
#######################################################
#                                                     #
#                        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 T0363TS599_2
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363TS599_2.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      N      11           #
LGA    N      11      Q      12          3.411
LGA    Q      12      I      13          0.870
LGA    I      13      N      14          2.518
LGA    N      14      I      15          1.761
LGA    I      15      E      16          1.050
LGA    E      16      I      17          3.641
LGA    I      17      A      18          0.808
LGA    A      18      Y      19          3.856
LGA    Y      19      A      20          2.116
LGA    A      20      F      21          2.946
LGA    F      21      P      22          2.356
LGA    P      22      E      23          3.822
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      R      24          2.987
LGA    Y      26      Y      25          2.118
LGA    L      27      Y      26          3.056
LGA    K      28      L      27          2.743
LGA    S      29      K      28          0.821
LGA    F      30      S      29          4.104
LGA    Q      31      F      30          1.898
LGA    -       -      Q      31           -
LGA    V      32      V      32          3.482
LGA    D      33      D      33          2.523
LGA    E      34      E      34          0.806
LGA    G      35      G      35          0.522
LGA    I      36      I      36          0.382
LGA    T      37      T      37          0.954
LGA    V      38      V      38          0.900
LGA    Q      39      Q      39          0.663
LGA    T      40      T      40          0.689
LGA    A      41      A      41          0.498
LGA    I      42      I      42          0.318
LGA    T      43      T      43          0.386
LGA    Q      44      Q      44          1.027
LGA    S      45      S      45          1.343
LGA    G      46      G      46          2.597
LGA    I      47      I      47          3.060
LGA    L      48      L      48          4.198
LGA    -       -      S      49           -
LGA    S      49      Q      50           #
LGA    Q      50      F      51          2.177
LGA    F      51      P      52           #
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    P      52      D      55          1.931
LGA    E      53      L      56           #
LGA    -       -      S      57           -
LGA    -       -      T      58           -
LGA    I      54      N      59          2.416
LGA    D      55      K      60          4.589
LGA    L      56      -       -           -
LGA    S      57      -       -           -
LGA    T      58      I      61          4.376
LGA    N      59      G      62          4.680
LGA    K      60      I      63          4.384
LGA    I      61      F      64           #
LGA    G      62      -       -           -
LGA    I      63      -       -           -
LGA    F      64      -       -           -
LGA    S      65      -       -           -
LGA    R      66      -       -           -
LGA    P      67      -       -           -
LGA    I      68      -       -           -
LGA    K      69      -       -           -
LGA    L      70      -       -           -
LGA    T      71      -       -           -
LGA    D      72      S      65           #
LGA    V      73      R      66          1.462
LGA    L      74      P      67           #
LGA    -       -      I      68           -
LGA    -       -      K      69           -
LGA    -       -      L      70           -
LGA    -       -      T      71           -
LGA    -       -      D      72           -
LGA    K      75      V      73           #
LGA    -       -      L      74           -
LGA    E      76      K      75           #
LGA    G      77      E      76           -
LGA    D      78      G      77           -
LGA    R      79      D      78           -
LGA    I      80      R      79           #
LGA    E      81      I      80           -
LGA    I      82      E      81           -
LGA    Y      83      I      82           -
LGA    R      84      Y      83           -
LGA    P      85      R      84           -
LGA    L      86      P      85           -
LGA    L      87      L      86           -
LGA    A      88      L      87           -
LGA    D      89      A      88           -
LGA    P      90      D      89           -
LGA    K      91      -       -           -
LGA    E      92      -       -           -
LGA    I      93      -       -           -
LGA    R      94      -       -           -
LGA    R      95      -       -           -
LGA    E      96      -       -           -
LGA    G      97      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   80    5.0     44    2.58    40.91     37.862     1.640

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.802213 * X  +  -0.028239 * Y  +  -0.596370 * Z  +  23.905411
  Y_new =   0.151017 * X  +   0.956801 * Y  +  -0.248448 * Z  +  19.667009
  Z_new =   0.577623 * X  +  -0.289370 * Y  +  -0.763293 * Z  +   5.284269 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.779226    0.362367  [ DEG:  -159.2379     20.7621 ]
  Theta =  -0.615814   -2.525779  [ DEG:   -35.2835   -144.7165 ]
  Phi   =   2.955519   -0.186073  [ DEG:   169.3388    -10.6612 ]
 
# 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: T0363TS599_2                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS599_2.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   44   2.58   40.91  37.862
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS599_2
PFRMAT TS                                                                       
TARGET T0363                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.770  27.319   7.745  1.00  0.00              
ATOM      2  CA  ALA     2      11.119  24.394   8.034  1.00  0.00              
ATOM      3  CA  HIS     3       9.618  21.757  10.954  1.00  0.00              
ATOM      4  CA  HIS     4      11.756  19.762  13.988  1.00  0.00              
ATOM      5  CA  HIS     5      10.541  15.828  14.256  1.00  0.00              
ATOM      6  CA  HIS     6      11.963  13.431  16.903  1.00  0.00              
ATOM      7  CA  HIS     7      13.286  10.090  16.643  1.00  0.00              
ATOM      8  CA  HIS     8      16.061   8.432  18.571  1.00  0.00              
ATOM      9  CA  SER     9      17.827   7.196  15.470  1.00  0.00              
ATOM     10  CA  LEU    10      15.518   7.523  12.510  1.00  0.00              
ATOM     11  CA  ASN    11      15.926   4.149  10.799  1.00  0.00              
ATOM     12  CA  GLN    12      16.796   6.027   7.569  1.00  0.00              
ATOM     13  CA  ILE    13      18.089   9.510   8.133  1.00  0.00              
ATOM     14  CA  ASN    14      18.913  11.663   5.080  1.00  0.00              
ATOM     15  CA  ILE    15      21.635  14.388   5.442  1.00  0.00              
ATOM     16  CA  GLU    16      21.816  17.008   2.639  1.00  0.00              
ATOM     17  CA  ILE    17      25.208  18.780   2.324  1.00  0.00              
ATOM     18  CA  ALA    18      25.328  21.776  -0.046  1.00  0.00              
ATOM     19  CA  TYR    19      28.751  22.780  -1.372  1.00  0.00              
ATOM     20  CA  ALA    20      29.152  26.036  -3.050  1.00  0.00              
ATOM     21  CA  PHE    21      31.859  26.423  -5.633  1.00  0.00              
ATOM     22  CA  PRO    22      32.361  29.817  -7.157  1.00  0.00              
ATOM     23  CA  GLU    23      28.993  29.805  -8.950  1.00  0.00              
ATOM     24  CA  ARG    24      28.292  26.120  -9.122  1.00  0.00              
ATOM     25  CA  TYR    25      26.284  24.394  -6.481  1.00  0.00              
ATOM     26  CA  TYR    26      27.218  21.050  -5.537  1.00  0.00              
ATOM     27  CA  LEU    27      24.735  18.885  -3.777  1.00  0.00              
ATOM     28  CA  LYS    28      26.013  16.084  -1.583  1.00  0.00              
ATOM     29  CA  SER    29      23.551  13.567  -0.157  1.00  0.00              
ATOM     30  CA  PHE    30      24.526  11.608   2.945  1.00  0.00              
ATOM     31  CA  GLN    31      22.530   8.687   4.091  1.00  0.00              
ATOM     32  CA  VAL    32      22.653   7.818   7.743  1.00  0.00              
ATOM     33  CA  ASP    33      21.523   4.476   9.038  1.00  0.00              
ATOM     34  CA  GLU    34      19.837   4.524  12.384  1.00  0.00              
ATOM     35  CA  GLY    35      22.283   4.360  15.145  1.00  0.00              
ATOM     36  CA  ILE    36      25.309   5.684  13.223  1.00  0.00              
ATOM     37  CA  THR    37      27.340   8.503  14.613  1.00  0.00              
ATOM     38  CA  VAL    38      27.790  11.704  12.686  1.00  0.00              
ATOM     39  CA  GLN    39      31.492  11.082  12.538  1.00  0.00              
ATOM     40  CA  THR    40      30.898   7.737  10.751  1.00  0.00              
ATOM     41  CA  ALA    41      28.546   9.245   8.235  1.00  0.00              
ATOM     42  CA  ILE    42      30.885  12.051   7.519  1.00  0.00              
ATOM     43  CA  THR    43      33.901   9.890   6.996  1.00  0.00              
ATOM     44  CA  GLN    44      32.124   7.588   4.651  1.00  0.00              
ATOM     45  CA  SER    45      30.877  10.412   2.487  1.00  0.00              
ATOM     46  CA  GLY    46      34.217  12.098   2.257  1.00  0.00              
ATOM     47  CA  ILE    47      32.982  15.210   3.957  1.00  0.00              
ATOM     48  CA  LEU    48      35.589  15.764   6.720  1.00  0.00              
ATOM     49  CA  SER    49      38.260  15.317   4.125  1.00  0.00              
ATOM     50  CA  GLN    50      36.696  17.927   1.791  1.00  0.00              
ATOM     51  CA  PHE    51      35.756  20.506   4.424  1.00  0.00              
ATOM     52  CA  PRO    52      38.314  20.461   7.213  1.00  0.00              
ATOM     53  CA  GLU    53      36.830  23.364   9.131  1.00  0.00              
ATOM     54  CA  ILE    54      33.444  21.694   9.514  1.00  0.00              
ATOM     55  CA  ASP    55      32.719  19.953  12.740  1.00  0.00              
ATOM     56  CA  LEU    56      31.331  16.446  12.300  1.00  0.00              
ATOM     57  CA  SER    57      29.186  16.051  15.466  1.00  0.00              
ATOM     58  CA  THR    58      27.142  19.199  14.740  1.00  0.00              
ATOM     59  CA  ASN    59      27.336  18.548  11.073  1.00  0.00              
ATOM     60  CA  LYS    60      24.438  18.086   8.726  1.00  0.00              
ATOM     61  CA  ILE    61      24.178  20.673   6.036  1.00  0.00              
ATOM     62  CA  GLY    62      20.893  21.381   4.465  1.00  0.00              
ATOM     63  CA  ILE    63      20.690  23.341   1.267  1.00  0.00              
ATOM     64  CA  PHE    64      17.534  25.372   0.614  1.00  0.00              
ATOM     65  CA  SER    65      16.797  26.770  -2.702  1.00  0.00              
ATOM     66  CA  ARG    66      15.004  29.934  -2.075  1.00  0.00              
ATOM     67  CA  PRO    67      13.305  29.308   1.214  1.00  0.00              
ATOM     68  CA  ILE    68      12.691  25.614   1.220  1.00  0.00              
ATOM     69  CA  LYS    69       9.598  23.637   1.771  1.00  0.00              
ATOM     70  CA  LEU    70       7.256  23.334   4.668  1.00  0.00              
ATOM     71  CA  THR    71       7.866  19.773   5.670  1.00  0.00              
ATOM     72  CA  ASP    72      11.726  20.023   5.789  1.00  0.00              
ATOM     73  CA  VAL    73      12.677  18.653   9.185  1.00  0.00              
ATOM     74  CA  LEU    74      15.259  20.641  11.163  1.00  0.00              
ATOM     75  CA  LYS    75      17.379  18.518  13.516  1.00  0.00              
ATOM     76  CA  GLU    76      19.659  19.535  16.343  1.00  0.00              
ATOM     77  CA  GLY    77      23.125  20.278  14.806  1.00  0.00              
ATOM     78  CA  ASP    78      21.801  20.944  11.372  1.00  0.00              
ATOM     79  CA  ARG    79      23.202  23.736   9.367  1.00  0.00              
ATOM     80  CA  ILE    80      20.846  25.417   6.847  1.00  0.00              
ATOM     81  CA  GLU    81      22.179  27.167   3.779  1.00  0.00              
ATOM     82  CA  ILE    82      19.971  29.306   1.772  1.00  0.00              
ATOM     83  CA  TYR    83      21.003  29.942  -1.774  1.00  0.00              
ATOM     84  CA  ARG    84      18.422  31.954  -3.584  1.00  0.00              
ATOM     85  CA  PRO    85      17.245  33.718  -0.462  1.00  0.00              
ATOM     86  CA  LEU    86      20.593  34.350   1.171  1.00  0.00              
ATOM     87  CA  LEU    87      22.686  35.389  -1.832  1.00  0.00              
ATOM     88  CA  ALA    88      26.015  33.650  -1.616  1.00  0.00              
ATOM     89  CA  ASP    89      29.146  35.631  -1.090  1.00  0.00              
ATOM     90  CA  PRO    90      32.212  34.133  -2.707  1.00  0.00              
ATOM     91  CA  LYS    91      34.180  33.949   0.559  1.00  0.00              
ATOM     92  CA  GLU    92      31.280  32.281   2.380  1.00  0.00              
ATOM     93  CA  ILE    93      30.608  29.655  -0.311  1.00  0.00              
ATOM     94  CA  ARG    94      34.313  28.673  -0.335  1.00  0.00              
ATOM     95  CA  ARG    95      34.007  28.421   3.861  1.00  0.00              
ATOM     96  CA  GLU    96      35.122  27.866   0.485  1.00  0.00              
ATOM     97  CA  GLY    97      34.224  24.746  -1.669  1.00  0.00              
TER                                                                             
END
