27.863  1.00 25.00           C
ATOM     34  CA  SER    34      11.772  11.168  26.974  1.00 25.00           C
ATOM     35  CA  PRO    35      15.399  11.117  25.715  1.00 25.00           C
ATOM     36  CA  LEU    36      17.364  13.406  23.383  1.00 25.00           C
ATOM     37  CA  GLY    37      17.700  15.851  26.328  1.00 25.00           C
ATOM     38  CA  ASP    38      16.821  19.515  25.806  1.00 25.00           C
ATOM     39  CA  VAL    39      15.964  18.819  22.158  1.00 25.00           C
ATOM     40  CA  PRO    40      13.191  20.983  20.787  1.00 25.00           C
ATOM     41  CA  ILE    41      10.994  19.184  18.318  1.00 25.00           C
ATOM     42  CA  PHE    42      12.151  17.543  15.103  1.00 25.00           C
ATOM     43  CA  ILE    43      11.549  16.454  11.543  1.00 25.00           C
ATOM     44  CA  ALA    44      12.226  12.672  11.416  1.00 25.00           C
ATOM     45  CA  MET    45      10.416  12.943   8.042  1.00 25.00           C
ATOM     46  CA  MET    46       9.830  13.408   4.312  1.00 25.00           C
ATOM     47  CA  HIS    47       7.160  11.824   2.067  1.00 25.00           C
ATOM     48  CA  PRO    48       7.728  12.866  -1.555  1.00 25.00           C
ATOM     49  CA  THR    49       5.396  14.113  -4.250  1.00 25.00           C
ATOM     50  CA  GLY    50       3.439  15.561  -1.263  1.00 25.00           C
ATOM     51  CA  VAL    51       3.212  19.221  -0.276  1.00 25.00           C
ATOM     52  CA  ALA    52       6.547  18.713   1.490  1.00 25.00           C
ATOM     53  CA  ALA    53       9.734  18.175  -0.563  1.00 25.00           C
ATOM     54  CA  GLN    54       7.937  19.396  -3.717  1.00 25.00           C
ATOM     55  CA  THR    55       6.792  22.650  -1.999  1.00 25.00           C
ATOM     56  CA  GLN    56      10.451  23.160  -1.069  1.00 25.00           C
ATOM     57  CA  LYS    57      12.858  23.783   1.788  1.00 25.00           C
ATOM     58  CA  LEU    58      11.581  21.627   4.630  1.00 25.00           C
ATOM     59  CA  ARG    59      14.373  19.139   5.252  1.00 25.00           C
ATOM     60  CA  VAL    60      15.300  16.070   7.257  1.00 25.00           C
ATOM     61  CA  GLY    61      16.708  17.271  10.592  1.00 25.00           C
ATOM     62  CA  ASP    62      14.919  20.556  11.105  1.00 25.00           C
ATOM     63  CA  ARG    63      15.389  21.728  14.745  1.00 25.00           C
ATOM     64  CA  ILE    64      11.739  22.750  14.765  1.00 25.00           C
ATOM     65  CA  VAL    65       8.862  24.313  16.775  1.00 25.00           C
ATOM     66  CA  THR    66       5.589  26.327  16.671  1.00 25.00           C
ATOM     67  CA  ILE    67       1.971  26.345  15.607  1.00 25.00           C
ATOM     68  CA  CYS    68       2.145  30.039  14.604  1.00 25.00           C
ATOM     69  CA  GLY    69       2.587  30.661  18.297  1.00 25.00           C
ATOM     70  CA  THR    70       0.686  28.515  20.769  1.00 25.00           C
ATOM     71  CA  SER    71       2.388  25.699  22.711  1.00 25.00           C
ATOM     72  CA  THR    72       5.906  24.564  21.688  1.00 25.00           C
ATOM     73  CA  GLU    73       8.640  25.669  24.130  1.00 25.00           C
ATOM     74  CA  GLY    74       8.657  22.025  25.234  1.00 25.00           C
ATOM     75  CA  MET    75       6.039  19.734  23.654  1.00 25.00           C
ATOM     76  CA  THR    76       5.821  15.983  24.545  1.00 25.00           C
ATOM     77  CA  HIS    77       6.086  14.875  20.899  1.00 25.00           C
ATOM     78  CA  THR    78       2.347  14.051  21.022  1.00 25.00           C
ATOM     79  CA  GLN    79       1.524  17.752  21.558  1.00 25.00           C
ATOM     80  CA  ALA    80       3.736  18.701  18.580  1.00 25.00           C
ATOM     81  CA  VAL    81       1.980  16.081  16.409  1.00 25.00           C
ATOM     82  CA  ASN    82      -1.434  17.452  17.472  1.00 25.00           C
ATOM     83  CA  LEU    83      -0.304  21.007  16.605  1.00 25.00           C
ATOM     84  CA  LEU    84       0.906  19.811  13.173  1.00 25.00           C
ATOM     85  CA  LYS    85      -2.457  18.082  12.563  1.00 25.00           C
ATOM     86  CA  ASN    86      -4.310  21.289  13.537  1.00 25.00           C
ATOM     87  CA  ALA    87      -3.699  24.087  11.006  1.00 25.00           C
ATOM     88  CA  SER    88      -5.413  24.137   7.609  1.00 25.00           C
ATOM     89  CA  GLY    89      -4.062  25.971   4.564  1.00 25.00           C
ATOM     90  CA  SER    90      -1.635  28.285   6.295  1.00 25.00           C
ATOM     91  CA  ILE    91       0.398  26.770   9.070  1.00 25.00           C
ATOM     92  CA  GLU    92       4.014  27.352  10.264  1.00 25.00           C
ATOM     93  CA  MET    93       6.817  25.336  11.758  1.00 25.00           C
ATOM     94  CA  GLN    94       8.754  28.404  12.887  1.00 25.00           C
ATOM     95  CA  VAL    95      11.636  26.611  11.138  1.00 25.00           C
ATOM     96  CA  VAL    96      15.236  25.999  11.926  1.00 25.00           C
ATOM     97  CA  ALA    97      18.058  24.667   9.793  1.00 25.00           C
ATOM     98  CA  GLY    98      20.034  21.467  10.180  1.00 25.00           C
ATOM     99  CA  GLY    99      23.794  22.210  10.044  1.00 25.00           C
ATOM    100  CA  ASP   100      26.645  24.389   8.815  1.00 25.00           C
ATOM    101  CA  VAL   101      28.168  27.323   6.934  1.00 25.00           C
ATOM    102  CA  SER   102      30.618  26.113   4.368  1.00 25.00           C
ATOM    103  CA  GLU   103      31.234  28.036   1.200  1.00 25.00           C
ATOM    104  CA  THR   104      31.853  30.763  -1.374  1.00 25.00           C
ATOM    105  CA  SER   105      29.122  32.477  -3.385  1.00 25.00           C
ATOM    106  CA  VAL   106      25.562  33.643  -4.165  1.00 25.00           C
TER
END
