
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms   97 (  768),  selected   97 , name T0283_D1.pdb
# PARAMETERS: T0283TS599_5-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          2.602
LGA    S       2      S       2          2.685
LGA    F       3      F       3          2.375
LGA    I       4      I       4          2.741
LGA    E       5      E       5          2.795
LGA    K       6      K       6          1.954
LGA    M       7      M       7          1.721
LGA    I       8      I       8          2.163
LGA    G       9      G       9          2.148
LGA    S      10      S      10          1.851
LGA    L      11      L      11          1.699
LGA    N      12      N      12          1.759
LGA    D      13      D      13          1.961
LGA    K      14      K      14          1.889
LGA    R      15      R      15          1.604
LGA    E      16      E      16          1.765
LGA    W      17      W      17          2.072
LGA    K      18      K      18          2.179
LGA    A      19      A      19          2.015
LGA    M      20      M      20          2.353
LGA    E      21      E      21          2.909
LGA    A      22      A      22          3.230
LGA    R      23      R      23          3.219
LGA    A      24      A      24          3.532
LGA    K      25      K      25          3.673
LGA    A      26      -       -           -
LGA    L      27      A      26          0.960
LGA    P      28      L      27          3.568
LGA    K      29      P      28          2.928
LGA    -       -      K      29           -
LGA    E      30      E      30          3.436
LGA    Y      31      Y      31          3.037
LGA    H      32      H      32          0.840
LGA    H      33      H      33          2.032
LGA    A      34      A      34          3.053
LGA    Y      35      Y      35          1.667
LGA    K      36      K      36          1.628
LGA    A      37      A      37          3.268
LGA    I      38      I      38          3.080
LGA    Q      39      Q      39          1.667
LGA    K      40      K      40          3.096
LGA    Y      41      Y      41          3.927
LGA    M      42      M      42          2.494
LGA    W      43      W      43          2.530
LGA    T      44      T      44          4.767
LGA    S      45      S      45          4.320
LGA    G      46      G      46           -
LGA    -       -      G      47           -
LGA    G      47      P      48           #
LGA    P      48      T      49          1.520
LGA    T      49      D      50          3.485
LGA    D      50      W      51          1.093
LGA    W      51      -       -           -
LGA    Q      52      Q      52          3.716
LGA    D      53      D      53          2.940
LGA    T      54      T      54          2.175
LGA    K      55      K      55          2.471
LGA    R      56      R      56          2.466
LGA    I      57      I      57          1.743
LGA    F      58      F      58          1.706
LGA    G      59      G      59          2.070
LGA    G      60      G      60          1.314
LGA    I      61      I      61          1.308
LGA    L      62      L      62          2.055
LGA    D      63      D      63          2.156
LGA    L      64      L      64          2.044
LGA    F      65      F      65          2.505
LGA    E      66      E      66          3.425
LGA    E      67      E      67          3.743
LGA    G      68      G      68          3.621
LGA    -       -      A      69           -
LGA    A      69      A      70          5.303
LGA    A      70      E      71          2.671
LGA    E      71      G      72           #
LGA    G      72      -       -           -
LGA    K      73      K      73          3.722
LGA    K      74      K      74          0.878
LGA    V      75      V      75          0.403
LGA    T      76      T      76          2.564
LGA    D      77      D      77          3.389
LGA    L      78      L      78          1.985
LGA    T      79      T      79          1.386
LGA    G      80      G      80          3.010
LGA    -       -      E      81           -
LGA    E      81      D      82          2.174
LGA    -       -      V      83           -
LGA    -       -      A      84           -
LGA    D      82      A      85          2.348
LGA    V      83      F      86          1.233
LGA    A      84      C      87          4.408
LGA    A      85      D      88          4.341
LGA    -       -      E      89           -
LGA    F      86      L      90           #
LGA    C      87      M      91           #
LGA    D      88      -       -           -
LGA    E      89      -       -           -
LGA    L      90      K      92           #
LGA    M      91      D      93           -
LGA    K      92      T      94           -
LGA    -       -      K      95           -
LGA    D      93      T      96          4.092
LGA    T      94      W      97          0.692
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     81    2.70    82.72     57.187     2.896

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.594609 * X  +   0.790500 * Y  +   0.146800 * Z  +  22.662481
  Y_new =   0.299576 * X  +  -0.048391 * Y  +  -0.952844 * Z  +  26.182802
  Z_new =  -0.746120 * X  +   0.610547 * Y  +  -0.265588 * Z  +   4.130041 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.981107   -1.160486  [ DEG:   113.5091    -66.4909 ]
  Theta =   0.842215    2.299377  [ DEG:    48.2554    131.7446 ]
  Phi   =   0.466700   -2.674893  [ DEG:    26.7399   -153.2601 ]
 
# 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_5-D1                               
REMARK     2: T0283_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS599_5-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   81   2.70   82.72  57.187
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS599_5-D1
PFRMAT TS                                                                       
TARGET T0283                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      26.280   4.620  20.262  1.00  0.00              
ATOM      2  CA  SER     2      28.321   7.487  20.997  1.00  0.00              
ATOM      3  CA  PHE     3      29.480  10.744  21.971  1.00  0.00              
ATOM      4  CA  ILE     4      27.478   7.863  19.743  1.00  0.00              
ATOM      5  CA  GLU     5      24.877  10.513  18.881  1.00  0.00              
ATOM      6  CA  LYS     6      27.605  12.981  17.870  1.00  0.00              
ATOM      7  CA  MET     7      29.341  10.463  15.620  1.00  0.00              
ATOM      8  CA  ILE     8      26.018   9.567  13.967  1.00  0.00              
ATOM      9  CA  GLY     9      25.251  13.286  13.407  1.00  0.00              
ATOM     10  CA  SER    10      28.661  13.932  11.758  1.00  0.00              
ATOM     11  CA  LEU    11      28.149  10.915   9.446  1.00  0.00              
ATOM     12  CA  ASN    12      24.643  12.031   8.443  1.00  0.00              
ATOM     13  CA  ASP    13      25.908  15.534   7.641  1.00  0.00              
ATOM     14  CA  LYS    14      28.764  14.136   5.505  1.00  0.00              
ATOM     15  CA  ARG    15      26.391  11.822   3.552  1.00  0.00              
ATOM     16  CA  GLU    16      23.876  14.609   2.892  1.00  0.00              
ATOM     17  CA  TRP    17      26.654  16.944   1.654  1.00  0.00              
ATOM     18  CA  LYS    18      27.921  14.175  -0.645  1.00  0.00              
ATOM     19  CA  ALA    19      24.368  13.703  -2.025  1.00  0.00              
ATOM     20  CA  MET    20      24.009  17.429  -2.656  1.00  0.00              
ATOM     21  CA  GLU    21      27.409  17.471  -4.462  1.00  0.00              
ATOM     22  CA  ALA    22      26.353  14.526  -6.633  1.00  0.00              
ATOM     23  CA  ARG    23      23.058  16.253  -7.494  1.00  0.00              
ATOM     24  CA  ALA    24      24.979  19.454  -8.317  1.00  0.00              
ATOM     25  CA  LYS    25      27.491  17.781 -10.559  1.00  0.00              
ATOM     26  CA  ALA    26      24.746  16.062 -12.556  1.00  0.00              
ATOM     27  CA  LEU    27      22.708  19.180 -12.943  1.00  0.00              
ATOM     28  CA  PRO    28      22.686  21.539 -15.704  1.00  0.00              
ATOM     29  CA  LYS    29      24.546  24.773 -15.538  1.00  0.00              
ATOM     30  CA  GLU    30      21.438  26.983 -15.145  1.00  0.00              
ATOM     31  CA  TYR    31      20.584  25.091 -11.984  1.00  0.00              
ATOM     32  CA  HIS    32      24.141  25.244 -10.679  1.00  0.00              
ATOM     33  CA  HIS    33      24.251  29.012 -10.814  1.00  0.00              
ATOM     34  CA  ALA    34      20.974  29.245  -8.922  1.00  0.00              
ATOM     35  CA  TYR    35      22.209  26.870  -6.237  1.00  0.00              
ATOM     36  CA  LYS    36      25.382  28.861  -5.754  1.00  0.00              
ATOM     37  CA  ALA    37      23.371  32.075  -5.190  1.00  0.00              
ATOM     38  CA  ILE    38      21.171  30.244  -2.669  1.00  0.00              
ATOM     39  CA  GLN    39      24.164  28.854  -0.745  1.00  0.00              
ATOM     40  CA  LYS    40      25.696  32.348  -0.588  1.00  0.00              
ATOM     41  CA  TYR    41      22.374  33.685   0.688  1.00  0.00              
ATOM     42  CA  MET    42      22.262  31.157   3.519  1.00  0.00              
ATOM     43  CA  TRP    43      25.701  31.788   5.024  1.00  0.00              
ATOM     44  CA  THR    44      26.513  29.833   8.126  1.00  0.00              
ATOM     45  CA  SER    45      28.745  31.739  10.578  1.00  0.00              
ATOM     46  CA  GLY    46      29.540  28.872  12.928  1.00  0.00              
ATOM     47  CA  GLY    47      26.081  27.510  13.483  1.00  0.00              
ATOM     48  CA  PRO    48      23.159  26.474  11.402  1.00  0.00              
ATOM     49  CA  THR    49      24.412  23.526   9.482  1.00  0.00              
ATOM     50  CA  ASP    50      22.088  20.751  10.735  1.00  0.00              
ATOM     51  CA  TRP    51      21.939  18.479   7.666  1.00  0.00              
ATOM     52  CA  GLN    52      18.149  18.036   7.739  1.00  0.00              
ATOM     53  CA  ASP    53      17.481  21.777   7.987  1.00  0.00              
ATOM     54  CA  THR    54      19.902  22.613   5.143  1.00  0.00              
ATOM     55  CA  LYS    55      18.417  20.027   2.776  1.00  0.00              
ATOM     56  CA  ARG    56      14.841  21.197   3.361  1.00  0.00              
ATOM     57  CA  ILE    57      15.852  24.825   2.717  1.00  0.00              
ATOM     58  CA  PHE    58      17.724  23.937  -0.464  1.00  0.00              
ATOM     59  CA  GLY    59      14.854  21.878  -1.721  1.00  0.00              
ATOM     60  CA  GLY    60      12.367  24.719  -1.178  1.00  0.00              
ATOM     61  CA  ILE    61      14.672  27.165  -2.987  1.00  0.00              
ATOM     62  CA  LEU    62      15.053  24.702  -5.897  1.00  0.00              
ATOM     63  CA  ASP    63      11.278  24.264  -6.148  1.00  0.00              
ATOM     64  CA  LEU    64      10.918  28.060  -6.413  1.00  0.00              
ATOM     65  CA  PHE    65      13.551  28.135  -9.127  1.00  0.00              
ATOM     66  CA  GLU    66      11.766  25.317 -11.062  1.00  0.00              
ATOM     67  CA  GLU    67       8.524  27.321 -10.902  1.00  0.00              
ATOM     68  CA  GLY    68      10.319  30.463 -12.132  1.00  0.00              
ATOM     69  CA  ALA    69      11.820  28.404 -15.024  1.00  0.00              
ATOM     70  CA  ALA    70       8.241  27.321 -15.873  1.00  0.00              
ATOM     71  CA  GLU    71       7.011  30.939 -15.809  1.00  0.00              
ATOM     72  CA  GLY    72       9.772  32.194 -18.015  1.00  0.00              
ATOM     73  CA  LYS    73      11.793  34.116 -15.498  1.00  0.00              
ATOM     74  CA  LYS    74      15.547  33.612 -15.236  1.00  0.00              
ATOM     75  CA  VAL    75      16.771  32.281 -11.917  1.00  0.00              
ATOM     76  CA  THR    76      18.642  35.410 -10.870  1.00  0.00              
ATOM     77  CA  ASP    77      15.478  37.444 -11.695  1.00  0.00              
ATOM     78  CA  LEU    78      13.223  35.265  -9.580  1.00  0.00              
ATOM     79  CA  THR    79      15.522  35.422  -6.538  1.00  0.00              
ATOM     80  CA  GLY    80      16.573  39.031  -6.592  1.00  0.00              
ATOM     81  CA  GLU    81      16.539  41.519  -3.796  1.00  0.00              
ATOM     82  CA  ASP    82      14.075  40.244  -1.166  1.00  0.00              
ATOM     83  CA  VAL    83      15.996  36.969  -0.854  1.00  0.00              
ATOM     84  CA  ALA    84      19.274  38.859  -0.650  1.00  0.00              
ATOM     85  CA  ALA    85      18.118  41.017   2.247  1.00  0.00              
ATOM     86  CA  PHE    86      16.951  37.879   4.087  1.00  0.00              
ATOM     87  CA  CYS    87      20.316  36.180   3.502  1.00  0.00              
ATOM     88  CA  ASP    88      22.222  39.231   4.809  1.00  0.00              
ATOM     89  CA  GLU    89      20.005  39.171   7.914  1.00  0.00              
ATOM     90  CA  LEU    90      20.584  35.464   8.520  1.00  0.00              
ATOM     91  CA  MET    91      24.374  35.766   8.167  1.00  0.00              
ATOM     92  CA  LYS    92      24.480  38.634  10.624  1.00  0.00              
ATOM     93  CA  ASP    93      22.328  36.704  13.143  1.00  0.00              
ATOM     94  CA  THR    94      24.521  33.592  12.944  1.00  0.00              
ATOM     95  CA  LYS    95      27.675  35.562  13.854  1.00  0.00              
ATOM     96  CA  THR    96      26.130  36.950  17.052  1.00  0.00              
ATOM     97  CA  TRP    97      25.041  33.428  18.133  1.00  0.00              
TER                                                                             
END
