
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363TS599_4.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          3.100
LGA    Q      12      Q      12          2.187
LGA    I      13      I      13          2.335
LGA    N      14      N      14          1.514
LGA    I      15      I      15          1.612
LGA    E      16      E      16          4.051
LGA    -       -      I      17           -
LGA    I      17      A      18           #
LGA    A      18      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    Y      19      Y      25           #
LGA    A      20      Y      26           -
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      -       -           -
LGA    L      27      L      27           #
LGA    K      28      K      28          2.596
LGA    S      29      S      29          1.275
LGA    F      30      F      30          2.379
LGA    Q      31      Q      31          2.256
LGA    V      32      V      32          2.348
LGA    D      33      D      33          0.714
LGA    E      34      E      34          2.141
LGA    G      35      G      35          3.092
LGA    I      36      I      36          2.666
LGA    T      37      T      37          3.405
LGA    V      38      V      38          2.810
LGA    Q      39      Q      39          2.340
LGA    T      40      T      40          2.478
LGA    A      41      A      41          1.870
LGA    I      42      I      42          1.307
LGA    T      43      T      43          1.709
LGA    Q      44      Q      44          1.695
LGA    S      45      S      45          0.649
LGA    G      46      G      46          1.478
LGA    I      47      I      47          2.683
LGA    L      48      L      48          2.476
LGA    S      49      S      49          3.316
LGA    -       -      Q      50           -
LGA    Q      50      F      51          3.103
LGA    F      51      P      52           #
LGA    -       -      E      53           -
LGA    P      52      I      54          0.603
LGA    E      53      D      55          2.998
LGA    I      54      L      56          4.023
LGA    D      55      S      57          5.033
LGA    -       -      T      58           -
LGA    -       -      N      59           -
LGA    -       -      K      60           -
LGA    L      56      I      61           #
LGA    S      57      -       -           -
LGA    T      58      -       -           -
LGA    N      59      G      62           #
LGA    K      60      I      63          4.397
LGA    I      61      F      64           -
LGA    G      62      S      65           -
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      -       -           -
LGA    V      73      -       -           -
LGA    L      74      -       -           -
LGA    K      75      -       -           -
LGA    E      76      R      66          4.630
LGA    G      77      P      67          3.323
LGA    D      78      I      68           -
LGA    R      79      K      69           -
LGA    I      80      L      70           -
LGA    E      81      T      71           -
LGA    I      82      D      72           -
LGA    Y      83      V      73           -
LGA    R      84      L      74           -
LGA    P      85      K      75           -
LGA    L      86      E      76           -
LGA    L      87      G      77           -
LGA    A      88      D      78           -
LGA    D      89      R      79           -
LGA    -       -      I      80           -
LGA    -       -      E      81           -
LGA    -       -      I      82           -
LGA    P      90      Y      83          3.912
LGA    K      91      R      84          2.477
LGA    E      92      -       -           -
LGA    I      93      -       -           -
LGA    R      94      P      85          2.384
LGA    R      95      L      86          1.675
LGA    E      96      L      87           #
LGA    G      97      A      88           -
LGA    -       -      D      89           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   80    5.0     40    2.73    70.00     35.929     1.412

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.064434 * X  +   0.384893 * Y  +  -0.920709 * Z  +  20.871881
  Y_new =  -0.979991 * X  +  -0.149707 * Y  +  -0.131166 * Z  +  16.768164
  Z_new =  -0.188321 * X  +   0.910739 * Y  +   0.367545 * Z  +   4.215093 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.187218   -1.954375  [ DEG:    68.0226   -111.9774 ]
  Theta =   0.189453    2.952140  [ DEG:    10.8548    169.1452 ]
  Phi   =  -1.505142    1.636451  [ DEG:   -86.2383     93.7617 ]
 
# 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_4                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS599_4.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   40   2.73   70.00  35.929
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS599_4
PFRMAT TS                                                                       
TARGET T0363                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      18.031  16.438   9.459  1.00  0.00              
ATOM      2  CA  ALA     2      19.335  18.428  12.405  1.00  0.00              
ATOM      3  CA  HIS     3      22.217  20.030  15.007  1.00  0.00              
ATOM      4  CA  HIS     4      23.269  16.579  17.170  1.00  0.00              
ATOM      5  CA  HIS     5      20.474  15.288  19.822  1.00  0.00              
ATOM      6  CA  HIS     6      19.281  11.640  20.082  1.00  0.00              
ATOM      7  CA  HIS     7      18.080   8.276  19.670  1.00  0.00              
ATOM      8  CA  HIS     8      19.304   5.313  21.646  1.00  0.00              
ATOM      9  CA  SER     9      19.823   3.234  18.463  1.00  0.00              
ATOM     10  CA  LEU    10      18.029   4.895  15.551  1.00  0.00              
ATOM     11  CA  ASN    11      17.144   1.711  13.614  1.00  0.00              
ATOM     12  CA  GLN    12      17.276   3.356  10.211  1.00  0.00              
ATOM     13  CA  ILE    13      17.832   7.048  10.258  1.00  0.00              
ATOM     14  CA  ASN    14      17.128   9.045   7.209  1.00  0.00              
ATOM     15  CA  ILE    15      18.716  12.451   6.642  1.00  0.00              
ATOM     16  CA  GLU    16      17.484  14.771   3.977  1.00  0.00              
ATOM     17  CA  ILE    17      19.551  17.666   2.737  1.00  0.00              
ATOM     18  CA  ALA    18      18.254  20.104   0.287  1.00  0.00              
ATOM     19  CA  TYR    19      20.451  22.448  -1.578  1.00  0.00              
ATOM     20  CA  ALA    20      19.087  25.337  -3.406  1.00  0.00              
ATOM     21  CA  PHE    21      21.363  27.333  -5.724  1.00  0.00              
ATOM     22  CA  PRO    22      20.052  29.814  -8.076  1.00  0.00              
ATOM     23  CA  GLU    23      17.618  27.590 -10.028  1.00  0.00              
ATOM     24  CA  ARG    24      19.256  24.218  -9.651  1.00  0.00              
ATOM     25  CA  TYR    25      17.839  21.872  -7.106  1.00  0.00              
ATOM     26  CA  TYR    26      20.037  19.402  -5.593  1.00  0.00              
ATOM     27  CA  LEU    27      18.663  16.779  -3.335  1.00  0.00              
ATOM     28  CA  LYS    28      20.944  14.860  -1.152  1.00  0.00              
ATOM     29  CA  SER    29      19.666  11.770   0.840  1.00  0.00              
ATOM     30  CA  PHE    30      21.726  10.396   3.567  1.00  0.00              
ATOM     31  CA  GLN    31      20.987   7.120   5.101  1.00  0.00              
ATOM     32  CA  VAL    32      22.242   6.295   8.461  1.00  0.00              
ATOM     33  CA  ASP    33      22.154   2.727   9.814  1.00  0.00              
ATOM     34  CA  GLU    34      21.310   2.373  13.431  1.00  0.00              
ATOM     35  CA  GLY    35      24.460   2.103  15.274  1.00  0.00              
ATOM     36  CA  ILE    36      26.711   3.922  12.755  1.00  0.00              
ATOM     37  CA  THR    37      28.912   6.653  14.202  1.00  0.00              
ATOM     38  CA  VAL    38      28.766  10.046  12.643  1.00  0.00              
ATOM     39  CA  GLN    39      32.513   9.846  11.863  1.00  0.00              
ATOM     40  CA  THR    40      32.006   6.548   9.983  1.00  0.00              
ATOM     41  CA  ALA    41      29.118   7.927   7.982  1.00  0.00              
ATOM     42  CA  ILE    42      31.170  10.994   7.057  1.00  0.00              
ATOM     43  CA  THR    43      34.121   8.880   5.973  1.00  0.00              
ATOM     44  CA  GLN    44      32.048   6.599   3.824  1.00  0.00              
ATOM     45  CA  SER    45      30.257   9.387   2.125  1.00  0.00              
ATOM     46  CA  GLY    46      33.307  11.495   1.330  1.00  0.00              
ATOM     47  CA  ILE    47      32.005  14.201   3.738  1.00  0.00              
ATOM     48  CA  LEU    48      35.503  14.809   5.166  1.00  0.00              
ATOM     49  CA  SER    49      36.735  15.131   1.601  1.00  0.00              
ATOM     50  CA  GLN    50      34.038  17.692   0.714  1.00  0.00              
ATOM     51  CA  PHE    51      34.066  19.802   3.901  1.00  0.00              
ATOM     52  CA  PRO    52      37.479  19.428   5.560  1.00  0.00              
ATOM     53  CA  GLU    53      36.565  21.463   8.556  1.00  0.00              
ATOM     54  CA  ILE    54      33.335  19.852   9.607  1.00  0.00              
ATOM     55  CA  ASP    55      33.651  18.034  12.941  1.00  0.00              
ATOM     56  CA  LEU    56      31.310  15.002  12.810  1.00  0.00              
ATOM     57  CA  SER    57      30.642  14.116  16.444  1.00  0.00              
ATOM     58  CA  THR    58      26.859  13.430  16.608  1.00  0.00              
ATOM     59  CA  ASN    59      26.165  16.186  14.136  1.00  0.00              
ATOM     60  CA  LYS    60      23.469  15.806  11.492  1.00  0.00              
ATOM     61  CA  ILE    61      24.974  15.897   7.961  1.00  0.00              
ATOM     62  CA  GLY    62      23.132  14.633   4.966  1.00  0.00              
ATOM     63  CA  ILE    63      24.732  14.514   1.544  1.00  0.00              
ATOM     64  CA  PHE    64      22.227  15.056  -1.367  1.00  0.00              
ATOM     65  CA  SER    65      23.107  14.351  -5.158  1.00  0.00              
ATOM     66  CA  ARG    66      19.625  14.002  -6.499  1.00  0.00              
ATOM     67  CA  PRO    67      18.330  16.515  -8.912  1.00  0.00              
ATOM     68  CA  ILE    68      14.849  17.529  -8.036  1.00  0.00              
ATOM     69  CA  LYS    69      12.009  18.106 -10.411  1.00  0.00              
ATOM     70  CA  LEU    70       9.800  21.105  -9.908  1.00  0.00              
ATOM     71  CA  THR    71       6.742  19.945  -8.003  1.00  0.00              
ATOM     72  CA  ASP    72       8.709  17.772  -5.481  1.00  0.00              
ATOM     73  CA  VAL    73       7.553  18.723  -2.035  1.00  0.00              
ATOM     74  CA  LEU    74      10.127  19.359   0.735  1.00  0.00              
ATOM     75  CA  LYS    75       9.005  17.916   4.023  1.00  0.00              
ATOM     76  CA  GLU    76       8.935  18.468   7.721  1.00  0.00              
ATOM     77  CA  GLY    77      12.422  17.725   8.954  1.00  0.00              
ATOM     78  CA  ASP    78      14.190  18.653   5.830  1.00  0.00              
ATOM     79  CA  ARG    79      17.405  20.719   5.984  1.00  0.00              
ATOM     80  CA  ILE    80      17.661  23.475   3.432  1.00  0.00              
ATOM     81  CA  GLU    81      20.832  25.049   2.205  1.00  0.00              
ATOM     82  CA  ILE    82      20.479  28.298   0.359  1.00  0.00              
ATOM     83  CA  TYR    83      22.936  29.559  -2.036  1.00  0.00              
ATOM     84  CA  ARG    84      22.679  33.317  -1.933  1.00  0.00              
ATOM     85  CA  PRO    85      20.623  34.000  -4.972  1.00  0.00              
ATOM     86  CA  LEU    86      18.178  31.156  -4.603  1.00  0.00              
ATOM     87  CA  LEU    87      17.362  31.306  -0.945  1.00  0.00              
ATOM     88  CA  ALA    88      15.057  28.498   0.045  1.00  0.00              
ATOM     89  CA  ASP    89      12.246  29.449   2.336  1.00  0.00              
ATOM     90  CA  PRO    90      10.935  26.434   4.310  1.00  0.00              
ATOM     91  CA  LYS    91       7.317  27.058   3.217  1.00  0.00              
ATOM     92  CA  GLU    92       8.347  27.387  -0.474  1.00  0.00              
ATOM     93  CA  ILE    93      10.381  24.196  -0.444  1.00  0.00              
ATOM     94  CA  ARG    94       7.297  22.419   1.023  1.00  0.00              
ATOM     95  CA  ARG    95       5.089  24.274  -2.031  1.00  0.00              
ATOM     96  CA  GLU    96       7.900  22.651  -4.685  1.00  0.00              
ATOM     97  CA  GLY    97      11.547  21.043  -5.911  1.00  0.00              
TER                                                                             
END
