
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0300TS168_3
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS168_3.T0300  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       7           -
LGA    A       2      K       8           -
LGA    S       3      T       9           -
LGA    K       4      Y      10           -
LGA    -       -      E      11           -
LGA    -       -      E      12           -
LGA    -       -      M      13           -
LGA    -       -      V      14           -
LGA    -       -      K      15           -
LGA    -       -      E      16           -
LGA    -       -      V      17           -
LGA    -       -      E      18           -
LGA    -       -      R      19           -
LGA    -       -      L      20           -
LGA    -       -      K      21           -
LGA    -       -      L      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    -       -      K      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      Q      29           -
LGA    -       -      K      30           -
LGA    -       -      V      31           -
LGA    -       -      S      39           -
LGA    -       -      D      40           -
LGA    -       -      D      41           -
LGA    -       -      S      42           -
LGA    -       -      I      43           -
LGA    -       -      L      44           -
LGA    K       5      T      45           #
LGA    P       6      A      46          2.078
LGA    D       7      A      47          1.620
LGA    K       8      K      48          3.160
LGA    -       -      R      49           -
LGA    -       -      E      50           -
LGA    T       9      S      51          1.856
LGA    Y      10      I      52          2.852
LGA    -       -      I      53           -
LGA    -       -      V      54           -
LGA    E      11      S      55          1.496
LGA    E      12      S      56          2.139
LGA    M      13      S      57          2.232
LGA    V      14      R      58          1.275
LGA    K      15      A      59          0.388
LGA    E      16      L      60          0.754
LGA    V      17      G      61          1.171
LGA    E      18      A      62          1.223
LGA    R      19      V      63          0.811
LGA    L      20      A      64          0.778
LGA    K      21      M      65          1.284
LGA    L      22      R      66          1.179
LGA    E      23      K      67          0.643
LGA    N      24      I      68          0.540
LGA    K      25      E      69          0.771
LGA    T      26      A      70          0.796
LGA    L      27      K      71          0.605
LGA    K      28      V      72          0.627
LGA    Q      29      R      73          0.969
LGA    K      30      S      74          0.820
LGA    V      31      R      75          0.942
LGA    K      32      A      76          2.094
LGA    S      33      A      77          2.782
LGA    S      34      K      78          4.742
LGA    G      35      A      79           -
LGA    A      36      V      80           -
LGA    V      37      T      81           -
LGA    S      38      E      82           -
LGA    S      39      -       -           -
LGA    D      40      -       -           -
LGA    D      41      -       -           -
LGA    S      42      -       -           -
LGA    I      43      -       -           -
LGA    L      44      -       -           -
LGA    T      45      Q      83          5.363
LGA    A      46      E      84          4.276
LGA    A      47      L      85           -
LGA    K      48      T      86           -
LGA    -       -      S      87           -
LGA    R      49      L      88          2.438
LGA    E      50      L      89          2.181
LGA    S      51      Q      90          1.521
LGA    I      52      S      91          1.362
LGA    I      53      L      92          2.038
LGA    V      54      -       -           -
LGA    S      55      T      93          1.859
LGA    S      56      L      94          2.740
LGA    S      57      -       -           -
LGA    R      58      -       -           -
LGA    A      59      R      95          2.120
LGA    L      60      V      96          2.870
LGA    G      61      -       -           -
LGA    A      62      -       -           -
LGA    V      63      -       -           -
LGA    A      64      D      97          1.081
LGA    M      65      V      98          3.378
LGA    R      66      -       -           -
LGA    K      67      -       -           -
LGA    I      68      S      99          2.218
LGA    E      69      M     100           #
LGA    A      70      -       -           -
LGA    K      71      -       -           -
LGA    V      72      E     101           #
LGA    R      73      E     102           -
LGA    S      74      -       -           -
LGA    R      75      -       -           -
LGA    A      76      -       -           -
LGA    A      77      -       -           -
LGA    K      78      -       -           -
LGA    A      79      -       -           -
LGA    V      80      -       -           -
LGA    T      81      -       -           -
LGA    E      82      -       -           -
LGA    Q      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    T      86      -       -           -
LGA    S      87      -       -           -
LGA    L      88      -       -           -
LGA    L      89      -       -           -
LGA    Q      90      -       -           -
LGA    S      91      -       -           -
LGA    L      92      -       -           -
LGA    T      93      -       -           -
LGA    L      94      -       -           -
LGA    R      95      -       -           -
LGA    V      96      -       -           -
LGA    D      97      -       -           -
LGA    V      98      -       -           -
LGA    S      99      -       -           -
LGA    M     100      -       -           -
LGA    E     101      -       -           -
LGA    E     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   89    5.0     43    2.14     2.33     40.267     1.920

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.740192 * X  +   0.602016 * Y  +   0.299486 * Z  +  34.932980
  Y_new =   0.370059 * X  +   0.736611 * Y  +  -0.566092 * Z  + -20.929287
  Z_new =  -0.561402 * X  +  -0.308190 * Y  +  -0.768015 * Z  +   4.882607 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.759983    0.381610  [ DEG:  -158.1354     21.8646 ]
  Theta =   0.596079    2.545514  [ DEG:    34.1528    145.8472 ]
  Phi   =   2.677985   -0.463607  [ DEG:   153.4373    -26.5627 ]
 
# 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: T0300TS168_3                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS168_3.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   43   2.14    2.33  40.267
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS168_3
PFRMAT TS
TARGET T0300
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      56.753 -20.214  -0.823  1.00 25.00           C
ATOM      2  CA  ALA     2      59.427 -20.185  -3.461  1.00 25.00           C
ATOM      3  CA  SER     3      59.166 -20.117  -7.238  1.00 25.00           C
ATOM      4  CA  LYS     4      57.522 -20.676 -10.622  1.00 25.00           C
ATOM      5  CA  LYS     5      54.997 -17.889 -10.860  1.00 25.00           C
ATOM      6  CA  PRO     6      54.130 -15.019 -13.173  1.00 25.00           C
ATOM      7  CA  ASP     7      53.124 -11.381 -13.133  1.00 25.00           C
ATOM      8  CA  LYS     8      49.375 -10.591 -12.883  1.00 25.00           C
ATOM      9  CA  THR     9      48.876  -9.258  -9.296  1.00 25.00           C
ATOM     10  CA  TYR    10      46.292 -12.010  -8.572  1.00 25.00           C
ATOM     11  CA  GLU    11      43.683  -9.211  -8.439  1.00 25.00           C
ATOM     12  CA  GLU    12      40.867 -11.788  -8.743  1.00 25.00           C
ATOM     13  CA  MET    13      42.411 -13.848  -5.908  1.00 25.00           C
ATOM     14  CA  VAL    14      42.648 -10.710  -3.725  1.00 25.00           C
ATOM     15  CA  LYS    15      38.977  -9.896  -4.456  1.00 25.00           C
ATOM     16  CA  GLU    16      37.973 -13.471  -3.522  1.00 25.00           C
ATOM     17  CA  VAL    17      39.949 -13.198  -0.252  1.00 25.00           C
ATOM     18  CA  GLU    18      38.223  -9.873   0.542  1.00 25.00           C
ATOM     19  CA  ARG    19      34.804 -11.455  -0.139  1.00 25.00           C
ATOM     20  CA  LEU    20      35.673 -14.387   2.167  1.00 25.00           C
ATOM     21  CA  LYS    21      36.748 -11.941   4.910  1.00 25.00           C
ATOM     22  CA  LEU    22      33.462 -10.014   4.515  1.00 25.00           C
ATOM     23  CA  GLU    23      31.485 -13.284   4.771  1.00 25.00           C
ATOM     24  CA  ASN    24      33.414 -14.230   7.942  1.00 25.00           C
ATOM     25  CA  LYS    25      32.678 -10.786   9.447  1.00 25.00           C
ATOM     26  CA  THR    26      28.961 -11.192   8.617  1.00 25.00           C
ATOM     27  CA  LEU    27      28.945 -14.649  10.264  1.00 25.00           C
ATOM     28  CA  LYS    28      30.625 -13.198  13.384  1.00 25.00           C
ATOM     29  CA  GLN    29      28.014 -10.399  13.517  1.00 25.00           C
ATOM     30  CA  LYS    30      25.198 -12.977  13.213  1.00 25.00           C
ATOM     31  CA  VAL    31      26.743 -15.036  16.049  1.00 25.00           C
ATOM     32  CA  LYS    32      26.979 -11.898  18.232  1.00 25.00           C
ATOM     33  CA  SER    33      24.363  -9.117  18.569  1.00 25.00           C
ATOM     34  CA  SER    34      21.233 -11.091  19.351  1.00 25.00           C
ATOM     35  CA  GLY    35      17.919 -12.799  20.136  1.00 25.00           C
ATOM     36  CA  ALA    36      16.744 -16.185  18.792  1.00 25.00           C
ATOM     37  CA  VAL    37      16.588 -18.675  21.655  1.00 25.00           C
ATOM     38  CA  SER    38      17.689 -22.136  22.906  1.00 25.00           C
ATOM     39  CA  SER    39      19.018 -25.094  24.921  1.00 25.00           C
ATOM     40  CA  ASP    40      19.287 -23.156  28.180  1.00 25.00           C
ATOM     41  CA  ASP    41      21.186 -20.417  29.916  1.00 25.00           C
ATOM     42  CA  SER    42      24.885 -20.954  30.379  1.00 25.00           C
ATOM     43  CA  ILE    43      28.610 -21.710  30.174  1.00 25.00           C
ATOM     44  CA  LEU    44      29.623 -20.395  26.750  1.00 25.00           C
ATOM     45  CA  THR    45      30.941 -16.930  27.351  1.00 25.00           C
ATOM     46  CA  ALA    46      34.705 -16.219  27.697  1.00 25.00           C
ATOM     47  CA  ALA    47      38.088 -16.934  26.050  1.00 25.00           C
ATOM     48  CA  LYS    48      36.905 -20.446  25.085  1.00 25.00           C
ATOM     49  CA  ARG    49      33.700 -18.980  23.584  1.00 25.00           C
ATOM     50  CA  GLU    50      35.765 -16.445  21.589  1.00 25.00           C
ATOM     51  CA  SER    51      38.019 -19.260  20.300  1.00 25.00           C
ATOM     52  CA  ILE    52      34.940 -21.285  19.261  1.00 25.00           C
ATOM     53  CA  ILE    53      33.522 -18.236  17.429  1.00 25.00           C
ATOM     54  CA  VAL    54      36.862 -17.737  15.622  1.00 25.00           C
ATOM     55  CA  SER    55      36.888 -21.429  14.600  1.00 25.00           C
ATOM     56  CA  SER    56      33.307 -21.113  13.279  1.00 25.00           C
ATOM     57  CA  SER    57      34.293 -18.000  11.279  1.00 25.00           C
ATOM     58  CA  ARG    58      37.299 -19.865   9.812  1.00 25.00           C
ATOM     59  CA  ALA    59      35.037 -22.798   8.841  1.00 25.00           C
ATOM     60  CA  LEU    60      32.583 -20.383   7.163  1.00 25.00           C
ATOM     61  CA  GLY    61      35.466 -18.756   5.235  1.00 25.00           C
ATOM     62  CA  ALA    62      36.686 -22.206   4.101  1.00 25.00           C
ATOM     63  CA  VAL    63      33.147 -23.102   2.940  1.00 25.00           C
ATOM     64  CA  ALA    64      32.925 -19.811   0.995  1.00 25.00           C
ATOM     65  CA  MET    65      36.308 -20.526  -0.651  1.00 25.00           C
ATOM     66  CA  ARG    66      35.124 -24.038  -1.616  1.00 25.00           C
ATOM     67  CA  LYS    67      31.920 -22.571  -3.117  1.00 25.00           C
ATOM     68  CA  ILE    68      33.984 -20.038  -5.112  1.00 25.00           C
ATOM     69  CA  GLU    69      36.239 -22.851  -6.401  1.00 25.00           C
ATOM     70  CA  ALA    70      33.159 -24.877  -7.440  1.00 25.00           C
ATOM     71  CA  LYS    71      31.742 -21.827  -9.272  1.00 25.00           C
ATOM     72  CA  VAL    72      35.082 -21.330 -11.079  1.00 25.00           C
ATOM     73  CA  ARG    73      35.106 -25.020 -12.100  1.00 25.00           C
ATOM     74  CA  SER    74      31.526 -24.705 -13.421  1.00 25.00           C
ATOM     75  CA  ARG    75      32.513 -21.592 -15.423  1.00 25.00           C
ATOM     76  CA  ALA    76      35.518 -23.457 -16.889  1.00 25.00           C
ATOM     77  CA  ALA    77      37.376 -26.765 -16.363  1.00 25.00           C
ATOM     78  CA  LYS    78      39.845 -26.588 -13.418  1.00 25.00           C
ATOM     79  CA  ALA    79      40.861 -24.478 -10.386  1.00 25.00           C
ATOM     80  CA  VAL    80      39.643 -27.238  -8.027  1.00 25.00           C
ATOM     81  CA  THR    81      40.563 -30.482  -9.726  1.00 25.00           C
ATOM     82  CA  GLU    82      42.323 -31.762  -6.538  1.00 25.00           C
ATOM     83  CA  GLN    83      45.414 -32.901  -4.585  1.00 25.00           C
ATOM     84  CA  GLU    84      46.098 -29.288  -3.514  1.00 25.00           C
ATOM     85  CA  LEU    85      42.464 -28.915  -2.366  1.00 25.00           C
ATOM     86  CA  THR    86      42.735 -32.167  -0.363  1.00 25.00           C
ATOM     87  CA  SER    87      45.970 -30.922   1.267  1.00 25.00           C
ATOM     88  CA  LEU    88      44.268 -27.612   2.172  1.00 25.00           C
ATOM     89  CA  LEU    89      41.319 -29.517   3.700  1.00 25.00           C
ATOM     90  CA  GLN    90      43.738 -31.676   5.739  1.00 25.00           C
ATOM     91  CA  SER    91      41.447 -34.573   4.703  1.00 25.00           C
ATOM     92  CA  LEU    92      37.964 -35.836   5.263  1.00 25.00           C
ATOM     93  CA  THR    93      35.691 -37.208   2.479  1.00 25.00           C
ATOM     94  CA  LEU    94      32.239 -37.538   4.039  1.00 25.00           C
ATOM     95  CA  ARG    95      29.195 -39.654   4.895  1.00 25.00           C
ATOM     96  CA  VAL    96      26.346 -37.455   5.936  1.00 25.00           C
ATOM     97  CA  ASP    97      22.948 -37.967   7.524  1.00 25.00           C
ATOM     98  CA  VAL    98      20.445 -35.069   7.413  1.00 25.00           C
ATOM     99  CA  SER    99      17.592 -32.811   8.580  1.00 25.00           C
ATOM    100  CA  MET   100      14.586 -32.439   6.186  1.00 25.00           C
ATOM    101  CA  GLU   101      12.725 -30.060   3.859  1.00 25.00           C
ATOM    102  CA  GLU   102      15.039 -27.067   3.834  1.00 25.00           C
TER
END
