
#######################################################
#                                                     #
#                        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 T0283TS168_5-D1
# Molecule2: number of CA atoms   97 (  768),  selected   97 , name T0283_D1.pdb
# PARAMETERS: T0283TS168_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           #
LGA    S       2      S       2          1.778
LGA    F       3      -       -           -
LGA    I       4      -       -           -
LGA    E       5      -       -           -
LGA    K       6      F       3           #
LGA    M       7      I       4          3.383
LGA    I       8      E       5          2.393
LGA    G       9      K       6          4.557
LGA    S      10      M       7          4.239
LGA    L      11      I       8          2.327
LGA    N      12      G       9          2.282
LGA    D      13      S      10          2.763
LGA    K      14      L      11          4.439
LGA    R      15      N      12          4.323
LGA    E      16      D      13          2.269
LGA    W      17      K      14          3.635
LGA    K      18      R      15           #
LGA    A      19      E      16           #
LGA    M      20      W      17          3.489
LGA    E      21      -       -           -
LGA    A      22      -       -           -
LGA    R      23      -       -           -
LGA    A      24      -       -           -
LGA    K      25      -       -           -
LGA    A      26      -       -           -
LGA    L      27      -       -           -
LGA    P      28      K      18          4.560
LGA    K      29      A      19          2.159
LGA    E      30      M      20          1.919
LGA    Y      31      E      21          1.853
LGA    H      32      A      22          1.128
LGA    H      33      R      23          1.746
LGA    A      34      A      24          3.320
LGA    Y      35      K      25          3.154
LGA    K      36      A      26          1.046
LGA    A      37      -       -           -
LGA    I      38      L      27          2.845
LGA    Q      39      P      28          2.495
LGA    K      40      -       -           -
LGA    Y      41      -       -           -
LGA    M      42      -       -           -
LGA    W      43      -       -           -
LGA    T      44      -       -           -
LGA    S      45      -       -           -
LGA    G      46      -       -           -
LGA    G      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    D      50      -       -           -
LGA    W      51      K      29          1.558
LGA    Q      52      E      30          1.463
LGA    D      53      Y      31          0.633
LGA    T      54      H      32          0.905
LGA    K      55      H      33          1.193
LGA    R      56      A      34          1.266
LGA    I      57      Y      35          1.012
LGA    F      58      K      36          0.646
LGA    G      59      A      37          1.624
LGA    G      60      I      38          2.248
LGA    I      61      Q      39          2.009
LGA    L      62      K      40          1.777
LGA    D      63      Y      41          2.825
LGA    L      64      M      42          3.376
LGA    F      65      W      43          2.715
LGA    E      66      T      44          2.428
LGA    E      67      S      45          3.824
LGA    -       -      G      46           -
LGA    -       -      G      47           -
LGA    -       -      P      48           -
LGA    G      68      T      49          5.324
LGA    A      69      D      50           -
LGA    A      70      W      51           -
LGA    E      71      Q      52           -
LGA    G      72      D      53           -
LGA    K      73      T      54           -
LGA    K      74      K      55           -
LGA    V      75      R      56           -
LGA    T      76      I      57           #
LGA    D      77      F      58           -
LGA    -       -      G      59           -
LGA    -       -      G      60           -
LGA    -       -      I      61           -
LGA    -       -      L      62           -
LGA    -       -      D      63           -
LGA    -       -      L      64           -
LGA    -       -      F      65           -
LGA    -       -      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    -       -      V      75           -
LGA    -       -      T      76           -
LGA    -       -      D      77           -
LGA    -       -      L      78           -
LGA    -       -      T      79           -
LGA    -       -      G      80           -
LGA    -       -      E      81           -
LGA    L      78      D      82           #
LGA    T      79      V      83          2.357
LGA    G      80      A      84           -
LGA    E      81      A      85           -
LGA    D      82      -       -           -
LGA    V      83      -       -           -
LGA    A      84      F      86          2.468
LGA    A      85      C      87           #
LGA    F      86      D      88           -
LGA    C      87      E      89           #
LGA    D      88      L      90          4.342
LGA    E      89      -       -           -
LGA    L      90      -       -           -
LGA    M      91      M      91           #
LGA    K      92      K      92           -
LGA    D      93      D      93           -
LGA    T      94      T      94           -
LGA    K      95      K      95           -
LGA    T      96      T      96           -
LGA    W      97      W      97           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     45    2.79     4.44     33.015     1.556

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.899449 * X  +  -0.251049 * Y  +   0.357722 * Z  +  19.849558
  Y_new =   0.314373 * X  +   0.196919 * Y  +   0.928651 * Z  +  22.343979
  Z_new =  -0.303579 * X  +   0.947733 * Y  +  -0.098196 * Z  +   0.821730 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.674039   -1.467554  [ DEG:    95.9154    -84.0846 ]
  Theta =   0.308447    2.833146  [ DEG:    17.6727    162.3273 ]
  Phi   =   2.805348   -0.336244  [ DEG:   160.7346    -19.2654 ]
 
# 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: T0283TS168_5-D1                               
REMARK     2: T0283_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS168_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   45   2.79    4.44  33.015
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS168_5-D1
PFRMAT TS
TARGET T0283
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      30.371  11.734  24.841  1.00 25.00           C
ATOM      2  CA  SER     2      27.247  10.268  23.183  1.00 25.00           C
ATOM      3  CA  PHE     3      24.433   7.811  23.873  1.00 25.00           C
ATOM      4  CA  ILE     4      24.352   5.395  20.903  1.00 25.00           C
ATOM      5  CA  GLU     5      21.489   7.392  19.326  1.00 25.00           C
ATOM      6  CA  LYS     6      23.461  10.640  19.800  1.00 25.00           C
ATOM      7  CA  MET     7      26.535   9.040  18.169  1.00 25.00           C
ATOM      8  CA  ILE     8      24.392   7.873  15.217  1.00 25.00           C
ATOM      9  CA  GLY     9      22.958  11.404  14.830  1.00 25.00           C
ATOM     10  CA  SER    10      26.496  12.871  14.872  1.00 25.00           C
ATOM     11  CA  LEU    11      27.597  10.357  12.201  1.00 25.00           C
ATOM     12  CA  ASN    12      24.574  11.289  10.043  1.00 25.00           C
ATOM     13  CA  ASP    13      25.420  15.005  10.419  1.00 25.00           C
ATOM     14  CA  LYS    14      29.046  14.309   9.403  1.00 25.00           C
ATOM     15  CA  ARG    15      27.837  12.360   6.335  1.00 25.00           C
ATOM     16  CA  GLU    16      25.528  15.259   5.373  1.00 25.00           C
ATOM     17  CA  TRP    17      28.435  17.726   5.731  1.00 25.00           C
ATOM     18  CA  LYS    18      30.631  15.496   3.525  1.00 25.00           C
ATOM     19  CA  ALA    19      27.858  15.329   0.889  1.00 25.00           C
ATOM     20  CA  MET    20      27.521  19.144   0.966  1.00 25.00           C
ATOM     21  CA  GLU    21      31.307  19.512   0.532  1.00 25.00           C
ATOM     22  CA  ALA    22      31.226  17.096  -2.439  1.00 25.00           C
ATOM     23  CA  ARG    23      28.364  19.092  -4.015  1.00 25.00           C
ATOM     24  CA  ALA    24      30.336  22.341  -3.541  1.00 25.00           C
ATOM     25  CA  LYS    25      33.410  20.742  -5.173  1.00 25.00           C
ATOM     26  CA  ALA    26      31.267  19.575  -8.124  1.00 25.00           C
ATOM     27  CA  LEU    27      29.037  16.455  -8.328  1.00 25.00           C
ATOM     28  CA  PRO    28      27.948  14.296  -5.372  1.00 25.00           C
ATOM     29  CA  LYS    29      24.767  14.341  -3.293  1.00 25.00           C
ATOM     30  CA  GLU    30      21.603  16.355  -2.524  1.00 25.00           C
ATOM     31  CA  TYR    31      23.330  19.565  -3.696  1.00 25.00           C
ATOM     32  CA  HIS    32      24.414  17.827  -6.933  1.00 25.00           C
ATOM     33  CA  HIS    33      20.828  16.614  -7.511  1.00 25.00           C
ATOM     34  CA  ALA    34      19.509  20.164  -6.949  1.00 25.00           C
ATOM     35  CA  TYR    35      22.072  21.538  -9.441  1.00 25.00           C
ATOM     36  CA  LYS    36      21.020  18.902 -12.012  1.00 25.00           C
ATOM     37  CA  ALA    37      17.341  19.837 -11.501  1.00 25.00           C
ATOM     38  CA  ILE    38      18.190  23.541 -11.983  1.00 25.00           C
ATOM     39  CA  GLN    39      20.093  22.712 -15.201  1.00 25.00           C
ATOM     40  CA  LYS    40      17.103  20.689 -16.477  1.00 25.00           C
ATOM     41  CA  TYR    41      14.757  23.612 -15.691  1.00 25.00           C
ATOM     42  CA  MET    42      17.082  26.013 -17.562  1.00 25.00           C
ATOM     43  CA  TRP    43      17.138  23.648 -20.574  1.00 25.00           C
ATOM     44  CA  THR    44      13.313  23.461 -20.531  1.00 25.00           C
ATOM     45  CA  SER    45      10.745  24.887 -18.189  1.00 25.00           C
ATOM     46  CA  GLY    46      12.390  28.093 -17.092  1.00 25.00           C
ATOM     47  CA  GLY    47      14.651  30.208 -19.306  1.00 25.00           C
ATOM     48  CA  PRO    48      16.541  31.007 -16.100  1.00 25.00           C
ATOM     49  CA  THR    49      20.085  31.185 -17.332  1.00 25.00           C
ATOM     50  CA  ASP    50      23.175  29.070 -18.210  1.00 25.00           C
ATOM     51  CA  TRP    51      25.240  28.008 -15.163  1.00 25.00           C
ATOM     52  CA  GLN    52      23.392  30.881 -13.431  1.00 25.00           C
ATOM     53  CA  ASP    53      21.493  28.375 -11.245  1.00 25.00           C
ATOM     54  CA  THR    54      24.786  26.655 -10.315  1.00 25.00           C
ATOM     55  CA  LYS    55      26.327  30.041  -9.404  1.00 25.00           C
ATOM     56  CA  ARG    56      23.285  30.868  -7.229  1.00 25.00           C
ATOM     57  CA  ILE    57      23.586  27.476  -5.475  1.00 25.00           C
ATOM     58  CA  PHE    58      27.310  28.110  -4.839  1.00 25.00           C
ATOM     59  CA  GLY    59      26.500  31.563  -3.393  1.00 25.00           C
ATOM     60  CA  GLY    60      23.844  30.012  -1.112  1.00 25.00           C
ATOM     61  CA  ILE    61      26.361  27.380   0.072  1.00 25.00           C
ATOM     62  CA  LEU    62      28.929  30.127   0.799  1.00 25.00           C
ATOM     63  CA  ASP    63      26.306  32.087   2.785  1.00 25.00           C
ATOM     64  CA  LEU    64      25.435  28.941   4.787  1.00 25.00           C
ATOM     65  CA  PHE    65      29.147  28.355   5.527  1.00 25.00           C
ATOM     66  CA  GLU    66      29.514  31.987   6.688  1.00 25.00           C
ATOM     67  CA  GLU    67      26.461  31.594   8.966  1.00 25.00           C
ATOM     68  CA  GLY    68      27.940  28.381  10.434  1.00 25.00           C
ATOM     69  CA  ALA    69      31.265  30.172  11.067  1.00 25.00           C
ATOM     70  CA  ALA    70      29.417  33.045  12.798  1.00 25.00           C
ATOM     71  CA  GLU    71      28.752  36.136  10.607  1.00 25.00           C
ATOM     72  CA  GLY    72      27.175  37.988   7.719  1.00 25.00           C
ATOM     73  CA  LYS    73      27.097  38.487   3.893  1.00 25.00           C
ATOM     74  CA  LYS    74      25.875  37.032   0.560  1.00 25.00           C
ATOM     75  CA  VAL    75      22.526  35.815   1.725  1.00 25.00           C
ATOM     76  CA  THR    76      19.181  35.459   3.555  1.00 25.00           C
ATOM     77  CA  ASP    77      17.911  38.677   1.910  1.00 25.00           C
ATOM     78  CA  LEU    78      18.985  37.372  -1.527  1.00 25.00           C
ATOM     79  CA  THR    79      17.645  40.020  -3.975  1.00 25.00           C
ATOM     80  CA  GLY    80      17.326  39.840  -7.760  1.00 25.00           C
ATOM     81  CA  GLU    81      13.557  39.648  -7.111  1.00 25.00           C
ATOM     82  CA  ASP    82      13.363  36.363  -9.071  1.00 25.00           C
ATOM     83  CA  VAL    83      16.283  34.948  -7.037  1.00 25.00           C
ATOM     84  CA  ALA    84      14.547  35.976  -3.781  1.00 25.00           C
ATOM     85  CA  ALA    85      11.313  34.287  -4.943  1.00 25.00           C
ATOM     86  CA  PHE    86      13.257  31.097  -5.794  1.00 25.00           C
ATOM     87  CA  CYS    87      14.900  31.148  -2.335  1.00 25.00           C
ATOM     88  CA  ASP    88      11.470  31.571  -0.685  1.00 25.00           C
ATOM     89  CA  GLU    89      10.102  28.626  -2.714  1.00 25.00           C
ATOM     90  CA  LEU    90      13.091  26.477  -1.657  1.00 25.00           C
ATOM     91  CA  MET    91      12.505  27.421   2.007  1.00 25.00           C
ATOM     92  CA  LYS    92       8.803  26.494   1.679  1.00 25.00           C
ATOM     93  CA  ASP    93       9.759  23.124   0.130  1.00 25.00           C
ATOM     94  CA  THR    94      12.213  22.474   2.998  1.00 25.00           C
ATOM     95  CA  LYS    95       9.489  23.321   5.552  1.00 25.00           C
ATOM     96  CA  THR    96       7.065  20.930   3.799  1.00 25.00           C
ATOM     97  CA  TRP    97       9.715  18.165   3.855  1.00 25.00           C
TER
END
