
#######################################################
#                                                     #
#                        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   89 (   89),  selected   89 , name T0347TS599_1-D1
# Molecule2: number of CA atoms   89 (  730),  selected   89 , name T0347_D1.pdb
# PARAMETERS: T0347TS599_1-D1.T0347_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    P       7      P       7           -
LGA    R       8      R       8           -
LGA    -       -      L       9           -
LGA    -       -      S      10           -
LGA    L       9      R      11          2.735
LGA    S      10      I      12          1.409
LGA    R      11      A      13           -
LGA    I      12      I      14           -
LGA    A      13      D      15           -
LGA    I      14      K      16           -
LGA    D      15      L      17           -
LGA    K      16      R      18           -
LGA    L      17      P      19           -
LGA    R      18      T      20           -
LGA    P      19      Q      21           -
LGA    T      20      I      22           -
LGA    Q      21      A      23           -
LGA    I      22      V      24           -
LGA    A      23      G      25           -
LGA    V      24      F      26           -
LGA    G      25      R      27           -
LGA    F      26      E      28           -
LGA    R      27      V      29           -
LGA    E      28      E      30           -
LGA    V      29      L      31           -
LGA    E      30      K      32           -
LGA    L      31      R      33           -
LGA    K      32      K      34           -
LGA    R      33      E      35           -
LGA    K      34      W      36           -
LGA    E      35      R      37           -
LGA    W      36      H      51           -
LGA    R      37      -       -           -
LGA    H      51      -       -           -
LGA    I      52      I      52           #
LGA    V      53      V      53           #
LGA    -       -      P      54           -
LGA    P      54      V      55          2.098
LGA    V      55      V      56          3.448
LGA    V      56      A      57          3.791
LGA    -       -      G      58           -
LGA    -       -      P      59           -
LGA    A      57      K      60           #
LGA    G      58      D      61          4.673
LGA    P      59      R      62           #
LGA    K      60      -       -           -
LGA    D      61      -       -           -
LGA    R      62      -       -           -
LGA    A      63      -       -           -
LGA    Y      64      A      63          4.089
LGA    L      65      Y      64           -
LGA    I      66      L      65           #
LGA    D      67      I      66           #
LGA    H      68      -       -           -
LGA    H      69      -       -           -
LGA    H      70      -       -           -
LGA    L      71      D      67          3.784
LGA    V      72      H      68          2.596
LGA    L      73      H      69          5.783
LGA    A      74      H      70          2.554
LGA    L      75      L      71           #
LGA    S      76      V      72           -
LGA    K      77      -       -           -
LGA    E      78      L      73           #
LGA    G      79      A      74           -
LGA    V      80      L      75           -
LGA    E      81      S      76           -
LGA    H      82      K      77           -
LGA    V      83      E      78           -
LGA    L      84      G      79           -
LGA    T      85      V      80           -
LGA    -       -      E      81           -
LGA    -       -      H      82           -
LGA    -       -      V      83           -
LGA    -       -      L      84           -
LGA    -       -      T      85           -
LGA    -       -      S      86           -
LGA    -       -      E      87           -
LGA    S      86      V      88           #
LGA    E      87      A      89          3.961
LGA    V      88      -       -           -
LGA    A      89      K      90          3.942
LGA    K      90      F      91          2.440
LGA    F      91      S      92          2.289
LGA    S      92      H      93          1.132
LGA    H      93      -       -           -
LGA    L      94      L      94          3.174
LGA    G      95      G      95          3.053
LGA    K      96      K      96          2.840
LGA    D      97      D      97          1.867
LGA    E      98      E      98          1.407
LGA    F      99      F      99          1.629
LGA    W     100      W     100          1.000
LGA    S     101      S     101          0.776
LGA    V     102      V     102          1.500
LGA    M     103      M     103          1.287
LGA    D     104      D     104          1.885
LGA    H     105      H     105          2.888
LGA    R     106      R     106          3.254
LGA    N     107      N     107          3.038
LGA    L     108      L     108          2.117

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   89   89    5.0     31    2.90    51.61     25.329     1.033

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.834202 * X  +  -0.322048 * Y  +   0.447652 * Z  +   1.556925
  Y_new =  -0.037241 * X  +  -0.842806 * Y  +  -0.536928 * Z  +  33.232037
  Z_new =   0.550200 * X  +   0.431235 * Y  +  -0.715063 * Z  +  -9.702922 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.598917   -0.542676  [ DEG:   148.9070    -31.0930 ]
  Theta =  -0.582604   -2.558988  [ DEG:   -33.3808   -146.6192 ]
  Phi   =  -0.044613    3.096980  [ DEG:    -2.5561    177.4439 ]
 
# 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: T0347TS599_1-D1                               
REMARK     2: T0347_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_1-D1.T0347_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   89   89   5.0   31   2.90   51.61  25.329
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_1-D1
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      7  CA  PRO     7       8.486  36.734 -15.145  1.00  0.00              
ATOM      8  CA  ARG     8       6.027  35.520 -12.602  1.00  0.00              
ATOM      9  CA  LEU     9       4.748  32.234 -13.604  1.00  0.00              
ATOM     10  CA  SER    10       1.244  31.232 -12.749  1.00  0.00              
ATOM     11  CA  ARG    11       0.305  27.574 -12.958  1.00  0.00              
ATOM     12  CA  ILE    12      -3.269  26.632 -13.585  1.00  0.00              
ATOM     13  CA  ALA    13      -4.710  23.246 -14.630  1.00  0.00              
ATOM     14  CA  ILE    14      -6.830  23.208 -17.779  1.00  0.00              
ATOM     15  CA  ASP    15      -9.752  21.274 -16.301  1.00  0.00              
ATOM     16  CA  LYS    16     -10.246  23.832 -13.549  1.00  0.00              
ATOM     17  CA  LEU    17     -10.309  26.853 -15.838  1.00  0.00              
ATOM     18  CA  ARG    18     -12.434  25.849 -18.849  1.00  0.00              
ATOM     19  CA  PRO    19     -12.954  28.144 -21.748  1.00  0.00              
ATOM     20  CA  THR    20     -10.606  26.666 -24.300  1.00  0.00              
ATOM     21  CA  GLN    21      -8.788  24.235 -22.090  1.00  0.00              
ATOM     22  CA  ILE    22      -4.981  24.065 -22.353  1.00  0.00              
ATOM     23  CA  ALA    23      -3.247  21.793 -19.909  1.00  0.00              
ATOM     24  CA  VAL    24       0.390  21.594 -19.014  1.00  0.00              
ATOM     25  CA  GLY    25       1.398  18.400 -17.230  1.00  0.00              
ATOM     26  CA  PHE    26       4.797  19.218 -15.771  1.00  0.00              
ATOM     27  CA  ARG    27       6.685  15.987 -15.283  1.00  0.00              
ATOM     28  CA  GLU    28      10.253  17.207 -14.635  1.00  0.00              
ATOM     29  CA  VAL    29       9.062  19.840 -12.262  1.00  0.00              
ATOM     30  CA  GLU    30       6.922  17.439 -10.325  1.00  0.00              
ATOM     31  CA  LEU    31       9.836  15.046  -9.893  1.00  0.00              
ATOM     32  CA  LYS    32      12.008  17.852  -8.593  1.00  0.00              
ATOM     33  CA  ARG    33       9.443  18.818  -6.083  1.00  0.00              
ATOM     34  CA  LYS    34       9.055  15.343  -4.803  1.00  0.00              
ATOM     35  CA  GLU    35      12.801  15.187  -4.270  1.00  0.00              
ATOM     36  CA  TRP    36      12.721  18.457  -2.346  1.00  0.00              
ATOM     37  CA  ARG    37       9.916  17.478  -0.085  1.00  0.00              
ATOM     51  CA  HIS    51      16.897  27.499  -8.179  1.00  0.00              
ATOM     52  CA  ILE    52      14.907  30.384  -7.013  1.00  0.00              
ATOM     53  CA  VAL    53      12.055  28.930  -5.216  1.00  0.00              
ATOM     54  CA  PRO    54       9.208  30.807  -3.875  1.00  0.00              
ATOM     55  CA  VAL    55       5.890  29.186  -4.427  1.00  0.00              
ATOM     56  CA  VAL    56       2.789  31.096  -3.744  1.00  0.00              
ATOM     57  CA  ALA    57      -0.439  29.241  -3.191  1.00  0.00              
ATOM     58  CA  GLY    58      -3.596  31.284  -3.399  1.00  0.00              
ATOM     59  CA  PRO    59      -6.832  30.522  -1.575  1.00  0.00              
ATOM     60  CA  LYS    60      -8.280  28.671  -4.544  1.00  0.00              
ATOM     61  CA  ASP    61      -5.302  26.433  -5.017  1.00  0.00              
ATOM     62  CA  ARG    62      -3.776  28.098  -7.971  1.00  0.00              
ATOM     63  CA  ALA    63      -0.015  28.030  -7.923  1.00  0.00              
ATOM     64  CA  TYR    64       2.073  31.096  -8.601  1.00  0.00              
ATOM     65  CA  LEU    65       5.777  30.683  -9.184  1.00  0.00              
ATOM     66  CA  ILE    66       8.047  33.519  -8.447  1.00  0.00              
ATOM     67  CA  ASP    67      11.785  33.092  -8.919  1.00  0.00              
ATOM     68  CA  HIS    68      13.245  34.867  -5.949  1.00  0.00              
ATOM     69  CA  HIS    69      15.326  37.531  -7.629  1.00  0.00              
ATOM     70  CA  HIS    70      12.576  38.819  -9.861  1.00  0.00              
ATOM     71  CA  LEU    71       9.997  39.206  -7.115  1.00  0.00              
ATOM     72  CA  VAL    72      12.023  40.757  -4.324  1.00  0.00              
ATOM     73  CA  LEU    73      13.515  43.275  -6.692  1.00  0.00              
ATOM     74  CA  ALA    74      10.141  44.280  -8.207  1.00  0.00              
ATOM     75  CA  LEU    75       8.607  44.791  -4.732  1.00  0.00              
ATOM     76  CA  SER    76      11.535  46.947  -3.644  1.00  0.00              
ATOM     77  CA  LYS    77      11.348  49.149  -6.697  1.00  0.00              
ATOM     78  CA  GLU    78       7.684  49.827  -5.999  1.00  0.00              
ATOM     79  CA  GLY    79       8.463  50.776  -2.413  1.00  0.00              
ATOM     80  CA  VAL    80       7.333  47.586  -0.809  1.00  0.00              
ATOM     81  CA  GLU    81       9.819  46.742   1.898  1.00  0.00              
ATOM     82  CA  HIS    82       8.945  43.186   2.642  1.00  0.00              
ATOM     83  CA  VAL    83       7.965  40.395   0.342  1.00  0.00              
ATOM     84  CA  LEU    84       6.168  37.374   1.778  1.00  0.00              
ATOM     85  CA  THR    85       6.827  34.067   0.095  1.00  0.00              
ATOM     86  CA  SER    86       4.519  31.087   0.776  1.00  0.00              
ATOM     87  CA  GLU    87       5.644  27.661  -0.068  1.00  0.00              
ATOM     88  CA  VAL    88       3.043  25.231  -1.088  1.00  0.00              
ATOM     89  CA  ALA    89       4.106  21.960   0.482  1.00  0.00              
ATOM     90  CA  LYS    90       4.887  24.045   3.582  1.00  0.00              
ATOM     91  CA  PHE    91       1.549  25.699   4.030  1.00  0.00              
ATOM     92  CA  SER    92      -0.434  22.509   3.817  1.00  0.00              
ATOM     93  CA  HIS    93       1.530  21.039   6.692  1.00  0.00              
ATOM     94  CA  LEU    94       1.061  24.038   8.895  1.00  0.00              
ATOM     95  CA  GLY    95      -2.458  25.337   8.758  1.00  0.00              
ATOM     96  CA  LYS    96      -3.121  28.603   7.015  1.00  0.00              
ATOM     97  CA  ASP    97      -3.286  30.712  10.168  1.00  0.00              
ATOM     98  CA  GLU    98       0.029  29.429  11.514  1.00  0.00              
ATOM     99  CA  PHE    99       1.832  30.189   8.271  1.00  0.00              
ATOM    100  CA  TRP   100       0.541  33.775   8.175  1.00  0.00              
ATOM    101  CA  SER   101       1.554  34.261  11.807  1.00  0.00              
ATOM    102  CA  VAL   102       5.029  33.074  11.188  1.00  0.00              
ATOM    103  CA  MET   103       5.462  35.264   8.154  1.00  0.00              
ATOM    104  CA  ASP   104       4.262  38.306   9.984  1.00  0.00              
ATOM    105  CA  HIS   105       6.729  37.697  12.848  1.00  0.00              
ATOM    106  CA  ARG   106       9.648  37.277  10.522  1.00  0.00              
ATOM    107  CA  ASN   107       8.905  40.470   8.707  1.00  0.00              
ATOM    108  CA  LEU   108       8.014  39.107   5.315  1.00  0.00              
TER                                                                             
END
