
#######################################################
#                                                     #
#                        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_1
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363TS599_1.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      N      11          4.255
LGA    Q      12      Q      12          3.810
LGA    I      13      I      13          3.846
LGA    -       -      N      14           -
LGA    N      14      I      15          1.367
LGA    I      15      E      16          1.100
LGA    E      16      I      17          3.301
LGA    I      17      A      18          0.749
LGA    A      18      Y      19          3.708
LGA    Y      19      A      20          2.008
LGA    A      20      F      21          3.044
LGA    F      21      P      22          2.229
LGA    P      22      E      23          3.852
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      R      24          2.921
LGA    Y      26      Y      25          2.069
LGA    L      27      Y      26          2.896
LGA    K      28      L      27          2.780
LGA    S      29      K      28          0.970
LGA    F      30      S      29          4.407
LGA    Q      31      F      30          2.147
LGA    V      32      Q      31          5.406
LGA    D      33      V      32          1.796
LGA    -       -      D      33           -
LGA    E      34      E      34          0.911
LGA    G      35      G      35          1.143
LGA    I      36      I      36          0.862
LGA    T      37      T      37          1.015
LGA    V      38      V      38          1.186
LGA    Q      39      Q      39          0.535
LGA    T      40      T      40          0.747
LGA    A      41      A      41          1.060
LGA    I      42      I      42          0.712
LGA    T      43      T      43          0.291
LGA    Q      44      Q      44          0.661
LGA    S      45      S      45          0.613
LGA    G      46      G      46          2.330
LGA    I      47      I      47          2.804
LGA    L      48      L      48          4.033
LGA    -       -      S      49           -
LGA    S      49      Q      50           #
LGA    Q      50      F      51          2.095
LGA    F      51      P      52           #
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    P      52      D      55          2.818
LGA    E      53      L      56           #
LGA    -       -      S      57           -
LGA    -       -      T      58           -
LGA    I      54      N      59          3.339
LGA    D      55      K      60          4.743
LGA    L      56      -       -           -
LGA    S      57      -       -           -
LGA    T      58      I      61          4.699
LGA    N      59      G      62          4.383
LGA    K      60      I      63          3.984
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          1.095
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    E      76      L      74           #
LGA    -       -      K      75           -
LGA    -       -      E      76           -
LGA    -       -      G      77           -
LGA    G      77      D      78           #
LGA    D      78      -       -           -
LGA    R      79      R      79           #
LGA    I      80      I      80           -
LGA    E      81      E      81           -
LGA    I      82      I      82           -
LGA    Y      83      Y      83           -
LGA    R      84      R      84           -
LGA    P      85      P      85           -
LGA    L      86      L      86           -
LGA    L      87      L      87           -
LGA    A      88      A      88           -
LGA    D      89      D      89           -
LGA    P      90      -       -           -
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    2.77    43.18     36.629     1.533

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.528266 * X  +  -0.546990 * Y  +  -0.649412 * Z  +  23.855486
  Y_new =  -0.393889 * X  +   0.519691 * Y  +  -0.758138 * Z  +  19.572184
  Z_new =   0.752187 * X  +   0.656295 * Y  +   0.059081 * Z  +   5.290612 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.481016   -1.660577  [ DEG:    84.8559    -95.1441 ]
  Theta =  -0.851375   -2.290217  [ DEG:   -48.7802   -131.2198 ]
  Phi   =  -0.640696    2.500896  [ DEG:   -36.7092    143.2908 ]
 
# 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_1                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS599_1.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   2.77   43.18  36.629
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS599_1
PFRMAT TS                                                                       
TARGET T0363                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      12.972  24.169   7.831  1.00  0.00              
ATOM      2  CA  ALA     2       9.346  23.183   9.729  1.00  0.00              
ATOM      3  CA  HIS     3       7.927  19.353  10.722  1.00  0.00              
ATOM      4  CA  HIS     4      10.290  17.774  13.835  1.00  0.00              
ATOM      5  CA  HIS     5      11.715  16.598  17.608  1.00  0.00              
ATOM      6  CA  HIS     6      12.899  12.996  17.605  1.00  0.00              
ATOM      7  CA  HIS     7      13.871   9.592  16.864  1.00  0.00              
ATOM      8  CA  HIS     8      16.476   7.624  18.738  1.00  0.00              
ATOM      9  CA  SER     9      18.206   6.594  15.502  1.00  0.00              
ATOM     10  CA  LEU    10      15.925   7.298  12.574  1.00  0.00              
ATOM     11  CA  ASN    11      16.267   3.979  10.649  1.00  0.00              
ATOM     12  CA  GLN    12      17.332   5.896   7.614  1.00  0.00              
ATOM     13  CA  ILE    13      18.629   9.368   8.228  1.00  0.00              
ATOM     14  CA  ASN    14      19.303  11.607   5.288  1.00  0.00              
ATOM     15  CA  ILE    15      21.801  14.384   5.456  1.00  0.00              
ATOM     16  CA  GLU    16      22.121  16.988   2.818  1.00  0.00              
ATOM     17  CA  ILE    17      25.233  18.878   2.297  1.00  0.00              
ATOM     18  CA  ALA    18      25.487  21.811  -0.009  1.00  0.00              
ATOM     19  CA  TYR    19      28.771  22.935  -1.389  1.00  0.00              
ATOM     20  CA  ALA    20      29.128  26.150  -3.105  1.00  0.00              
ATOM     21  CA  PHE    21      31.807  26.632  -5.641  1.00  0.00              
ATOM     22  CA  PRO    22      32.203  30.019  -7.233  1.00  0.00              
ATOM     23  CA  GLU    23      28.914  29.809  -9.154  1.00  0.00              
ATOM     24  CA  ARG    24      28.347  26.078  -9.194  1.00  0.00              
ATOM     25  CA  TYR    25      26.341  24.383  -6.528  1.00  0.00              
ATOM     26  CA  TYR    26      27.301  21.089  -5.503  1.00  0.00              
ATOM     27  CA  LEU    27      24.877  18.890  -3.701  1.00  0.00              
ATOM     28  CA  LYS    28      26.150  16.182  -1.521  1.00  0.00              
ATOM     29  CA  SER    29      23.809  13.642  -0.016  1.00  0.00              
ATOM     30  CA  PHE    30      24.825  11.717   3.038  1.00  0.00              
ATOM     31  CA  GLN    31      22.994   8.742   4.158  1.00  0.00              
ATOM     32  CA  VAL    32      23.186   7.678   7.711  1.00  0.00              
ATOM     33  CA  ASP    33      21.950   4.256   8.775  1.00  0.00              
ATOM     34  CA  GLU    34      20.213   3.973  12.015  1.00  0.00              
ATOM     35  CA  GLY    35      22.516   3.625  14.846  1.00  0.00              
ATOM     36  CA  ILE    36      25.493   5.242  13.192  1.00  0.00              
ATOM     37  CA  THR    37      27.174   8.337  14.724  1.00  0.00              
ATOM     38  CA  VAL    38      27.328  11.399  12.530  1.00  0.00              
ATOM     39  CA  GLN    39      31.179  11.157  12.585  1.00  0.00              
ATOM     40  CA  THR    40      31.081   7.669  11.126  1.00  0.00              
ATOM     41  CA  ALA    41      28.391   8.436   8.515  1.00  0.00              
ATOM     42  CA  ILE    42      30.179  11.567   7.441  1.00  0.00              
ATOM     43  CA  THR    43      33.535   9.872   7.051  1.00  0.00              
ATOM     44  CA  GLN    44      32.083   7.195   4.870  1.00  0.00              
ATOM     45  CA  SER    45      30.546   9.759   2.587  1.00  0.00              
ATOM     46  CA  GLY    46      33.769  11.842   2.325  1.00  0.00              
ATOM     47  CA  ILE    47      32.136  14.946   3.700  1.00  0.00              
ATOM     48  CA  LEU    48      34.814  15.727   6.319  1.00  0.00              
ATOM     49  CA  SER    49      37.557  15.347   3.766  1.00  0.00              
ATOM     50  CA  GLN    50      35.785  17.739   1.361  1.00  0.00              
ATOM     51  CA  PHE    51      34.778  20.384   3.910  1.00  0.00              
ATOM     52  CA  PRO    52      37.467  20.591   6.602  1.00  0.00              
ATOM     53  CA  GLU    53      35.871  23.373   8.669  1.00  0.00              
ATOM     54  CA  ILE    54      32.674  21.300   9.127  1.00  0.00              
ATOM     55  CA  ASP    55      32.251  19.682  12.463  1.00  0.00              
ATOM     56  CA  LEU    56      30.924  16.170  12.402  1.00  0.00              
ATOM     57  CA  SER    57      28.864  15.963  15.641  1.00  0.00              
ATOM     58  CA  THR    58      26.836  19.110  14.959  1.00  0.00              
ATOM     59  CA  ASN    59      27.044  18.670  11.277  1.00  0.00              
ATOM     60  CA  LYS    60      24.171  18.372   8.916  1.00  0.00              
ATOM     61  CA  ILE    61      24.027  20.860   6.106  1.00  0.00              
ATOM     62  CA  GLY    62      20.742  21.480   4.399  1.00  0.00              
ATOM     63  CA  ILE    63      20.670  23.393   1.128  1.00  0.00              
ATOM     64  CA  PHE    64      17.632  25.390   0.267  1.00  0.00              
ATOM     65  CA  SER    65      16.816  26.287  -3.272  1.00  0.00              
ATOM     66  CA  ARG    66      15.321  29.695  -2.994  1.00  0.00              
ATOM     67  CA  PRO    67      13.749  29.747   0.419  1.00  0.00              
ATOM     68  CA  ILE    68      12.587  26.157   0.761  1.00  0.00              
ATOM     69  CA  LYS    69      11.191  25.414   4.195  1.00  0.00              
ATOM     70  CA  LEU    70       7.941  23.741   5.005  1.00  0.00              
ATOM     71  CA  THR    71       8.593  19.974   5.003  1.00  0.00              
ATOM     72  CA  ASP    72      12.162  20.184   6.209  1.00  0.00              
ATOM     73  CA  VAL    73      12.867  18.307   9.399  1.00  0.00              
ATOM     74  CA  LEU    74      15.056  20.442  11.748  1.00  0.00              
ATOM     75  CA  LYS    75      17.590  18.562  13.809  1.00  0.00              
ATOM     76  CA  GLU    76      19.696  20.044  16.635  1.00  0.00              
ATOM     77  CA  GLY    77      22.931  21.078  15.020  1.00  0.00              
ATOM     78  CA  ASP    78      21.578  21.358  11.521  1.00  0.00              
ATOM     79  CA  ARG    79      22.898  24.065   9.314  1.00  0.00              
ATOM     80  CA  ILE    80      20.604  25.561   6.694  1.00  0.00              
ATOM     81  CA  GLU    81      22.134  27.212   3.608  1.00  0.00              
ATOM     82  CA  ILE    82      20.107  29.287   1.355  1.00  0.00              
ATOM     83  CA  TYR    83      21.547  29.901  -2.055  1.00  0.00              
ATOM     84  CA  ARG    84      18.932  31.597  -4.136  1.00  0.00              
ATOM     85  CA  PRO    85      17.093  33.061  -1.114  1.00  0.00              
ATOM     86  CA  LEU    86      20.231  34.186   0.695  1.00  0.00              
ATOM     87  CA  LEU    87      22.390  35.631  -2.124  1.00  0.00              
ATOM     88  CA  ALA    88      25.616  33.726  -2.704  1.00  0.00              
ATOM     89  CA  ASP    89      28.662  35.826  -1.741  1.00  0.00              
ATOM     90  CA  PRO    90      31.987  34.385  -2.832  1.00  0.00              
ATOM     91  CA  LYS    91      33.433  34.330   0.707  1.00  0.00              
ATOM     92  CA  GLU    92      30.298  32.568   2.061  1.00  0.00              
ATOM     93  CA  ILE    93      30.193  29.886  -0.599  1.00  0.00              
ATOM     94  CA  ARG    94      33.915  29.101   0.025  1.00  0.00              
ATOM     95  CA  ARG    95      32.964  28.944   4.127  1.00  0.00              
ATOM     96  CA  GLU    96      34.600  28.253   1.005  1.00  0.00              
ATOM     97  CA  GLY    97      34.163  25.126  -1.426  1.00  0.00              
TER                                                                             
END
