
#######################################################
#                                                     #
#                        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   97 (   97),  selected   97 , name T0363TS168_5
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363TS168_5.T0363.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      L      10           -
LGA    A       2      -       -           -
LGA    H       3      -       -           -
LGA    H       4      -       -           -
LGA    H       5      -       -           -
LGA    H       6      -       -           -
LGA    H       7      -       -           -
LGA    H       8      -       -           -
LGA    S       9      -       -           -
LGA    L      10      -       -           -
LGA    N      11      -       -           -
LGA    Q      12      -       -           -
LGA    I      13      -       -           -
LGA    N      14      -       -           -
LGA    I      15      -       -           -
LGA    E      16      -       -           -
LGA    I      17      -       -           -
LGA    A      18      -       -           -
LGA    Y      19      -       -           -
LGA    A      20      -       -           -
LGA    F      21      -       -           -
LGA    P      22      N      11           #
LGA    E      23      Q      12          3.807
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      I      13          3.778
LGA    L      27      N      14          3.839
LGA    K      28      I      15          2.878
LGA    S      29      -       -           -
LGA    F      30      E      16          1.849
LGA    Q      31      I      17          2.832
LGA    V      32      A      18          1.552
LGA    D      33      Y      19          1.928
LGA    E      34      A      20          1.433
LGA    G      35      F      21          2.265
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    I      36      R      24           #
LGA    T      37      Y      25           #
LGA    V      38      Y      26          4.055
LGA    Q      39      L      27          4.721
LGA    T      40      -       -           -
LGA    A      41      -       -           -
LGA    I      42      -       -           -
LGA    T      43      -       -           -
LGA    Q      44      -       -           -
LGA    S      45      -       -           -
LGA    G      46      -       -           -
LGA    I      47      -       -           -
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      -       -           -
LGA    F      51      -       -           -
LGA    P      52      -       -           -
LGA    E      53      -       -           -
LGA    I      54      -       -           -
LGA    D      55      -       -           -
LGA    L      56      -       -           -
LGA    S      57      -       -           -
LGA    T      58      -       -           -
LGA    N      59      -       -           -
LGA    K      60      -       -           -
LGA    I      61      -       -           -
LGA    G      62      K      28          4.209
LGA    I      63      S      29          2.879
LGA    F      64      F      30           -
LGA    S      65      Q      31           #
LGA    -       -      V      32           -
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    R      66      T      37           #
LGA    P      67      V      38          2.284
LGA    I      68      -       -           -
LGA    K      69      -       -           -
LGA    L      70      Q      39          1.870
LGA    T      71      T      40          3.178
LGA    D      72      A      41          5.114
LGA    V      73      I      42          3.811
LGA    L      74      T      43          3.615
LGA    -       -      Q      44           -
LGA    K      75      S      45          2.403
LGA    E      76      G      46          1.834
LGA    G      77      I      47          0.808
LGA    D      78      L      48           #
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -
LGA    -       -      S      57           -
LGA    -       -      T      58           -
LGA    -       -      N      59           -
LGA    R      79      K      60           #
LGA    I      80      I      61           #
LGA    -       -      G      62           -
LGA    E      81      I      63          3.021
LGA    I      82      F      64          3.685
LGA    Y      83      S      65          3.349
LGA    R      84      R      66          1.758
LGA    P      85      P      67          1.645
LGA    L      86      I      68          1.869
LGA    L      87      K      69          2.226
LGA    -       -      L      70           -
LGA    A      88      T      71           #
LGA    D      89      D      72          3.513
LGA    P      90      -       -           -
LGA    K      91      V      73          1.375
LGA    E      92      L      74          2.120
LGA    I      93      K      75          4.893
LGA    R      94      -       -           -
LGA    R      95      -       -           -
LGA    E      96      -       -           -
LGA    G      97      E      76          4.319
LGA    -       -      G      77           -
LGA    -       -      D      78           -
LGA    -       -      R      79           -
LGA    -       -      I      80           -
LGA    -       -      E      81           -
LGA    -       -      I      82           -
LGA    -       -      Y      83           -
LGA    -       -      R      84           -
LGA    -       -      P      85           -
LGA    -       -      L      86           -
LGA    -       -      L      87           -
LGA    -       -      A      88           -
LGA    -       -      D      89           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   80    5.0     35    3.09    11.43     25.654     1.099

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.462460 * X  +   0.686672 * Y  +   0.560904 * Z  +  20.332296
  Y_new =  -0.765163 * X  +  -0.628698 * Y  +   0.138799 * Z  +  19.794022
  Z_new =   0.447948 * X  +  -0.364994 * Y  +   0.816163 * Z  +   6.069402 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.420529    2.721064  [ DEG:   -24.0945    155.9055 ]
  Theta =  -0.464469   -2.677124  [ DEG:   -26.6121   -153.3879 ]
  Phi   =  -2.114440    1.027152  [ DEG:  -121.1485     58.8515 ]
 
# 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: T0363TS168_5                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS168_5.T0363.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   97   80   5.0   35   3.09   11.43  25.654
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS168_5
PFRMAT TS
TARGET T0363
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      22.348  43.834  -3.971  1.00 25.00           C
ATOM      2  CA  ALA     2      20.345  45.449  -1.141  1.00 25.00           C
ATOM      3  CA  HIS     3      21.317  44.376   2.424  1.00 25.00           C
ATOM      4  CA  HIS     4      18.777  44.897   5.168  1.00 25.00           C
ATOM      5  CA  HIS     5      20.402  46.152   8.436  1.00 25.00           C
ATOM      6  CA  HIS     6      19.152  43.748  11.149  1.00 25.00           C
ATOM      7  CA  HIS     7      21.020  41.420  13.417  1.00 25.00           C
ATOM      8  CA  HIS     8      24.831  41.371  13.935  1.00 25.00           C
ATOM      9  CA  SER     9      27.205  38.419  14.271  1.00 25.00           C
ATOM     10  CA  LEU    10      30.377  36.452  13.538  1.00 25.00           C
ATOM     11  CA  ASN    11      29.026  33.479  11.701  1.00 25.00           C
ATOM     12  CA  GLN    12      26.635  30.680  10.820  1.00 25.00           C
ATOM     13  CA  ILE    13      25.155  27.585   9.115  1.00 25.00           C
ATOM     14  CA  ASN    14      23.018  26.326   6.208  1.00 25.00           C
ATOM     15  CA  ILE    15      23.108  22.772   7.716  1.00 25.00           C
ATOM     16  CA  GLU    16      20.051  20.522   7.364  1.00 25.00           C
ATOM     17  CA  ILE    17      17.394  19.012   5.096  1.00 25.00           C
ATOM     18  CA  ALA    18      16.017  15.489   5.052  1.00 25.00           C
ATOM     19  CA  TYR    19      17.290  12.026   4.066  1.00 25.00           C
ATOM     20  CA  ALA    20      19.674   9.248   3.086  1.00 25.00           C
ATOM     21  CA  PHE    21      16.975   6.878   4.389  1.00 25.00           C
ATOM     22  CA  PRO    22      15.614   3.344   5.092  1.00 25.00           C
ATOM     23  CA  GLU    23      14.464   0.122   6.833  1.00 25.00           C
ATOM     24  CA  ARG    24      10.843   1.317   6.740  1.00 25.00           C
ATOM     25  CA  TYR    25      11.487   4.833   8.148  1.00 25.00           C
ATOM     26  CA  TYR    26      13.730   7.414   9.816  1.00 25.00           C
ATOM     27  CA  LEU    27      16.166  10.231   9.010  1.00 25.00           C
ATOM     28  CA  LYS    28      19.858   9.552   8.608  1.00 25.00           C
ATOM     29  CA  SER    29      21.056  13.116   8.772  1.00 25.00           C
ATOM     30  CA  PHE    30      21.153  15.457   5.793  1.00 25.00           C
ATOM     31  CA  GLN    31      23.153  18.093   3.985  1.00 25.00           C
ATOM     32  CA  VAL    32      25.728  20.849   3.244  1.00 25.00           C
ATOM     33  CA  ASP    33      28.520  23.295   2.269  1.00 25.00           C
ATOM     34  CA  GLU    34      29.600  25.080  -0.912  1.00 25.00           C
ATOM     35  CA  GLY    35      30.618  22.388  -3.442  1.00 25.00           C
ATOM     36  CA  ILE    36      28.049  19.582  -3.235  1.00 25.00           C
ATOM     37  CA  THR    37      26.933  17.232  -0.498  1.00 25.00           C
ATOM     38  CA  VAL    38      23.492  18.811  -1.219  1.00 25.00           C
ATOM     39  CA  GLN    39      24.193  22.576  -1.212  1.00 25.00           C
ATOM     40  CA  THR    40      20.868  23.222  -3.000  1.00 25.00           C
ATOM     41  CA  ALA    41      19.036  21.058  -0.427  1.00 25.00           C
ATOM     42  CA  ILE    42      20.709  22.989   2.426  1.00 25.00           C
ATOM     43  CA  THR    43      19.674  26.308   0.820  1.00 25.00           C
ATOM     44  CA  GLN    44      16.073  25.050   0.483  1.00 25.00           C
ATOM     45  CA  SER    45      16.072  23.993   4.164  1.00 25.00           C
ATOM     46  CA  GLY    46      12.987  22.067   3.072  1.00 25.00           C
ATOM     47  CA  ILE    47      12.337  18.328   2.749  1.00 25.00           C
ATOM     48  CA  LEU    48       9.317  19.149   0.498  1.00 25.00           C
ATOM     49  CA  SER    49       7.899  22.702   0.312  1.00 25.00           C
ATOM     50  CA  GLN    50      11.025  23.877  -1.563  1.00 25.00           C
ATOM     51  CA  PHE    51      12.305  20.931  -3.614  1.00 25.00           C
ATOM     52  CA  PRO    52      10.117  18.495  -5.515  1.00 25.00           C
ATOM     53  CA  GLU    53      10.079  18.844  -9.289  1.00 25.00           C
ATOM     54  CA  ILE    54      12.843  21.373  -9.870  1.00 25.00           C
ATOM     55  CA  ASP    55      15.296  18.594 -10.612  1.00 25.00           C
ATOM     56  CA  LEU    56      16.633  16.795  -7.527  1.00 25.00           C
ATOM     57  CA  SER    57      15.555  13.504  -9.033  1.00 25.00           C
ATOM     58  CA  THR    58      14.490  12.340  -5.520  1.00 25.00           C
ATOM     59  CA  ASN    59      14.999  11.360  -1.892  1.00 25.00           C
ATOM     60  CA  LYS    60      14.086  14.750  -0.329  1.00 25.00           C
ATOM     61  CA  ILE    61      17.209  16.559  -1.654  1.00 25.00           C
ATOM     62  CA  GLY    62      19.848  15.650   0.883  1.00 25.00           C
ATOM     63  CA  ILE    63      23.112  13.705   1.378  1.00 25.00           C
ATOM     64  CA  PHE    64      26.165  14.003   3.570  1.00 25.00           C
ATOM     65  CA  SER    65      24.778  11.415   5.961  1.00 25.00           C
ATOM     66  CA  ARG    66      26.078  12.136   9.480  1.00 25.00           C
ATOM     67  CA  PRO    67      26.605  14.603  12.371  1.00 25.00           C
ATOM     68  CA  ILE    68      30.113  14.958  10.877  1.00 25.00           C
ATOM     69  CA  LYS    69      31.160  14.562  14.517  1.00 25.00           C
ATOM     70  CA  LEU    70      31.647  10.797  14.096  1.00 25.00           C
ATOM     71  CA  THR    71      30.731   7.047  14.071  1.00 25.00           C
ATOM     72  CA  ASP    72      31.945   6.748  10.462  1.00 25.00           C
ATOM     73  CA  VAL    73      33.201   9.409   8.021  1.00 25.00           C
ATOM     74  CA  LEU    74      30.716  10.228   5.262  1.00 25.00           C
ATOM     75  CA  LYS    75      32.496   8.843   2.200  1.00 25.00           C
ATOM     76  CA  GLU    76      33.592  10.690  -0.903  1.00 25.00           C
ATOM     77  CA  GLY    77      33.641  13.728   1.311  1.00 25.00           C
ATOM     78  CA  ASP    78      31.158  15.197   3.864  1.00 25.00           C
ATOM     79  CA  ARG    79      29.040  17.732   5.662  1.00 25.00           C
ATOM     80  CA  ILE    80      26.118  16.925   7.953  1.00 25.00           C
ATOM     81  CA  GLU    81      23.173  17.672  10.266  1.00 25.00           C
ATOM     82  CA  ILE    82      19.643  17.309  11.435  1.00 25.00           C
ATOM     83  CA  TYR    83      16.567  15.527  10.152  1.00 25.00           C
ATOM     84  CA  ARG    84      13.775  17.753   8.910  1.00 25.00           C
ATOM     85  CA  PRO    85      11.167  15.387  10.427  1.00 25.00           C
ATOM     86  CA  LEU    86      11.476  17.584  13.502  1.00 25.00           C
ATOM     87  CA  LEU    87       9.700  16.091  16.517  1.00 25.00           C
ATOM     88  CA  ALA    88      12.735  13.986  17.165  1.00 25.00           C
ATOM     89  CA  ASP    89      13.435  16.180  20.132  1.00 25.00           C
ATOM     90  CA  PRO    90      13.992  19.896  19.555  1.00 25.00           C
ATOM     91  CA  LYS    91      13.870  21.058  23.201  1.00 25.00           C
ATOM     92  CA  GLU    92      17.068  23.101  22.684  1.00 25.00           C
ATOM     93  CA  ILE    93      15.568  24.698  19.543  1.00 25.00           C
ATOM     94  CA  ARG    94      12.380  25.569  21.478  1.00 25.00           C
ATOM     95  CA  ARG    95      12.758  29.142  22.720  1.00 25.00           C
ATOM     96  CA  GLU    96      15.483  28.913  25.380  1.00 25.00           C
ATOM     97  CA  GLY    97      18.928  30.410  25.568  1.00 25.00           C
TER
END
