
#######################################################
#                                                     #
#                        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   91 (   91),  selected   91 , name T0350TS599_3-D1
# Molecule2: number of CA atoms   91 ( 1511),  selected   91 , name T0350_D1.pdb
# PARAMETERS: T0350TS599_3-D1.T0350_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    N       2      N       2           -
LGA    I       3      I       3           -
LGA    E       4      E       4           -
LGA    R       5      R       5           -
LGA    L       6      L       6           -
LGA    T       7      T       7           -
LGA    T       8      T       8           -
LGA    L       9      L       9           -
LGA    -       -      Q      10           -
LGA    -       -      P      11           -
LGA    -       -      V      12           -
LGA    -       -      W      13           -
LGA    -       -      D      14           -
LGA    -       -      R      15           -
LGA    Q      10      Y      16          3.235
LGA    P      11      D      17           #
LGA    V      12      T      18          4.306
LGA    W      13      Q      19          2.650
LGA    D      14      I      20           #
LGA    R      15      -       -           -
LGA    Y      16      -       -           -
LGA    D      17      H      21          3.909
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      -       -           -
LGA    H      21      -       -           -
LGA    S      36      -       -           -
LGA    Y      37      -       -           -
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      -       -           -
LGA    A      41      -       -           -
LGA    E      42      -       -           -
LGA    M      43      -       -           -
LGA    V      44      -       -           -
LGA    G      45      -       -           -
LGA    E      46      -       -           -
LGA    M      47      -       -           -
LGA    N      48      -       -           -
LGA    K      49      -       -           -
LGA    L      50      -       -           -
LGA    L      51      -       -           -
LGA    E      52      -       -           -
LGA    P      53      -       -           -
LGA    S      54      -       -           -
LGA    Q      55      S      36          4.214
LGA    V      56      Y      37          1.910
LGA    H      57      T      38          3.003
LGA    -       -      N      39           -
LGA    L      58      L      40          2.494
LGA    K      59      A      41          1.715
LGA    -       -      E      42           -
LGA    -       -      M      43           -
LGA    F      60      V      44          2.978
LGA    E      61      G      45          3.856
LGA    -       -      E      46           -
LGA    -       -      M      47           -
LGA    L      62      N      48          2.230
LGA    -       -      K      49           -
LGA    -       -      L      50           -
LGA    H      63      L      51          2.225
LGA    D      64      E      52          1.589
LGA    K      65      P      53          0.618
LGA    L      66      S      54          2.859
LGA    N      67      Q      55          2.483
LGA    E      68      V      56          1.962
LGA    Y      69      H      57          2.848
LGA    -       -      L      58           -
LGA    Y      70      K      59          3.787
LGA    V      71      F      60          1.883
LGA    K      72      E      61          4.929
LGA    V      73      L      62          4.090
LGA    I      74      -       -           -
LGA    E      75      -       -           -
LGA    D      76      -       -           -
LGA    S      77      -       -           -
LGA    T      78      -       -           -
LGA    N      79      -       -           -
LGA    E      80      -       -           -
LGA    V      81      H      63          5.462
LGA    I      82      D      64          4.984
LGA    R      83      -       -           -
LGA    E      84      -       -           -
LGA    I      85      K      65          2.424
LGA    P      86      L      66          2.005
LGA    P      87      N      67          2.741
LGA    K      88      E      68          4.427
LGA    R      89      -       -           -
LGA    W      90      Y      69          2.047
LGA    L      91      Y      70          4.374
LGA    D      92      V      71           #
LGA    F      93      K      72          4.426
LGA    -       -      V      73           -
LGA    -       -      I      74           -
LGA    -       -      E      75           -
LGA    -       -      D      76           -
LGA    -       -      S      77           -
LGA    -       -      T      78           -
LGA    -       -      N      79           -
LGA    -       -      E      80           -
LGA    -       -      V      81           -
LGA    -       -      I      82           -
LGA    -       -      R      83           -
LGA    -       -      E      84           -
LGA    -       -      I      85           -
LGA    -       -      P      86           -
LGA    Y      94      P      87          3.339
LGA    -       -      K      88           -
LGA    A      95      R      89          4.747
LGA    A      96      -       -           -
LGA    M      97      -       -           -
LGA    T      98      W      90          4.426
LGA    E      99      L      91           -
LGA    F     100      D      92           -
LGA    -       -      F      93           -
LGA    -       -      Y      94           -
LGA    -       -      A      95           -
LGA    -       -      A      96           -
LGA    L     101      M      97           #
LGA    G     102      T      98          4.546
LGA    L     103      E      99           -
LGA    F     104      F     100           -
LGA    V     105      L     101          3.007
LGA    -       -      G     102           -
LGA    -       -      L     103           -
LGA    -       -      F     104           -
LGA    -       -      V     105           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     37    3.41     2.70     22.538     1.054

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.615687 * X  +   0.654692 * Y  +   0.438529 * Z  +  -0.158193
  Y_new =   0.460004 * X  +   0.153227 * Y  +  -0.874596 * Z  +   0.447226
  Z_new =  -0.639786 * X  +   0.740202 * Y  +  -0.206821 * Z  + -24.623806 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.843260   -1.298333  [ DEG:   105.6110    -74.3890 ]
  Theta =   0.694219    2.447373  [ DEG:    39.7758    140.2242 ]
  Phi   =   0.641668   -2.499924  [ DEG:    36.7649   -143.2351 ]
 
# 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: T0350TS599_3-D1                               
REMARK     2: T0350_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_3-D1.T0350_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   37   3.41    2.70  22.538
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_3-D1
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -11.264  -2.658 -26.571  1.00  0.00              
ATOM      2  CA  ASN     2      -8.509   0.513 -26.317  1.00  0.00              
ATOM      3  CA  ILE     3      -5.071   1.881 -24.321  1.00  0.00              
ATOM      4  CA  GLU     4      -7.061  -1.523 -22.880  1.00  0.00              
ATOM      5  CA  ARG     5      -4.919  -3.577 -25.286  1.00  0.00              
ATOM      6  CA  LEU     6      -1.564  -2.352 -24.016  1.00  0.00              
ATOM      7  CA  THR     7      -2.333  -2.985 -20.296  1.00  0.00              
ATOM      8  CA  THR     8      -3.501  -6.502 -21.032  1.00  0.00              
ATOM      9  CA  LEU     9      -0.532  -7.640 -23.142  1.00  0.00              
ATOM     10  CA  GLN    10       2.080  -7.021 -20.497  1.00  0.00              
ATOM     11  CA  PRO    11       0.066  -8.961 -17.890  1.00  0.00              
ATOM     12  CA  VAL    12      -0.433 -11.909 -20.257  1.00  0.00              
ATOM     13  CA  TRP    13       3.283 -12.046 -21.193  1.00  0.00              
ATOM     14  CA  ASP    14       4.140 -12.254 -17.506  1.00  0.00              
ATOM     15  CA  ARG    15       1.567 -15.111 -17.063  1.00  0.00              
ATOM     16  CA  TYR    16       3.197 -17.678 -19.220  1.00  0.00              
ATOM     17  CA  ASP    17       2.795 -17.903 -22.848  1.00  0.00              
ATOM     18  CA  THR    18       0.322 -20.824 -23.075  1.00  0.00              
ATOM     19  CA  GLN    19      -1.950 -19.173 -20.485  1.00  0.00              
ATOM     20  CA  ILE    20      -1.920 -15.836 -22.331  1.00  0.00              
ATOM     21  CA  HIS    21      -2.774 -17.454 -25.654  1.00  0.00              
ATOM     36  CA  SER    36     -22.132  -8.376 -31.864  1.00  0.00              
ATOM     37  CA  TYR    37     -19.403  -9.342 -34.368  1.00  0.00              
ATOM     38  CA  THR    38     -19.752  -6.279 -36.524  1.00  0.00              
ATOM     39  CA  ASN    39     -19.557  -3.940 -33.491  1.00  0.00              
ATOM     40  CA  LEU    40     -16.551  -5.639 -32.140  1.00  0.00              
ATOM     41  CA  ALA    41     -14.662  -5.418 -35.388  1.00  0.00              
ATOM     42  CA  GLU    42     -15.502  -1.687 -35.583  1.00  0.00              
ATOM     43  CA  MET    43     -14.271  -1.216 -31.992  1.00  0.00              
ATOM     44  CA  VAL    44     -10.997  -3.066 -32.764  1.00  0.00              
ATOM     45  CA  GLY    45     -10.418  -0.935 -35.819  1.00  0.00              
ATOM     46  CA  GLU    46     -10.913   2.222 -33.715  1.00  0.00              
ATOM     47  CA  MET    47      -8.491   0.874 -31.109  1.00  0.00              
ATOM     48  CA  ASN    48      -5.934   0.138 -33.880  1.00  0.00              
ATOM     49  CA  LYS    49      -6.179   3.723 -35.043  1.00  0.00              
ATOM     50  CA  LEU    50      -5.617   4.918 -31.432  1.00  0.00              
ATOM     51  CA  LEU    51      -2.541   2.643 -31.081  1.00  0.00              
ATOM     52  CA  GLU    52      -1.118   3.908 -34.351  1.00  0.00              
ATOM     53  CA  PRO    53      -1.524   7.517 -33.262  1.00  0.00              
ATOM     54  CA  SER    54       0.174   6.817 -29.889  1.00  0.00              
ATOM     55  CA  GLN    55       3.065   5.070 -31.563  1.00  0.00              
ATOM     56  CA  VAL    56       3.788   7.874 -33.994  1.00  0.00              
ATOM     57  CA  HIS    57       3.846  10.455 -31.236  1.00  0.00              
ATOM     58  CA  LEU    58       5.639   8.975 -28.230  1.00  0.00              
ATOM     59  CA  LYS    59       4.970  10.409 -24.825  1.00  0.00              
ATOM     60  CA  PHE    60       7.810   9.900 -22.285  1.00  0.00              
ATOM     61  CA  GLU    61       6.863  10.030 -18.151  1.00  0.00              
ATOM     62  CA  LEU    62       9.682  10.388 -15.901  1.00  0.00              
ATOM     63  CA  HIS    63       9.513   8.982 -12.521  1.00  0.00              
ATOM     64  CA  ASP    64      11.476  10.663  -9.812  1.00  0.00              
ATOM     65  CA  LYS    65       8.766  10.481  -7.164  1.00  0.00              
ATOM     66  CA  LEU    66       8.017   6.772  -7.665  1.00  0.00              
ATOM     67  CA  ASN    67      11.720   5.956  -8.021  1.00  0.00              
ATOM     68  CA  GLU    68      11.254   4.245 -11.404  1.00  0.00              
ATOM     69  CA  TYR    69      12.874   5.850 -14.437  1.00  0.00              
ATOM     70  CA  TYR    70      10.873   6.318 -17.564  1.00  0.00              
ATOM     71  CA  VAL    71      12.215   8.360 -20.333  1.00  0.00              
ATOM     72  CA  LYS    72       9.570   9.884 -22.815  1.00  0.00              
ATOM     73  CA  VAL    73      10.610  11.019 -26.088  1.00  0.00              
ATOM     74  CA  ILE    74       8.119  13.224 -27.591  1.00  0.00              
ATOM     75  CA  GLU    75       8.097  14.002 -31.261  1.00  0.00              
ATOM     76  CA  ASP    76       5.015  15.772 -32.545  1.00  0.00              
ATOM     77  CA  SER    77       6.203  19.298 -32.977  1.00  0.00              
ATOM     78  CA  THR    78       9.340  18.530 -34.933  1.00  0.00              
ATOM     79  CA  ASN    79       8.565  15.067 -36.421  1.00  0.00              
ATOM     80  CA  GLU    80      11.918  13.697 -35.860  1.00  0.00              
ATOM     81  CA  VAL    81      11.611  10.422 -34.073  1.00  0.00              
ATOM     82  CA  ILE    82       8.718   9.030 -36.028  1.00  0.00              
ATOM     83  CA  ARG    83      10.291   9.630 -39.392  1.00  0.00              
ATOM     84  CA  GLU    84      13.619   8.052 -38.437  1.00  0.00              
ATOM     85  CA  ILE    85      12.133   5.061 -36.947  1.00  0.00              
ATOM     86  CA  PRO    86      11.519   1.741 -38.542  1.00  0.00              
ATOM     87  CA  PRO    87       8.109   0.454 -37.576  1.00  0.00              
ATOM     88  CA  LYS    88       9.526  -2.392 -35.505  1.00  0.00              
ATOM     89  CA  ARG    89      11.662  -0.013 -33.512  1.00  0.00              
ATOM     90  CA  TRP    90       8.643   2.194 -32.767  1.00  0.00              
ATOM     91  CA  LEU    91       6.906  -0.897 -31.333  1.00  0.00              
ATOM     92  CA  ASP    92      10.010  -1.583 -29.242  1.00  0.00              
ATOM     93  CA  PHE    93      10.039   2.014 -27.906  1.00  0.00              
ATOM     94  CA  TYR    94       6.312   1.700 -27.033  1.00  0.00              
ATOM     95  CA  ALA    95       6.918  -1.616 -25.196  1.00  0.00              
ATOM     96  CA  ALA    96       9.792   0.008 -23.285  1.00  0.00              
ATOM     97  CA  MET    97       7.646   2.938 -22.308  1.00  0.00              
ATOM     98  CA  THR    98       4.876   0.576 -21.061  1.00  0.00              
ATOM     99  CA  GLU    99       7.329  -1.203 -18.802  1.00  0.00              
ATOM    100  CA  PHE   100       8.536   2.130 -17.397  1.00  0.00              
ATOM    101  CA  LEU   101       5.196   3.907 -16.825  1.00  0.00              
ATOM    102  CA  GLY   102       3.947   0.742 -15.140  1.00  0.00              
ATOM    103  CA  LEU   103       6.975   0.875 -12.759  1.00  0.00              
ATOM    104  CA  PHE   104       6.539   4.497 -11.780  1.00  0.00              
ATOM    105  CA  VAL   105       2.903   4.891 -11.303  1.00  0.00              
TER                                                                             
END
