
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS168_2.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    -       -      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    K       4      S      42           #
LGA    K       5      I      43          2.658
LGA    P       6      L      44          1.627
LGA    D       7      T      45          4.109
LGA    -       -      A      46           -
LGA    K       8      A      47          4.844
LGA    T       9      K      48          2.285
LGA    Y      10      R      49          1.972
LGA    E      11      E      50          2.035
LGA    -       -      S      51           -
LGA    E      12      I      52          1.188
LGA    M      13      I      53          1.925
LGA    V      14      V      54          2.308
LGA    K      15      S      55          1.723
LGA    E      16      S      56          0.884
LGA    V      17      S      57          0.969
LGA    E      18      R      58          2.096
LGA    R      19      A      59          2.104
LGA    L      20      L      60          0.856
LGA    K      21      G      61          1.509
LGA    L      22      A      62          2.708
LGA    E      23      V      63          2.269
LGA    N      24      A      64          0.647
LGA    K      25      M      65          1.577
LGA    T      26      R      66          2.243
LGA    L      27      K      67          1.980
LGA    K      28      I      68          1.096
LGA    Q      29      E      69          1.315
LGA    K      30      A      70          2.626
LGA    V      31      K      71          2.725
LGA    K      32      V      72          2.502
LGA    S      33      R      73          3.067
LGA    S      34      S      74           #
LGA    G      35      R      75           -
LGA    -       -      A      76           -
LGA    A      36      A      77          4.358
LGA    V      37      K      78          4.049
LGA    S      38      A      79           #
LGA    S      39      V      80          3.346
LGA    D      40      T      81          3.287
LGA    D      41      E      82          4.929
LGA    -       -      Q      83           -
LGA    S      42      E      84          1.561
LGA    I      43      L      85          2.824
LGA    -       -      T      86           -
LGA    -       -      S      87           -
LGA    L      44      L      88          3.983
LGA    T      45      L      89          3.317
LGA    A      46      Q      90          2.327
LGA    A      47      S      91          4.932
LGA    K      48      -       -           -
LGA    R      49      L      92          2.741
LGA    E      50      -       -           -
LGA    S      51      -       -           -
LGA    I      52      T      93          2.935
LGA    I      53      L      94          1.639
LGA    V      54      -       -           -
LGA    S      55      -       -           -
LGA    S      56      R      95          1.954
LGA    S      57      V      96          2.356
LGA    R      58      -       -           -
LGA    A      59      -       -           -
LGA    L      60      D      97          0.750
LGA    G      61      V      98          1.553
LGA    A      62      -       -           -
LGA    V      63      -       -           -
LGA    A      64      S      99          1.845
LGA    M      65      M     100          2.371
LGA    R      66      -       -           -
LGA    K      67      -       -           -
LGA    I      68      E     101          2.497
LGA    E      69      -       -           -
LGA    A      70      -       -           -
LGA    K      71      -       -           -
LGA    V      72      -       -           -
LGA    R      73      -       -           -
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      E     102           #
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     50    2.62    12.00     40.552     1.840

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.171115 * X  +   0.882710 * Y  +   0.437655 * Z  +  32.818714
  Y_new =   0.957298 * X  +  -0.254016 * Y  +   0.138042 * Z  + -16.866629
  Z_new =   0.233023 * X  +   0.395345 * Y  +  -0.888483 * Z  +  -0.622756 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.722932   -0.418660  [ DEG:   156.0125    -23.9875 ]
  Theta =  -0.235185   -2.906408  [ DEG:   -13.4751   -166.5249 ]
  Phi   =   1.393917   -1.747676  [ DEG:    79.8655   -100.1345 ]
 
# 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_2                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS168_2.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   50   2.62   12.00  40.552
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS168_2
PFRMAT TS
TARGET T0300
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      46.008 -28.648 -17.504  1.00 25.00           C
ATOM      2  CA  ALA     2      48.267 -28.885 -20.493  1.00 25.00           C
ATOM      3  CA  SER     3      49.762 -25.682 -21.850  1.00 25.00           C
ATOM      4  CA  LYS     4      48.494 -22.746 -23.857  1.00 25.00           C
ATOM      5  CA  LYS     5      49.562 -19.465 -22.174  1.00 25.00           C
ATOM      6  CA  PRO     6      51.746 -16.692 -20.612  1.00 25.00           C
ATOM      7  CA  ASP     7      51.830 -12.850 -20.649  1.00 25.00           C
ATOM      8  CA  LYS     8      51.934 -11.072 -17.255  1.00 25.00           C
ATOM      9  CA  THR     9      51.928 -13.706 -14.539  1.00 25.00           C
ATOM     10  CA  TYR    10      50.284 -15.381 -11.538  1.00 25.00           C
ATOM     11  CA  GLU    11      50.370 -11.940  -9.859  1.00 25.00           C
ATOM     12  CA  GLU    12      46.801 -11.239 -11.057  1.00 25.00           C
ATOM     13  CA  MET    13      45.647 -14.620  -9.677  1.00 25.00           C
ATOM     14  CA  VAL    14      47.311 -13.844  -6.316  1.00 25.00           C
ATOM     15  CA  LYS    15      45.581 -10.428  -6.220  1.00 25.00           C
ATOM     16  CA  GLU    16      42.211 -12.087  -6.971  1.00 25.00           C
ATOM     17  CA  VAL    17      42.805 -14.623  -4.163  1.00 25.00           C
ATOM     18  CA  GLU    18      43.661 -11.779  -1.744  1.00 25.00           C
ATOM     19  CA  ARG    19      40.464  -9.928  -2.749  1.00 25.00           C
ATOM     20  CA  LEU    20      38.411 -13.110  -2.177  1.00 25.00           C
ATOM     21  CA  LYS    21      40.015 -13.553   1.273  1.00 25.00           C
ATOM     22  CA  LEU    22      39.204  -9.913   2.144  1.00 25.00           C
ATOM     23  CA  GLU    23      35.575 -10.431   1.035  1.00 25.00           C
ATOM     24  CA  ASN    24      35.341 -13.588   3.191  1.00 25.00           C
ATOM     25  CA  LYS    25      36.744 -11.670   6.195  1.00 25.00           C
ATOM     26  CA  THR    26      34.184  -8.876   5.638  1.00 25.00           C
ATOM     27  CA  LEU    27      31.363 -11.461   5.471  1.00 25.00           C
ATOM     28  CA  LYS    28      32.596 -13.054   8.728  1.00 25.00           C
ATOM     29  CA  GLN    29      32.683  -9.613  10.407  1.00 25.00           C
ATOM     30  CA  LYS    30      29.114  -8.911   9.209  1.00 25.00           C
ATOM     31  CA  VAL    31      27.960 -12.293  10.590  1.00 25.00           C
ATOM     32  CA  LYS    32      29.624 -11.516  13.951  1.00 25.00           C
ATOM     33  CA  SER    33      28.773  -7.790  14.170  1.00 25.00           C
ATOM     34  CA  SER    34      24.976  -7.670  14.224  1.00 25.00           C
ATOM     35  CA  GLY    35      22.373  -9.051  16.687  1.00 25.00           C
ATOM     36  CA  ALA    36      20.518 -11.999  18.250  1.00 25.00           C
ATOM     37  CA  VAL    37      20.300 -15.144  20.374  1.00 25.00           C
ATOM     38  CA  SER    38      21.359 -13.164  23.386  1.00 25.00           C
ATOM     39  CA  SER    39      23.917 -12.727  26.117  1.00 25.00           C
ATOM     40  CA  ASP    40      26.046 -10.076  27.825  1.00 25.00           C
ATOM     41  CA  ASP    41      29.042 -12.420  27.837  1.00 25.00           C
ATOM     42  CA  SER    42      32.232 -14.044  26.698  1.00 25.00           C
ATOM     43  CA  ILE    43      33.556 -14.349  23.100  1.00 25.00           C
ATOM     44  CA  LEU    44      33.459 -15.087  19.342  1.00 25.00           C
ATOM     45  CA  THR    45      33.316 -18.730  20.575  1.00 25.00           C
ATOM     46  CA  ALA    46      36.683 -19.725  21.964  1.00 25.00           C
ATOM     47  CA  ALA    47      39.623 -18.270  19.987  1.00 25.00           C
ATOM     48  CA  LYS    48      40.167 -21.647  18.262  1.00 25.00           C
ATOM     49  CA  ARG    49      36.447 -21.816  17.369  1.00 25.00           C
ATOM     50  CA  GLU    50      36.603 -18.269  15.934  1.00 25.00           C
ATOM     51  CA  SER    51      39.678 -19.218  13.858  1.00 25.00           C
ATOM     52  CA  ILE    52      37.861 -22.324  12.544  1.00 25.00           C
ATOM     53  CA  ILE    53      34.827 -20.183  11.608  1.00 25.00           C
ATOM     54  CA  VAL    54      37.106 -17.709   9.777  1.00 25.00           C
ATOM     55  CA  SER    55      38.758 -20.597   7.880  1.00 25.00           C
ATOM     56  CA  SER    56      35.314 -21.956   6.901  1.00 25.00           C
ATOM     57  CA  SER    57      34.267 -18.484   5.670  1.00 25.00           C
ATOM     58  CA  ARG    58      37.483 -18.218   3.607  1.00 25.00           C
ATOM     59  CA  ALA    59      36.823 -21.670   2.085  1.00 25.00           C
ATOM     60  CA  LEU    60      33.244 -20.624   1.207  1.00 25.00           C
ATOM     61  CA  GLY    61      34.556 -17.423  -0.435  1.00 25.00           C
ATOM     62  CA  ALA    62      37.087 -19.468  -2.455  1.00 25.00           C
ATOM     63  CA  VAL    63      34.305 -21.846  -3.581  1.00 25.00           C
ATOM     64  CA  ALA    64      32.149 -18.863  -4.639  1.00 25.00           C
ATOM     65  CA  MET    65      35.089 -17.409  -6.615  1.00 25.00           C
ATOM     66  CA  ARG    66      35.632 -20.785  -8.340  1.00 25.00           C
ATOM     67  CA  LYS    67      31.912 -20.954  -9.234  1.00 25.00           C
ATOM     68  CA  ILE    68      32.070 -17.407 -10.668  1.00 25.00           C
ATOM     69  CA  GLU    69      35.143 -18.356 -12.745  1.00 25.00           C
ATOM     70  CA  ALA    70      33.328 -21.462 -14.059  1.00 25.00           C
ATOM     71  CA  LYS    71      30.293 -19.321 -14.995  1.00 25.00           C
ATOM     72  CA  VAL    72      32.572 -16.847 -16.825  1.00 25.00           C
ATOM     73  CA  ARG    73      34.223 -19.735 -18.722  1.00 25.00           C
ATOM     74  CA  SER    74      30.780 -21.093 -19.702  1.00 25.00           C
ATOM     75  CA  ARG    75      29.733 -17.622 -20.934  1.00 25.00           C
ATOM     76  CA  ALA    76      32.948 -17.356 -22.996  1.00 25.00           C
ATOM     77  CA  ALA    77      32.315 -13.559 -22.730  1.00 25.00           C
ATOM     78  CA  LYS    78      34.001 -12.587 -19.424  1.00 25.00           C
ATOM     79  CA  ALA    79      33.051 -11.645 -15.836  1.00 25.00           C
ATOM     80  CA  VAL    80      29.500 -10.777 -16.980  1.00 25.00           C
ATOM     81  CA  THR    81      25.912 -11.400 -16.091  1.00 25.00           C
ATOM     82  CA  GLU    82      27.149 -14.650 -14.447  1.00 25.00           C
ATOM     83  CA  GLN    83      23.553 -15.911 -14.072  1.00 25.00           C
ATOM     84  CA  GLU    84      24.727 -18.602 -11.612  1.00 25.00           C
ATOM     85  CA  LEU    85      26.631 -15.962  -9.595  1.00 25.00           C
ATOM     86  CA  THR    86      23.509 -13.744  -9.507  1.00 25.00           C
ATOM     87  CA  SER    87      21.405 -16.710  -8.307  1.00 25.00           C
ATOM     88  CA  LEU    88      23.971 -17.453  -5.564  1.00 25.00           C
ATOM     89  CA  LEU    89      23.900 -13.785  -4.469  1.00 25.00           C
ATOM     90  CA  GLN    90      20.072 -13.870  -4.345  1.00 25.00           C
ATOM     91  CA  SER    91      17.970 -12.867  -7.351  1.00 25.00           C
ATOM     92  CA  LEU    92      16.125 -16.156  -6.847  1.00 25.00           C
ATOM     93  CA  THR    93      16.037 -19.645  -8.209  1.00 25.00           C
ATOM     94  CA  LEU    94      16.794 -21.608  -5.062  1.00 25.00           C
ATOM     95  CA  ARG    95      14.036 -23.809  -3.569  1.00 25.00           C
ATOM     96  CA  VAL    96      15.219 -25.323  -0.265  1.00 25.00           C
ATOM     97  CA  ASP    97      15.149 -27.541   2.895  1.00 25.00           C
ATOM     98  CA  VAL    98      13.632 -26.620   6.268  1.00 25.00           C
ATOM     99  CA  SER    99      15.136 -27.308   9.697  1.00 25.00           C
ATOM    100  CA  MET   100      14.424 -30.902  10.639  1.00 25.00           C
ATOM    101  CA  GLU   101      16.828 -33.773   9.898  1.00 25.00           C
ATOM    102  CA  GLU   102      19.807 -31.416  10.290  1.00 25.00           C
TER
END
