
#######################################################
#                                                     #
#                        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_5
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363TS599_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      N      11           #
LGA    -       -      Q      12           -
LGA    L      10      I      13          3.485
LGA    N      11      N      14           #
LGA    Q      12      -       -           -
LGA    I      13      I      15          2.288
LGA    N      14      E      16          2.619
LGA    I      15      I      17          2.007
LGA    E      16      A      18          1.880
LGA    I      17      Y      19          3.317
LGA    A      18      A      20          3.473
LGA    Y      19      F      21          3.420
LGA    A      20      P      22          2.992
LGA    F      21      E      23          3.664
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      R      24          3.369
LGA    L      27      Y      25          3.472
LGA    K      28      Y      26          3.593
LGA    S      29      L      27          2.102
LGA    F      30      K      28          1.166
LGA    Q      31      S      29          1.344
LGA    V      32      F      30          2.130
LGA    D      33      Q      31          1.555
LGA    -       -      V      32           -
LGA    E      34      D      33          3.870
LGA    G      35      E      34          2.941
LGA    -       -      G      35           -
LGA    I      36      I      36          3.672
LGA    T      37      T      37          2.844
LGA    V      38      V      38          2.658
LGA    Q      39      Q      39          1.821
LGA    T      40      T      40          0.537
LGA    A      41      A      41          1.954
LGA    I      42      I      42          1.806
LGA    T      43      T      43          2.563
LGA    Q      44      Q      44          3.312
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    S      45      I      47          4.032
LGA    G      46      L      48          3.902
LGA    I      47      S      49           -
LGA    L      48      Q      50           -
LGA    S      49      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    Q      50      I      54          5.709
LGA    F      51      D      55          2.088
LGA    -       -      L      56           -
LGA    P      52      S      57          1.604
LGA    E      53      T      58          1.642
LGA    I      54      N      59          1.806
LGA    D      55      K      60          3.450
LGA    L      56      I      61          3.200
LGA    S      57      G      62          4.056
LGA    T      58      I      63           #
LGA    N      59      F      64           -
LGA    K      60      S      65           -
LGA    I      61      R      66           -
LGA    G      62      P      67           -
LGA    I      63      I      68           -
LGA    F      64      K      69           -
LGA    S      65      L      70           -
LGA    R      66      T      71           -
LGA    P      67      D      72           -
LGA    I      68      V      73           -
LGA    K      69      L      74           -
LGA    L      70      K      75           -
LGA    T      71      E      76           -
LGA    D      72      G      77           -
LGA    V      73      D      78           -
LGA    L      74      R      79           -
LGA    K      75      I      80           -
LGA    E      76      E      81           -
LGA    G      77      I      82           -
LGA    D      78      Y      83           -
LGA    R      79      R      84           -
LGA    I      80      P      85           -
LGA    E      81      L      86           -
LGA    I      82      L      87           -
LGA    Y      83      A      88           -
LGA    R      84      D      89           -
LGA    P      85      -       -           -
LGA    L      86      -       -           -
LGA    L      87      -       -           -
LGA    A      88      -       -           -
LGA    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     39    2.93    30.77     30.610     1.285

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.863520 * X  +  -0.291761 * Y  +   0.411351 * Z  +  29.410700
  Y_new =  -0.077917 * X  +  -0.728685 * Y  +  -0.680402 * Z  +  19.795172
  Z_new =   0.498260 * X  +  -0.619592 * Y  +   0.606501 * Z  +   2.492106 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.796074    2.345518  [ DEG:   -45.6117    134.3883 ]
  Theta =  -0.521591   -2.620002  [ DEG:   -29.8849   -150.1151 ]
  Phi   =  -3.051605    0.089988  [ DEG:  -174.8441      5.1559 ]
 
# 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_5                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS599_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   39   2.93   30.77  30.610
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS599_5
PFRMAT TS                                                                       
TARGET T0363                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      18.031  16.159   0.525  1.00  0.00              
ATOM      2  CA  ALA     2      15.579  13.690  -1.310  1.00  0.00              
ATOM      3  CA  HIS     3      13.723  15.402   2.050  1.00  0.00              
ATOM      4  CA  HIS     4      11.246  18.231   3.934  1.00  0.00              
ATOM      5  CA  HIS     5       9.197  15.940   6.809  1.00  0.00              
ATOM      6  CA  HIS     6       8.565  12.468   8.336  1.00  0.00              
ATOM      7  CA  HIS     7      10.825   9.861   7.449  1.00  0.00              
ATOM      8  CA  HIS     8      11.072   6.133   7.660  1.00  0.00              
ATOM      9  CA  SER     9      14.567   5.928   9.186  1.00  0.00              
ATOM     10  CA  LEU    10      16.217   9.314   8.886  1.00  0.00              
ATOM     11  CA  ASN    11      17.466   9.711  12.474  1.00  0.00              
ATOM     12  CA  GLN    12      20.819  11.308  11.760  1.00  0.00              
ATOM     13  CA  ILE    13      20.218  12.836   8.285  1.00  0.00              
ATOM     14  CA  ASN    14      23.296  13.941   6.268  1.00  0.00              
ATOM     15  CA  ILE    15      23.270  17.041   4.139  1.00  0.00              
ATOM     16  CA  GLU    16      26.091  17.956   1.824  1.00  0.00              
ATOM     17  CA  ILE    17      25.970  21.144  -0.027  1.00  0.00              
ATOM     18  CA  ALA    18      28.461  22.062  -2.603  1.00  0.00              
ATOM     19  CA  TYR    19      28.598  25.609  -3.844  1.00  0.00              
ATOM     20  CA  ALA    20      30.745  26.597  -6.760  1.00  0.00              
ATOM     21  CA  PHE    21      31.695  30.181  -7.271  1.00  0.00              
ATOM     22  CA  PRO    22      32.219  31.537 -10.728  1.00  0.00              
ATOM     23  CA  GLU    23      28.541  32.453 -11.314  1.00  0.00              
ATOM     24  CA  ARG    24      27.011  28.994 -11.273  1.00  0.00              
ATOM     25  CA  TYR    25      25.642  27.528  -8.120  1.00  0.00              
ATOM     26  CA  TYR    26      25.742  23.881  -7.711  1.00  0.00              
ATOM     27  CA  LEU    27      23.872  22.246  -4.945  1.00  0.00              
ATOM     28  CA  LYS    28      24.272  18.623  -4.007  1.00  0.00              
ATOM     29  CA  SER    29      22.046  17.009  -1.415  1.00  0.00              
ATOM     30  CA  PHE    30      23.163  13.871   0.353  1.00  0.00              
ATOM     31  CA  GLN    31      20.842  11.707   2.317  1.00  0.00              
ATOM     32  CA  VAL    32      22.206   8.981   4.333  1.00  0.00              
ATOM     33  CA  ASP    33      20.887   5.682   5.160  1.00  0.00              
ATOM     34  CA  GLU    34      19.231   4.259   8.000  1.00  0.00              
ATOM     35  CA  GLY    35      21.779   3.553  10.627  1.00  0.00              
ATOM     36  CA  ILE    36      24.495   5.944   9.618  1.00  0.00              
ATOM     37  CA  THR    37      25.399   8.659  12.160  1.00  0.00              
ATOM     38  CA  VAL    38      26.178  12.038  10.552  1.00  0.00              
ATOM     39  CA  GLN    39      29.410  11.893  12.587  1.00  0.00              
ATOM     40  CA  THR    40      30.316   8.596  10.839  1.00  0.00              
ATOM     41  CA  ALA    41      29.679  10.088   7.397  1.00  0.00              
ATOM     42  CA  ILE    42      31.776  13.162   8.297  1.00  0.00              
ATOM     43  CA  THR    43      34.583  10.877   9.472  1.00  0.00              
ATOM     44  CA  GLN    44      34.407   8.927   6.259  1.00  0.00              
ATOM     45  CA  SER    45      34.893  12.160   4.245  1.00  0.00              
ATOM     46  CA  GLY    46      37.882  13.216   6.344  1.00  0.00              
ATOM     47  CA  ILE    47      36.561  16.577   7.326  1.00  0.00              
ATOM     48  CA  LEU    48      36.874  16.219  11.062  1.00  0.00              
ATOM     49  CA  SER    49      40.428  15.017  10.816  1.00  0.00              
ATOM     50  CA  GLN    50      41.514  17.943   8.596  1.00  0.00              
ATOM     51  CA  PHE    51      39.663  20.697  10.352  1.00  0.00              
ATOM     52  CA  PRO    52      39.537  19.904  14.102  1.00  0.00              
ATOM     53  CA  GLU    53      37.840  23.070  15.247  1.00  0.00              
ATOM     54  CA  ILE    54      35.039  22.980  12.733  1.00  0.00              
ATOM     55  CA  ASP    55      31.771  21.274  13.575  1.00  0.00              
ATOM     56  CA  LEU    56      30.610  19.851  10.227  1.00  0.00              
ATOM     57  CA  SER    57      26.960  19.203  10.792  1.00  0.00              
ATOM     58  CA  THR    58      25.461  20.459   7.509  1.00  0.00              
ATOM     59  CA  ASN    59      28.434  19.701   5.351  1.00  0.00              
ATOM     60  CA  LYS    60      28.845  22.788   3.275  1.00  0.00              
ATOM     61  CA  ILE    61      31.750  23.014   0.952  1.00  0.00              
ATOM     62  CA  GLY    62      32.563  26.213  -0.908  1.00  0.00              
ATOM     63  CA  ILE    63      34.714  26.047  -3.981  1.00  0.00              
ATOM     64  CA  PHE    64      35.919  29.202  -5.475  1.00  0.00              
ATOM     65  CA  SER    65      37.189  29.342  -9.003  1.00  0.00              
ATOM     66  CA  ARG    66      36.435  28.382 -12.439  1.00  0.00              
ATOM     67  CA  PRO    67      35.393  25.173 -13.853  1.00  0.00              
ATOM     68  CA  ILE    68      32.409  23.264 -12.911  1.00  0.00              
ATOM     69  CA  LYS    69      29.020  22.977 -14.615  1.00  0.00              
ATOM     70  CA  LEU    70      26.000  23.657 -12.371  1.00  0.00              
ATOM     71  CA  THR    71      24.473  20.241 -12.297  1.00  0.00              
ATOM     72  CA  ASP    72      27.708  18.328 -11.480  1.00  0.00              
ATOM     73  CA  VAL    73      26.597  16.239  -8.522  1.00  0.00              
ATOM     74  CA  LEU    74      28.961  16.274  -5.515  1.00  0.00              
ATOM     75  CA  LYS    75      29.659  12.981  -3.869  1.00  0.00              
ATOM     76  CA  GLU    76      30.700  11.319  -0.690  1.00  0.00              
ATOM     77  CA  GLY    77      34.399  11.840  -0.477  1.00  0.00              
ATOM     78  CA  ASP    78      34.510  15.094  -2.428  1.00  0.00              
ATOM     79  CA  ARG    79      37.007  17.651  -1.065  1.00  0.00              
ATOM     80  CA  ILE    80      35.624  21.174  -0.553  1.00  0.00              
ATOM     81  CA  GLU    81      37.715  24.294  -0.868  1.00  0.00              
ATOM     82  CA  ILE    82      36.694  27.397   0.950  1.00  0.00              
ATOM     83  CA  TYR    83      37.622  30.683  -0.597  1.00  0.00              
ATOM     84  CA  ARG    84      38.046  33.595   1.724  1.00  0.00              
ATOM     85  CA  PRO    85      35.220  35.718   0.238  1.00  0.00              
ATOM     86  CA  LEU    86      32.727  32.866   0.243  1.00  0.00              
ATOM     87  CA  LEU    87      33.780  31.652   3.726  1.00  0.00              
ATOM     88  CA  ALA    88      34.039  34.757   5.878  1.00  0.00              
ATOM     89  CA  ASP    89      37.244  36.082   7.238  1.00  0.00              
ATOM     90  CA  PRO    90      40.450  34.610   5.959  1.00  0.00              
ATOM     91  CA  LYS    91      42.222  34.420   9.336  1.00  0.00              
ATOM     92  CA  GLU    92      39.262  32.702  11.047  1.00  0.00              
ATOM     93  CA  ILE    93      38.779  30.165   8.311  1.00  0.00              
ATOM     94  CA  ARG    94      42.429  28.975   8.246  1.00  0.00              
ATOM     95  CA  ARG    95      42.422  28.342  11.787  1.00  0.00              
ATOM     96  CA  GLU    96      41.550  26.612   8.026  1.00  0.00              
ATOM     97  CA  GLY    97      39.951  25.776   4.209  1.00  0.00              
TER                                                                             
END
