
#######################################################
#                                                     #
#                        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 T0283TS599_1-D1
# Molecule2: number of CA atoms   97 (  768),  selected   97 , name T0283_D1.pdb
# PARAMETERS: T0283TS599_1-D1.T0283_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          3.611
LGA    S       2      S       2          4.312
LGA    F       3      F       3          0.708
LGA    I       4      I       4          1.509
LGA    E       5      E       5          2.221
LGA    K       6      K       6          1.577
LGA    M       7      M       7          0.982
LGA    I       8      I       8          1.961
LGA    G       9      G       9          1.813
LGA    S      10      S      10          0.933
LGA    L      11      L      11          1.355
LGA    N      12      N      12          1.427
LGA    D      13      D      13          0.681
LGA    K      14      K      14          1.013
LGA    R      15      R      15          0.973
LGA    E      16      E      16          0.388
LGA    W      17      W      17          0.801
LGA    K      18      K      18          1.148
LGA    A      19      A      19          0.892
LGA    M      20      M      20          1.096
LGA    E      21      E      21          1.650
LGA    A      22      A      22          1.946
LGA    R      23      R      23          1.977
LGA    A      24      A      24          2.303
LGA    K      25      K      25          2.504
LGA    A      26      A      26          2.524
LGA    L      27      L      27          2.284
LGA    P      28      P      28          1.579
LGA    K      29      K      29          0.959
LGA    E      30      E      30          0.833
LGA    Y      31      Y      31          1.050
LGA    H      32      H      32          1.050
LGA    H      33      H      33          1.300
LGA    A      34      A      34          1.300
LGA    Y      35      Y      35          0.836
LGA    K      36      K      36          1.498
LGA    A      37      A      37          2.342
LGA    I      38      I      38          2.260
LGA    Q      39      Q      39          1.988
LGA    K      40      K      40          2.961
LGA    Y      41      Y      41          3.345
LGA    M      42      M      42          3.184
LGA    -       -      W      43           -
LGA    -       -      T      44           -
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    W      43      G      47          2.465
LGA    T      44      P      48          3.386
LGA    S      45      T      49          2.882
LGA    G      46      D      50          3.787
LGA    G      47      W      51          3.364
LGA    -       -      Q      52           -
LGA    P      48      D      53           #
LGA    T      49      T      54          3.839
LGA    D      50      K      55          3.362
LGA    W      51      -       -           -
LGA    Q      52      -       -           -
LGA    D      53      R      56          3.789
LGA    T      54      I      57          3.173
LGA    K      55      F      58          3.873
LGA    R      56      G      59          4.614
LGA    I      57      G      60          2.502
LGA    F      58      I      61          1.612
LGA    -       -      L      62           -
LGA    -       -      D      63           -
LGA    G      59      L      64          2.662
LGA    G      60      F      65          6.291
LGA    I      61      E      66           -
LGA    -       -      E      67           -
LGA    -       -      G      68           -
LGA    -       -      A      69           -
LGA    -       -      A      70           -
LGA    -       -      E      71           -
LGA    -       -      G      72           -
LGA    -       -      K      73           -
LGA    -       -      K      74           -
LGA    L      62      V      75          4.473
LGA    D      63      -       -           -
LGA    L      64      -       -           -
LGA    F      65      T      76          3.022
LGA    E      66      D      77          2.065
LGA    E      67      L      78          5.047
LGA    -       -      T      79           -
LGA    G      68      G      80          3.515
LGA    A      69      E      81          4.669
LGA    A      70      -       -           -
LGA    E      71      -       -           -
LGA    G      72      -       -           -
LGA    K      73      -       -           -
LGA    K      74      -       -           -
LGA    V      75      -       -           -
LGA    T      76      D      82          3.451
LGA    D      77      V      83           -
LGA    L      78      A      84           -
LGA    -       -      A      85           -
LGA    T      79      F      86           #
LGA    G      80      C      87           -
LGA    E      81      -       -           -
LGA    D      82      -       -           -
LGA    V      83      D      88          3.706
LGA    A      84      E      89           #
LGA    A      85      L      90           -
LGA    -       -      M      91           -
LGA    F      86      K      92          6.084
LGA    C      87      D      93           -
LGA    D      88      T      94           -
LGA    E      89      K      95           #
LGA    L      90      T      96          3.431
LGA    M      91      -       -           -
LGA    K      92      W      97          4.666
LGA    D      93      -       -           -
LGA    T      94      -       -           -
LGA    K      95      -       -           -
LGA    T      96      -       -           -
LGA    W      97      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     68    2.81    64.71     50.377     2.341

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.345226 * X  +  -0.830337 * Y  +  -0.437446 * Z  +  22.516861
  Y_new =   0.912324 * X  +   0.406261 * Y  +  -0.051150 * Z  +  26.645845
  Z_new =   0.220189 * X  +  -0.381434 * Y  +   0.897789 * Z  +   3.382178 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.401751    2.739841  [ DEG:   -23.0187    156.9813 ]
  Theta =  -0.222009   -2.919584  [ DEG:   -12.7202   -167.2798 ]
  Phi   =   1.209045   -1.932547  [ DEG:    69.2732   -110.7268 ]
 
# 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: T0283TS599_1-D1                               
REMARK     2: T0283_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS599_1-D1.T0283_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   97   97   5.0   68   2.81   64.71  50.377
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS599_1-D1
PFRMAT TS                                                                       
TARGET T0283                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      26.121   3.715  19.630  1.00  0.00              
ATOM      2  CA  SER     2      28.746   6.143  19.928  1.00  0.00              
ATOM      3  CA  PHE     3      30.769   9.003  20.677  1.00  0.00              
ATOM      4  CA  ILE     4      27.976   6.812  18.911  1.00  0.00              
ATOM      5  CA  GLU     5      25.700   9.890  18.826  1.00  0.00              
ATOM      6  CA  LYS     6      28.490  12.014  17.316  1.00  0.00              
ATOM      7  CA  MET     7      29.162   9.328  14.661  1.00  0.00              
ATOM      8  CA  ILE     8      25.446   9.050  13.762  1.00  0.00              
ATOM      9  CA  GLY     9      25.148  12.836  13.466  1.00  0.00              
ATOM     10  CA  SER    10      28.176  12.993  11.145  1.00  0.00              
ATOM     11  CA  LEU    11      26.739  10.172   8.958  1.00  0.00              
ATOM     12  CA  ASN    12      23.205  11.496   8.433  1.00  0.00              
ATOM     13  CA  ASP    13      24.661  14.931   7.584  1.00  0.00              
ATOM     14  CA  LYS    14      27.180  13.585   5.099  1.00  0.00              
ATOM     15  CA  ARG    15      24.617  11.508   3.116  1.00  0.00              
ATOM     16  CA  GLU    16      22.201  14.376   2.754  1.00  0.00              
ATOM     17  CA  TRP    17      25.027  16.615   1.616  1.00  0.00              
ATOM     18  CA  LYS    18      26.315  14.153  -0.949  1.00  0.00              
ATOM     19  CA  ALA    19      22.970  13.726  -2.602  1.00  0.00              
ATOM     20  CA  MET    20      22.590  17.530  -2.776  1.00  0.00              
ATOM     21  CA  GLU    21      26.053  17.853  -4.296  1.00  0.00              
ATOM     22  CA  ALA    22      25.327  15.287  -7.015  1.00  0.00              
ATOM     23  CA  ARG    23      22.160  17.243  -7.931  1.00  0.00              
ATOM     24  CA  ALA    24      24.223  20.460  -8.027  1.00  0.00              
ATOM     25  CA  LYS    25      26.992  19.059 -10.197  1.00  0.00              
ATOM     26  CA  ALA    26      24.302  17.895 -12.729  1.00  0.00              
ATOM     27  CA  LEU    27      22.586  21.235 -12.832  1.00  0.00              
ATOM     28  CA  PRO    28      22.932  23.903 -15.212  1.00  0.00              
ATOM     29  CA  LYS    29      25.526  26.555 -14.656  1.00  0.00              
ATOM     30  CA  GLU    30      22.796  29.179 -14.054  1.00  0.00              
ATOM     31  CA  TYR    31      21.411  27.148 -11.213  1.00  0.00              
ATOM     32  CA  HIS    32      24.766  26.237  -9.565  1.00  0.00              
ATOM     33  CA  HIS    33      25.716  29.917  -9.274  1.00  0.00              
ATOM     34  CA  ALA    34      22.293  30.788  -7.833  1.00  0.00              
ATOM     35  CA  TYR    35      22.566  27.925  -5.330  1.00  0.00              
ATOM     36  CA  LYS    36      25.987  29.122  -4.195  1.00  0.00              
ATOM     37  CA  ALA    37      24.633  32.664  -3.760  1.00  0.00              
ATOM     38  CA  ILE    38      21.661  31.362  -1.753  1.00  0.00              
ATOM     39  CA  GLN    39      23.992  29.276   0.466  1.00  0.00              
ATOM     40  CA  LYS    40      26.102  32.317   1.261  1.00  0.00              
ATOM     41  CA  TYR    41      23.083  34.466   2.232  1.00  0.00              
ATOM     42  CA  MET    42      21.533  31.668   4.347  1.00  0.00              
ATOM     43  CA  TRP    43      24.522  30.495   6.367  1.00  0.00              
ATOM     44  CA  THR    44      23.634  27.108   7.706  1.00  0.00              
ATOM     45  CA  SER    45      25.067  26.131  11.036  1.00  0.00              
ATOM     46  CA  GLY    46      25.476  22.409  10.880  1.00  0.00              
ATOM     47  CA  GLY    47      24.330  21.578   7.429  1.00  0.00              
ATOM     48  CA  PRO    48      21.419  22.203   5.241  1.00  0.00              
ATOM     49  CA  THR    49      18.391  21.187   7.209  1.00  0.00              
ATOM     50  CA  ASP    50      16.715  18.538   5.151  1.00  0.00              
ATOM     51  CA  TRP    51      18.201  18.878   1.693  1.00  0.00              
ATOM     52  CA  GLN    52      14.806  18.697  -0.051  1.00  0.00              
ATOM     53  CA  ASP    53      13.372  21.596   1.958  1.00  0.00              
ATOM     54  CA  THR    54      16.371  23.800   1.450  1.00  0.00              
ATOM     55  CA  LYS    55      16.670  23.285  -2.304  1.00  0.00              
ATOM     56  CA  ARG    56      12.949  24.050  -2.800  1.00  0.00              
ATOM     57  CA  ILE    57      13.354  27.307  -0.833  1.00  0.00              
ATOM     58  CA  PHE    58      16.409  28.296  -2.918  1.00  0.00              
ATOM     59  CA  GLY    59      14.578  27.490  -6.108  1.00  0.00              
ATOM     60  CA  GLY    60      11.737  29.873  -5.052  1.00  0.00              
ATOM     61  CA  ILE    61      14.269  32.632  -4.240  1.00  0.00              
ATOM     62  CA  LEU    62      15.976  32.156  -7.616  1.00  0.00              
ATOM     63  CA  ASP    63      12.645  32.293  -9.434  1.00  0.00              
ATOM     64  CA  LEU    64      11.824  35.621  -7.699  1.00  0.00              
ATOM     65  CA  PHE    65      15.171  37.069  -8.656  1.00  0.00              
ATOM     66  CA  GLU    66      14.743  35.972 -12.294  1.00  0.00              
ATOM     67  CA  GLU    67      11.268  37.566 -12.457  1.00  0.00              
ATOM     68  CA  GLY    68      12.693  40.791 -10.969  1.00  0.00              
ATOM     69  CA  ALA    69      15.501  40.778 -13.542  1.00  0.00              
ATOM     70  CA  ALA    70      12.922  40.375 -16.290  1.00  0.00              
ATOM     71  CA  GLU    71      10.949  43.376 -15.003  1.00  0.00              
ATOM     72  CA  GLY    72      14.075  45.513 -14.628  1.00  0.00              
ATOM     73  CA  LYS    73      14.208  45.697 -10.889  1.00  0.00              
ATOM     74  CA  LYS    74      17.170  44.841  -8.747  1.00  0.00              
ATOM     75  CA  VAL    75      16.788  41.871  -6.342  1.00  0.00              
ATOM     76  CA  THR    76      17.123  44.088  -3.276  1.00  0.00              
ATOM     77  CA  ASP    77      14.483  46.445  -4.727  1.00  0.00              
ATOM     78  CA  LEU    78      12.037  43.586  -5.454  1.00  0.00              
ATOM     79  CA  THR    79      12.304  42.194  -1.935  1.00  0.00              
ATOM     80  CA  GLY    80      12.261  45.583  -0.176  1.00  0.00              
ATOM     81  CA  GLU    81      15.096  46.361   2.215  1.00  0.00              
ATOM     82  CA  ASP    82      13.804  44.237   5.149  1.00  0.00              
ATOM     83  CA  VAL    83      14.836  41.076   3.238  1.00  0.00              
ATOM     84  CA  ALA    84      18.461  42.241   2.872  1.00  0.00              
ATOM     85  CA  ALA    85      18.710  43.076   6.622  1.00  0.00              
ATOM     86  CA  PHE    86      17.280  39.678   7.444  1.00  0.00              
ATOM     87  CA  CYS    87      19.867  37.984   5.185  1.00  0.00              
ATOM     88  CA  ASP    88      22.701  39.942   6.864  1.00  0.00              
ATOM     89  CA  GLU    89      21.354  38.939  10.323  1.00  0.00              
ATOM     90  CA  LEU    90      21.191  35.272   9.267  1.00  0.00              
ATOM     91  CA  MET    91      24.727  35.308   8.030  1.00  0.00              
ATOM     92  CA  LYS    92      26.085  36.852  11.247  1.00  0.00              
ATOM     93  CA  ASP    93      24.200  34.414  13.508  1.00  0.00              
ATOM     94  CA  THR    94      25.340  31.327  11.548  1.00  0.00              
ATOM     95  CA  LYS    95      29.025  31.998  12.127  1.00  0.00              
ATOM     96  CA  THR    96      28.648  32.371  15.918  1.00  0.00              
ATOM     97  CA  TRP    97      26.656  29.136  16.083  1.00  0.00              
TER                                                                             
END
