
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms   89 (  730),  selected   89 , name T0347_D1.pdb
# PARAMETERS: T0347TS599_5-D1.T0347_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      P       7           -
LGA    -       -      R       8           -
LGA    P       7      L       9          3.425
LGA    R       8      S      10          3.490
LGA    L       9      R      11          3.450
LGA    S      10      I      12          2.871
LGA    R      11      A      13          2.101
LGA    -       -      I      14           -
LGA    -       -      D      15           -
LGA    I      12      K      16          3.168
LGA    A      13      L      17           -
LGA    I      14      -       -           -
LGA    D      15      -       -           -
LGA    K      16      -       -           -
LGA    L      17      -       -           -
LGA    R      18      -       -           -
LGA    P      19      -       -           -
LGA    T      20      -       -           -
LGA    Q      21      -       -           -
LGA    I      22      R      18           #
LGA    A      23      P      19           #
LGA    -       -      T      20           -
LGA    V      24      Q      21          4.556
LGA    G      25      I      22           #
LGA    F      26      A      23           #
LGA    R      27      V      24          4.560
LGA    E      28      G      25           #
LGA    V      29      -       -           -
LGA    E      30      F      26          5.326
LGA    -       -      R      27           -
LGA    -       -      E      28           -
LGA    -       -      V      29           -
LGA    -       -      E      30           -
LGA    L      31      L      31          3.505
LGA    K      32      K      32          1.898
LGA    R      33      R      33          1.847
LGA    K      34      K      34          3.260
LGA    E      35      E      35          2.525
LGA    W      36      W      36          2.596
LGA    R      37      R      37          3.393
LGA    H      51      H      51          2.301
LGA    I      52      -       -           -
LGA    V      53      -       -           -
LGA    P      54      -       -           -
LGA    V      55      -       -           -
LGA    V      56      -       -           -
LGA    A      57      -       -           -
LGA    G      58      -       -           -
LGA    P      59      -       -           -
LGA    K      60      -       -           -
LGA    D      61      -       -           -
LGA    R      62      -       -           -
LGA    A      63      -       -           -
LGA    Y      64      -       -           -
LGA    L      65      -       -           -
LGA    I      66      -       -           -
LGA    D      67      I      52           #
LGA    H      68      V      53          1.703
LGA    H      69      -       -           -
LGA    H      70      -       -           -
LGA    L      71      P      54          3.322
LGA    V      72      V      55          3.027
LGA    L      73      -       -           -
LGA    A      74      -       -           -
LGA    L      75      V      56          2.273
LGA    S      76      -       -           -
LGA    K      77      -       -           -
LGA    E      78      -       -           -
LGA    G      79      -       -           -
LGA    V      80      -       -           -
LGA    E      81      A      57          2.998
LGA    H      82      G      58           #
LGA    -       -      P      59           -
LGA    -       -      K      60           -
LGA    -       -      D      61           -
LGA    V      83      R      62           #
LGA    L      84      A      63          3.531
LGA    T      85      Y      64           -
LGA    S      86      L      65           -
LGA    E      87      I      66           -
LGA    -       -      D      67           -
LGA    -       -      H      68           -
LGA    -       -      H      69           -
LGA    -       -      H      70           -
LGA    -       -      L      71           -
LGA    -       -      V      72           -
LGA    -       -      L      73           -
LGA    -       -      A      74           -
LGA    -       -      L      75           -
LGA    V      88      S      76          4.457
LGA    A      89      K      77          3.245
LGA    -       -      E      78           -
LGA    K      90      G      79          2.175
LGA    F      91      V      80          3.322
LGA    S      92      E      81           #
LGA    H      93      -       -           -
LGA    L      94      -       -           -
LGA    G      95      -       -           -
LGA    K      96      -       -           -
LGA    D      97      -       -           -
LGA    E      98      -       -           -
LGA    F      99      H      82          4.997
LGA    W     100      V      83           -
LGA    S     101      -       -           -
LGA    V     102      -       -           -
LGA    M     103      L      84          4.915
LGA    D     104      T      85           -
LGA    H     105      S      86           -
LGA    R     106      E      87           -
LGA    N     107      V      88           -
LGA    L     108      A      89           -
LGA    -       -      K      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      H      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      E      98           -
LGA    -       -      F      99           -
LGA    -       -      W     100           -
LGA    -       -      S     101           -
LGA    -       -      V     102           -
LGA    -       -      M     103           -
LGA    -       -      D     104           -
LGA    -       -      H     105           -
LGA    -       -      R     106           -
LGA    -       -      N     107           -
LGA    -       -      L     108           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   89   89    5.0     29    3.39    31.03     19.786     0.831

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.566194 * X  +   0.791810 * Y  +  -0.229044 * Z  +  -0.418712
  Y_new =  -0.630202 * X  +  -0.594944 * Y  +  -0.498886 * Z  +  30.057451
  Z_new =  -0.531291 * X  +  -0.138122 * Y  +   0.835854 * Z  + -24.618238 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.163767    2.977826  [ DEG:    -9.3831    170.6169 ]
  Theta =   0.560124    2.581469  [ DEG:    32.0927    147.9073 ]
  Phi   =  -2.302744    0.838848  [ DEG:  -131.9375     48.0625 ]
 
# 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_5-D1                               
REMARK     2: T0347_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_5-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   29   3.39   31.03  19.786
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_5-D1
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      7  CA  PRO     7      10.109  25.848  -9.107  1.00  0.00              
ATOM      8  CA  ARG     8       6.383  26.275  -9.454  1.00  0.00              
ATOM      9  CA  LEU     9       5.119  29.563 -10.689  1.00  0.00              
ATOM     10  CA  SER    10       1.494  30.006 -10.934  1.00  0.00              
ATOM     11  CA  ARG    11       0.094  32.550 -13.290  1.00  0.00              
ATOM     12  CA  ILE    12      -3.135  34.276 -12.398  1.00  0.00              
ATOM     13  CA  ALA    13      -5.371  36.124 -14.888  1.00  0.00              
ATOM     14  CA  ILE    14      -6.392  39.733 -14.403  1.00  0.00              
ATOM     15  CA  ASP    15     -10.017  39.194 -14.831  1.00  0.00              
ATOM     16  CA  LYS    16     -10.084  36.755 -12.014  1.00  0.00              
ATOM     17  CA  LEU    17      -8.460  39.107  -9.538  1.00  0.00              
ATOM     18  CA  ARG    18     -10.181  38.903  -6.219  1.00  0.00              
ATOM     19  CA  PRO    19     -11.114  41.703  -3.899  1.00  0.00              
ATOM     20  CA  THR    20      -8.499  41.123  -1.210  1.00  0.00              
ATOM     21  CA  GLN    21      -5.591  41.470  -3.631  1.00  0.00              
ATOM     22  CA  ILE    22      -3.127  43.584  -1.703  1.00  0.00              
ATOM     23  CA  ALA    23      -0.783  45.990  -3.420  1.00  0.00              
ATOM     24  CA  VAL    24       2.683  46.746  -2.168  1.00  0.00              
ATOM     25  CA  GLY    25       4.637  49.365  -3.997  1.00  0.00              
ATOM     26  CA  PHE    26       7.911  47.846  -5.073  1.00  0.00              
ATOM     27  CA  ARG    27      10.687  50.273  -5.737  1.00  0.00              
ATOM     28  CA  GLU    28      13.106  47.970  -7.562  1.00  0.00              
ATOM     29  CA  VAL    29      10.449  46.641  -9.896  1.00  0.00              
ATOM     30  CA  GLU    30       9.343  50.146 -10.683  1.00  0.00              
ATOM     31  CA  LEU    31      12.907  51.223 -11.410  1.00  0.00              
ATOM     32  CA  LYS    32      13.552  48.341 -13.787  1.00  0.00              
ATOM     33  CA  ARG    33      10.364  49.152 -15.653  1.00  0.00              
ATOM     34  CA  LYS    34      11.373  52.716 -16.024  1.00  0.00              
ATOM     35  CA  GLU    35      14.641  51.621 -17.649  1.00  0.00              
ATOM     36  CA  TRP    36      12.824  49.317 -19.987  1.00  0.00              
ATOM     37  CA  ARG    37      10.286  51.872 -21.081  1.00  0.00              
ATOM     51  CA  HIS    51      13.961  38.195 -16.656  1.00  0.00              
ATOM     52  CA  ILE    52      10.303  37.704 -16.209  1.00  0.00              
ATOM     53  CA  VAL    53       9.245  40.142 -13.576  1.00  0.00              
ATOM     54  CA  PRO    54       6.075  39.405 -11.788  1.00  0.00              
ATOM     55  CA  VAL    55       3.575  42.231 -11.452  1.00  0.00              
ATOM     56  CA  VAL    56       1.044  42.153  -8.773  1.00  0.00              
ATOM     57  CA  ALA    57      -1.947  44.410  -8.958  1.00  0.00              
ATOM     58  CA  GLY    58      -4.127  44.810  -5.889  1.00  0.00              
ATOM     59  CA  PRO    59      -7.769  45.917  -5.730  1.00  0.00              
ATOM     60  CA  LYS    60      -6.916  49.397  -4.500  1.00  0.00              
ATOM     61  CA  ASP    61      -4.753  50.211  -7.442  1.00  0.00              
ATOM     62  CA  ARG    62      -1.466  49.779  -5.659  1.00  0.00              
ATOM     63  CA  ALA    63       1.271  48.229  -7.706  1.00  0.00              
ATOM     64  CA  TYR    64       3.691  45.658  -6.350  1.00  0.00              
ATOM     65  CA  LEU    65       6.571  44.493  -8.524  1.00  0.00              
ATOM     66  CA  ILE    66       8.157  41.179  -8.003  1.00  0.00              
ATOM     67  CA  ASP    67      11.454  40.547  -9.494  1.00  0.00              
ATOM     68  CA  HIS    68      11.849  36.795  -9.843  1.00  0.00              
ATOM     69  CA  HIS    69      14.477  36.183  -7.203  1.00  0.00              
ATOM     70  CA  HIS    70      12.571  38.080  -4.544  1.00  0.00              
ATOM     71  CA  LEU    71       9.330  36.111  -4.959  1.00  0.00              
ATOM     72  CA  VAL    72      10.930  32.713  -4.850  1.00  0.00              
ATOM     73  CA  LEU    73      13.039  33.493  -1.886  1.00  0.00              
ATOM     74  CA  ALA    74      10.214  34.964   0.239  1.00  0.00              
ATOM     75  CA  LEU    75       7.956  32.016  -0.421  1.00  0.00              
ATOM     76  CA  SER    76      10.677  29.613   0.460  1.00  0.00              
ATOM     77  CA  LYS    77      11.574  31.221   3.714  1.00  0.00              
ATOM     78  CA  GLU    78       7.999  31.332   4.834  1.00  0.00              
ATOM     79  CA  GLY    79       7.348  27.698   4.037  1.00  0.00              
ATOM     80  CA  VAL    80       5.443  28.448   0.874  1.00  0.00              
ATOM     81  CA  GLU    81       5.915  26.241  -2.050  1.00  0.00              
ATOM     82  CA  HIS    82       3.823  27.934  -4.689  1.00  0.00              
ATOM     83  CA  VAL    83       4.303  31.455  -5.910  1.00  0.00              
ATOM     84  CA  LEU    84       1.367  33.312  -7.461  1.00  0.00              
ATOM     85  CA  THR    85       2.071  35.850 -10.137  1.00  0.00              
ATOM     86  CA  SER    86      -0.561  38.339 -11.237  1.00  0.00              
ATOM     87  CA  GLU    87       0.153  40.557 -14.150  1.00  0.00              
ATOM     88  CA  VAL    88      -1.982  43.492 -14.640  1.00  0.00              
ATOM     89  CA  ALA    89      -0.590  45.926 -17.098  1.00  0.00              
ATOM     90  CA  LYS    90       2.178  43.615 -18.185  1.00  0.00              
ATOM     91  CA  PHE    91       0.054  40.610 -19.152  1.00  0.00              
ATOM     92  CA  SER    92      -2.052  42.717 -21.475  1.00  0.00              
ATOM     93  CA  HIS    93       0.860  44.227 -23.239  1.00  0.00              
ATOM     94  CA  LEU    94       2.512  40.982 -24.026  1.00  0.00              
ATOM     95  CA  GLY    95      -0.057  38.500 -25.275  1.00  0.00              
ATOM     96  CA  LYS    96      -0.949  35.529 -23.202  1.00  0.00              
ATOM     97  CA  ASP    97       0.570  32.963 -25.495  1.00  0.00              
ATOM     98  CA  GLU    98       3.922  34.667 -25.511  1.00  0.00              
ATOM     99  CA  PHE    99       4.043  34.924 -21.771  1.00  0.00              
ATOM    100  CA  TRP   100       3.189  31.252 -21.347  1.00  0.00              
ATOM    101  CA  SER   101       5.882  30.245 -23.726  1.00  0.00              
ATOM    102  CA  VAL   102       8.456  32.258 -22.001  1.00  0.00              
ATOM    103  CA  MET   103       7.573  30.919 -18.562  1.00  0.00              
ATOM    104  CA  ASP   104       7.635  27.372 -19.913  1.00  0.00              
ATOM    105  CA  HIS   105      11.124  27.941 -21.261  1.00  0.00              
ATOM    106  CA  ARG   106      12.409  28.726 -17.836  1.00  0.00              
ATOM    107  CA  ASN   107      10.868  25.643 -16.324  1.00  0.00              
ATOM    108  CA  LEU   108       7.808  26.135 -14.377  1.00  0.00              
TER                                                                             
END
