
#######################################################
#                                                     #
#                        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_2-D1
# Molecule2: number of CA atoms   97 (  768),  selected   97 , name T0283_D1.pdb
# PARAMETERS: T0283TS599_2-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          4.158
LGA    S       2      S       2          3.638
LGA    F       3      F       3          1.594
LGA    I       4      I       4          2.449
LGA    E       5      E       5          2.262
LGA    K       6      K       6          1.269
LGA    M       7      M       7          1.672
LGA    I       8      I       8          2.234
LGA    G       9      G       9          1.526
LGA    S      10      S      10          1.049
LGA    L      11      L      11          1.502
LGA    N      12      N      12          1.150
LGA    D      13      D      13          0.463
LGA    K      14      K      14          0.748
LGA    R      15      R      15          0.426
LGA    E      16      E      16          0.289
LGA    W      17      W      17          0.526
LGA    K      18      K      18          1.119
LGA    A      19      A      19          1.364
LGA    M      20      M      20          1.381
LGA    E      21      E      21          1.636
LGA    A      22      A      22          2.540
LGA    R      23      R      23          2.846
LGA    A      24      A      24          2.633
LGA    K      25      K      25          3.235
LGA    A      26      A      26          3.976
LGA    L      27      L      27          3.272
LGA    P      28      P      28          2.549
LGA    K      29      K      29          1.053
LGA    E      30      E      30          1.226
LGA    Y      31      Y      31          1.257
LGA    H      32      H      32          0.838
LGA    H      33      H      33          1.878
LGA    A      34      A      34          2.168
LGA    Y      35      Y      35          1.313
LGA    K      36      K      36          2.440
LGA    A      37      A      37          3.850
LGA    I      38      I      38          3.812
LGA    Q      39      Q      39          3.256
LGA    -       -      K      40           -
LGA    K      40      Y      41          2.727
LGA    Y      41      M      42          5.163
LGA    -       -      W      43           -
LGA    -       -      T      44           -
LGA    -       -      S      45           -
LGA    M      42      G      46           #
LGA    W      43      G      47          2.403
LGA    T      44      P      48          3.464
LGA    S      45      T      49          2.777
LGA    G      46      D      50          3.450
LGA    G      47      W      51          3.582
LGA    -       -      Q      52           -
LGA    -       -      D      53           -
LGA    -       -      T      54           -
LGA    P      48      K      55          2.341
LGA    T      49      R      56          3.397
LGA    D      50      I      57           -
LGA    W      51      -       -           -
LGA    Q      52      -       -           -
LGA    D      53      F      58           #
LGA    T      54      G      59          1.118
LGA    -       -      G      60           -
LGA    K      55      I      61          4.474
LGA    R      56      L      62          4.140
LGA    I      57      D      63          4.220
LGA    F      58      L      64          3.987
LGA    G      59      -       -           -
LGA    G      60      F      65          5.255
LGA    I      61      E      66           -
LGA    L      62      E      67           -
LGA    D      63      G      68          3.466
LGA    L      64      A      69           -
LGA    -       -      A      70           -
LGA    -       -      E      71           -
LGA    -       -      G      72           -
LGA    -       -      K      73           -
LGA    -       -      K      74           -
LGA    -       -      V      75           -
LGA    F      65      T      76          2.727
LGA    E      66      D      77          2.611
LGA    E      67      L      78           #
LGA    G      68      T      79           -
LGA    A      69      -       -           -
LGA    A      70      -       -           -
LGA    E      71      -       -           -
LGA    G      72      -       -           -
LGA    K      73      -       -           -
LGA    K      74      G      80           #
LGA    V      75      E      81          3.131
LGA    T      76      D      82          3.676
LGA    D      77      V      83           -
LGA    L      78      -       -           -
LGA    T      79      -       -           -
LGA    G      80      -       -           -
LGA    E      81      -       -           -
LGA    D      82      -       -           -
LGA    V      83      A      84           #
LGA    A      84      A      85          1.530
LGA    A      85      -       -           -
LGA    F      86      F      86           #
LGA    C      87      C      87          3.024
LGA    D      88      D      88          4.602
LGA    -       -      E      89           -
LGA    -       -      L      90           -
LGA    -       -      M      91           -
LGA    E      89      K      92          4.942
LGA    L      90      D      93           #
LGA    M      91      T      94           -
LGA    K      92      -       -           -
LGA    D      93      K      95          3.111
LGA    T      94      T      96          2.460
LGA    K      95      W      97          1.103
LGA    T      96      -       -           -
LGA    W      97      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     66    2.81    65.15     47.830     2.271

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.897201 * X  +  -0.212496 * Y  +  -0.387137 * Z  +  20.723509
  Y_new =  -0.318761 * X  +  -0.918324 * Y  +  -0.234677 * Z  +  26.359951
  Z_new =  -0.305649 * X  +   0.333957 * Y  +  -0.891656 * Z  +   2.541741 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.783229   -0.358363  [ DEG:   159.4673    -20.5327 ]
  Theta =   0.310620    2.830972  [ DEG:    17.7972    162.2028 ]
  Phi   =  -0.341374    2.800219  [ DEG:   -19.5593    160.4407 ]
 
# 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_2-D1                               
REMARK     2: T0283_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS599_2-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   66   2.81   65.15  47.830
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS599_2-D1
PFRMAT TS                                                                       
TARGET T0283                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      25.460   3.471  19.302  1.00  0.00              
ATOM      2  CA  SER     2      27.506   6.326  20.052  1.00  0.00              
ATOM      3  CA  PHE     3      28.823   9.479  21.155  1.00  0.00              
ATOM      4  CA  ILE     4      26.762   6.823  18.902  1.00  0.00              
ATOM      5  CA  GLU     5      24.030   9.494  18.546  1.00  0.00              
ATOM      6  CA  LYS     6      26.592  12.090  17.549  1.00  0.00              
ATOM      7  CA  MET     7      28.109   9.731  14.943  1.00  0.00              
ATOM      8  CA  ILE     8      24.688   8.884  13.482  1.00  0.00              
ATOM      9  CA  GLY     9      23.800  12.564  13.226  1.00  0.00              
ATOM     10  CA  SER    10      27.062  13.385  11.477  1.00  0.00              
ATOM     11  CA  LEU    11      26.533  10.558   8.976  1.00  0.00              
ATOM     12  CA  ASN    12      22.968  11.323   7.894  1.00  0.00              
ATOM     13  CA  ASP    13      23.973  14.969   7.421  1.00  0.00              
ATOM     14  CA  LYS    14      27.039  14.137   5.336  1.00  0.00              
ATOM     15  CA  ARG    15      25.169  11.865   2.915  1.00  0.00              
ATOM     16  CA  GLU    16      22.450  14.368   2.251  1.00  0.00              
ATOM     17  CA  TRP    17      25.065  17.072   1.691  1.00  0.00              
ATOM     18  CA  LYS    18      27.067  14.927  -0.765  1.00  0.00              
ATOM     19  CA  ALA    19      23.976  14.110  -2.825  1.00  0.00              
ATOM     20  CA  MET    20      23.040  17.828  -2.987  1.00  0.00              
ATOM     21  CA  GLU    21      26.601  18.670  -4.059  1.00  0.00              
ATOM     22  CA  ALA    22      26.493  16.076  -6.819  1.00  0.00              
ATOM     23  CA  ARG    23      23.267  17.660  -8.142  1.00  0.00              
ATOM     24  CA  ALA    24      24.853  21.103  -7.988  1.00  0.00              
ATOM     25  CA  LYS    25      28.005  20.063  -9.831  1.00  0.00              
ATOM     26  CA  ALA    26      25.926  18.409 -12.598  1.00  0.00              
ATOM     27  CA  LEU    27      23.726  21.420 -13.088  1.00  0.00              
ATOM     28  CA  PRO    28      24.055  23.743 -15.881  1.00  0.00              
ATOM     29  CA  LYS    29      25.854  26.974 -15.215  1.00  0.00              
ATOM     30  CA  GLU    30      22.647  29.054 -15.120  1.00  0.00              
ATOM     31  CA  TYR    31      21.285  26.960 -12.316  1.00  0.00              
ATOM     32  CA  HIS    32      24.565  26.747 -10.335  1.00  0.00              
ATOM     33  CA  HIS    33      24.865  30.531 -10.057  1.00  0.00              
ATOM     34  CA  ALA    34      21.273  30.793  -8.863  1.00  0.00              
ATOM     35  CA  TYR    35      21.873  28.001  -6.337  1.00  0.00              
ATOM     36  CA  LYS    36      24.873  29.807  -4.921  1.00  0.00              
ATOM     37  CA  ALA    37      22.888  33.045  -4.556  1.00  0.00              
ATOM     38  CA  ILE    38      20.055  31.178  -2.859  1.00  0.00              
ATOM     39  CA  GLN    39      22.516  29.506  -0.440  1.00  0.00              
ATOM     40  CA  LYS    40      24.030  32.856   0.455  1.00  0.00              
ATOM     41  CA  TYR    41      20.641  34.390   1.330  1.00  0.00              
ATOM     42  CA  MET    42      19.560  31.251   3.252  1.00  0.00              
ATOM     43  CA  TRP    43      22.632  30.729   5.468  1.00  0.00              
ATOM     44  CA  THR    44      22.521  27.160   6.610  1.00  0.00              
ATOM     45  CA  SER    45      23.944  26.441  10.003  1.00  0.00              
ATOM     46  CA  GLY    46      24.625  22.776   9.969  1.00  0.00              
ATOM     47  CA  GLY    47      23.575  21.686   6.604  1.00  0.00              
ATOM     48  CA  PRO    48      20.716  22.083   4.263  1.00  0.00              
ATOM     49  CA  THR    49      17.653  21.050   6.152  1.00  0.00              
ATOM     50  CA  ASP    50      16.302  18.095   4.219  1.00  0.00              
ATOM     51  CA  TRP    51      18.070  18.430   0.829  1.00  0.00              
ATOM     52  CA  GLN    52      14.861  17.818  -1.065  1.00  0.00              
ATOM     53  CA  ASP    53      13.043  20.675   0.707  1.00  0.00              
ATOM     54  CA  THR    54      15.874  23.149   0.074  1.00  0.00              
ATOM     55  CA  LYS    55      16.161  22.344  -3.573  1.00  0.00              
ATOM     56  CA  ARG    56      12.429  22.743  -4.234  1.00  0.00              
ATOM     57  CA  ILE    57      12.414  26.124  -2.488  1.00  0.00              
ATOM     58  CA  PHE    58      15.453  27.290  -4.445  1.00  0.00              
ATOM     59  CA  GLY    59      13.837  26.165  -7.687  1.00  0.00              
ATOM     60  CA  GLY    60      10.714  28.215  -6.895  1.00  0.00              
ATOM     61  CA  ILE    61      12.863  31.314  -6.146  1.00  0.00              
ATOM     62  CA  LEU    62      14.808  30.801  -9.379  1.00  0.00              
ATOM     63  CA  ASP    63      11.537  30.501 -11.364  1.00  0.00              
ATOM     64  CA  LEU    64      10.397  33.816  -9.955  1.00  0.00              
ATOM     65  CA  PHE    65      13.706  35.370 -10.958  1.00  0.00              
ATOM     66  CA  GLU    66      13.460  33.983 -14.481  1.00  0.00              
ATOM     67  CA  GLU    67       9.967  35.468 -14.857  1.00  0.00              
ATOM     68  CA  GLY    68      11.230  38.852 -13.583  1.00  0.00              
ATOM     69  CA  ALA    69      14.115  38.672 -16.119  1.00  0.00              
ATOM     70  CA  ALA    70      11.590  37.907 -18.847  1.00  0.00              
ATOM     71  CA  GLU    71       9.516  40.962 -17.886  1.00  0.00              
ATOM     72  CA  GLY    72      12.589  43.209 -17.707  1.00  0.00              
ATOM     73  CA  LYS    73      12.741  43.767 -14.091  1.00  0.00              
ATOM     74  CA  LYS    74      15.361  42.958 -11.551  1.00  0.00              
ATOM     75  CA  VAL    75      14.276  40.703  -8.644  1.00  0.00              
ATOM     76  CA  THR    76      14.576  43.380  -5.988  1.00  0.00              
ATOM     77  CA  ASP    77      12.499  45.792  -8.080  1.00  0.00              
ATOM     78  CA  LEU    78       9.675  43.330  -8.795  1.00  0.00              
ATOM     79  CA  THR    79       9.289  42.343  -5.151  1.00  0.00              
ATOM     80  CA  GLY    80       9.615  45.694  -3.247  1.00  0.00              
ATOM     81  CA  GLU    81      12.428  45.037  -0.715  1.00  0.00              
ATOM     82  CA  ASP    82      11.018  41.733   0.579  1.00  0.00              
ATOM     83  CA  VAL    83      13.724  39.406  -0.808  1.00  0.00              
ATOM     84  CA  ALA    84      16.650  41.469   0.526  1.00  0.00              
ATOM     85  CA  ALA    85      15.130  41.739   3.960  1.00  0.00              
ATOM     86  CA  PHE    86      14.503  38.015   4.048  1.00  0.00              
ATOM     87  CA  CYS    87      18.107  37.252   3.014  1.00  0.00              
ATOM     88  CA  ASP    88      19.460  39.566   5.731  1.00  0.00              
ATOM     89  CA  GLU    89      17.202  37.895   8.317  1.00  0.00              
ATOM     90  CA  LEU    90      18.225  34.417   7.320  1.00  0.00              
ATOM     91  CA  MET    91      21.900  35.150   7.471  1.00  0.00              
ATOM     92  CA  LYS    92      21.642  36.696  10.900  1.00  0.00              
ATOM     93  CA  ASP    93      19.579  33.787  12.350  1.00  0.00              
ATOM     94  CA  THR    94      22.008  31.210  10.941  1.00  0.00              
ATOM     95  CA  LYS    95      25.032  32.478  12.898  1.00  0.00              
ATOM     96  CA  THR    96      23.112  32.264  16.170  1.00  0.00              
ATOM     97  CA  TRP    97      22.036  28.734  15.292  1.00  0.00              
TER                                                                             
END
