
#######################################################
#                                                     #
#                        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   86 (   86),  selected   86 , name T0292TS393_1-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS393_1-D1.T0292_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1          4.312
LGA    R       2      R       2          2.852
LGA    A       3      A       3          2.063
LGA    E       4      E       4          1.930
LGA    D       5      D       5          5.263
LGA    Y       6      Y       6          4.203
LGA    E       7      E       7          3.810
LGA    V       8      V       8          2.603
LGA    L       9      L       9          1.841
LGA    Y      10      Y      10          1.428
LGA    T      11      T      11          1.773
LGA    I      12      I      12          1.546
LGA    G      13      G      13          1.511
LGA    T      14      T      14          1.566
LGA    G      15      G      15          3.235
LGA    S      16      S      16          4.910
LGA    Y      17      Y      17          2.144
LGA    G      18      G      18          0.714
LGA    R      19      R      19          1.646
LGA    C      20      C      20          0.759
LGA    Q      21      Q      21          0.867
LGA    K      22      K      22          0.464
LGA    I      23      I      23          0.646
LGA    R      24      R      24          1.596
LGA    R      25      R      25          3.665
LGA    K      26      K      26          1.285
LGA    S      27      S      27          1.673
LGA    D      28      D      28          2.224
LGA    G      29      G      29          0.394
LGA    K      30      K      30          2.032
LGA    I      31      I      31          0.763
LGA    L      32      L      32          2.014
LGA    V      33      V      33          1.786
LGA    W      34      W      34          2.163
LGA    K      35      K      35          1.994
LGA    E      36      E      36          0.898
LGA    L      37      L      37          0.755
LGA    D      38      D      38          1.826
LGA    Y      39      Y      39          3.116
LGA    G      40      G      40          2.523
LGA    S      41      S      41          4.496
LGA    M      42      M      42          5.259
LGA    T      43      T      43          2.106
LGA    E      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    K      47      -       -           -
LGA    Q      48      -       -           -
LGA    M      49      M      49          2.824
LGA    L      50      L      50          1.650
LGA    V      51      V      51          1.075
LGA    S      52      S      52          2.216
LGA    E      53      E      53          2.212
LGA    V      54      V      54          1.156
LGA    N      55      N      55          2.597
LGA    L      56      L      56          2.882
LGA    L      57      L      57          1.762
LGA    R      58      R      58          1.647
LGA    E      59      E      59          2.401
LGA    L      60      L      60          1.477
LGA    K      61      K      61          2.445
LGA    H      62      H      62          3.209
LGA    P      63      P      63          3.308
LGA    N      64      N      64          1.612
LGA    I      65      I      65          1.401
LGA    V      66      V      66          1.346
LGA    R      67      R      67          1.440
LGA    Y      68      Y      68          0.787
LGA    Y      69      Y      69          0.812
LGA    D      70      D      70          1.160
LGA    R      71      R      71          1.924
LGA    I      72      I      72          1.933
LGA    I      73      -       -           -
LGA    D      74      I      73          1.653
LGA    R      75      D      74          3.853
LGA    T      76      -       -           -
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          2.418
LGA    L      80      L      80          2.857
LGA    Y      81      Y      81          3.460
LGA    I      82      I      82          1.727
LGA    V      83      V      83          1.388
LGA    M      84      M      84          1.350
LGA    E      85      E      85          0.665
LGA    Y      86      Y      86          1.485

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     77    2.37    97.40     71.301     3.122

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.570782 * X  +  -0.788426 * Y  +   0.229330 * Z  +   6.624858
  Y_new =   0.133124 * X  +   0.186743 * Y  +   0.973347 * Z  +  13.992324
  Z_new =  -0.810238 * X  +   0.586098 * Y  +  -0.001631 * Z  +  16.552710 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.573579   -1.568014  [ DEG:    90.1594    -89.8406 ]
  Theta =   0.944559    2.197034  [ DEG:    54.1192    125.8808 ]
  Phi   =   2.912457   -0.229135  [ DEG:   166.8715    -13.1285 ]
 
# 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: T0292TS393_1-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS393_1-D1.T0292_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   86   77   5.0   77   2.37   97.40  71.301
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS393_1-D1
PFRMAT TS
TARGET T0292
MODEL 1
PARENT N/A
ATOM      1  CA  SER     1      -9.541  -9.804   4.419  1.00 25.00           C
ATOM      2  CA  ARG     2     -12.513  -7.683   5.502  1.00 25.00           C
ATOM      3  CA  ALA     3     -12.247  -5.953   8.847  1.00 25.00           C
ATOM      4  CA  GLU     4     -15.224  -8.226   9.775  1.00 25.00           C
ATOM      5  CA  ASP     5     -16.362  -8.642  13.413  1.00 25.00           C
ATOM      6  CA  TYR     6     -15.856  -4.929  13.495  1.00 25.00           C
ATOM      7  CA  GLU     7     -17.844  -1.761  14.393  1.00 25.00           C
ATOM      8  CA  VAL     8     -16.318   0.411  17.116  1.00 25.00           C
ATOM      9  CA  LEU     9     -15.806   3.635  19.071  1.00 25.00           C
ATOM     10  CA  TYR    10     -14.518   5.988  16.456  1.00 25.00           C
ATOM     11  CA  THR    11     -13.772   8.955  14.226  1.00 25.00           C
ATOM     12  CA  ILE    12     -11.450  10.640  16.763  1.00 25.00           C
ATOM     13  CA  GLY    13      -8.884  13.435  16.303  1.00 25.00           C
ATOM     14  CA  THR    14      -9.145  14.647  12.647  1.00 25.00           C
ATOM     15  CA  GLY    15      -5.992  16.471  11.523  1.00 25.00           C
ATOM     16  CA  SER    16      -3.413  16.364   8.726  1.00 25.00           C
ATOM     17  CA  TYR    17      -4.703  13.294   6.930  1.00 25.00           C
ATOM     18  CA  GLY    18      -8.183  11.780   6.504  1.00 25.00           C
ATOM     19  CA  ARG    19      -8.281   9.964   9.829  1.00 25.00           C
ATOM     20  CA  CYS    20      -7.753   8.085  13.113  1.00 25.00           C
ATOM     21  CA  GLN    21      -9.820   5.273  14.745  1.00 25.00           C
ATOM     22  CA  LYS    22      -9.830   3.661  18.228  1.00 25.00           C
ATOM     23  CA  ILE    23     -11.036   0.333  16.811  1.00 25.00           C
ATOM     24  CA  ARG    24     -11.644  -3.391  17.541  1.00 25.00           C
ATOM     25  CA  ARG    25     -12.753  -6.985  16.972  1.00 25.00           C
ATOM     26  CA  LYS    26     -10.590 -10.073  17.531  1.00 25.00           C
ATOM     27  CA  SER    27      -8.058 -12.431  19.042  1.00 25.00           C
ATOM     28  CA  ASP    28      -9.619 -11.756  22.399  1.00 25.00           C
ATOM     29  CA  GLY    29      -9.877  -7.975  22.357  1.00 25.00           C
ATOM     30  CA  LYS    30      -8.075  -4.672  22.599  1.00 25.00           C
ATOM     31  CA  ILE    31      -7.467  -1.220  21.021  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.023  -2.010  18.168  1.00 25.00           C
ATOM     33  CA  VAL    33      -5.629   1.083  16.039  1.00 25.00           C
ATOM     34  CA  TRP    34      -7.282   1.208  12.584  1.00 25.00           C
ATOM     35  CA  LYS    35      -6.303   4.151  10.369  1.00 25.00           C
ATOM     36  CA  GLU    36      -7.661   5.652   7.182  1.00 25.00           C
ATOM     37  CA  LEU    37      -7.515   6.906   3.541  1.00 25.00           C
ATOM     38  CA  ASP    38     -10.782   7.434   1.677  1.00 25.00           C
ATOM     39  CA  TYR    39      -8.835   9.231  -1.057  1.00 25.00           C
ATOM     40  CA  GLY    40      -8.263   9.288  -4.870  1.00 25.00           C
ATOM     41  CA  SER    41      -7.820   7.017  -7.897  1.00 25.00           C
ATOM     42  CA  MET    42      -4.560   5.149  -7.423  1.00 25.00           C
ATOM     43  CA  THR    43      -2.798   8.165  -8.892  1.00 25.00           C
ATOM     44  CA  GLU    44      -4.142  11.695  -9.226  1.00 25.00           C
ATOM     45  CA  ALA    45      -1.792  13.219  -6.686  1.00 25.00           C
ATOM     46  CA  GLU    46      -0.150  10.256  -4.934  1.00 25.00           C
ATOM     47  CA  LYS    47      -0.618   6.478  -4.523  1.00 25.00           C
ATOM     48  CA  GLN    48       3.150   5.940  -4.948  1.00 25.00           C
ATOM     49  CA  MET    49       3.856   8.631  -2.316  1.00 25.00           C
ATOM     50  CA  LEU    50       1.389   6.961   0.089  1.00 25.00           C
ATOM     51  CA  VAL    51       3.086   3.575  -0.482  1.00 25.00           C
ATOM     52  CA  SER    52       6.509   5.147   0.206  1.00 25.00           C
ATOM     53  CA  GLU    53       5.169   6.713   3.434  1.00 25.00           C
ATOM     54  CA  VAL    54       3.756   3.323   4.520  1.00 25.00           C
ATOM     55  CA  ASN    55       7.134   1.661   3.811  1.00 25.00           C
ATOM     56  CA  LEU    56       8.919   4.354   5.866  1.00 25.00           C
ATOM     57  CA  LEU    57       6.468   3.807   8.758  1.00 25.00           C
ATOM     58  CA  ARG    58       7.080   0.030   8.594  1.00 25.00           C
ATOM     59  CA  GLU    59      10.864   0.615   8.655  1.00 25.00           C
ATOM     60  CA  LEU    60      10.176   0.540  12.368  1.00 25.00           C
ATOM     61  CA  LYS    61      11.851  -1.121  15.414  1.00 25.00           C
ATOM     62  CA  HIS    62      12.456   2.076  17.360  1.00 25.00           C
ATOM     63  CA  PRO    63      11.965   1.560  21.136  1.00 25.00           C
ATOM     64  CA  ASN    64       9.734   4.655  20.669  1.00 25.00           C
ATOM     65  CA  ILE    65       8.119   4.586  17.262  1.00 25.00           C
ATOM     66  CA  VAL    66       4.474   3.513  16.776  1.00 25.00           C
ATOM     67  CA  ARG    67       4.227  -0.179  17.507  1.00 25.00           C
ATOM     68  CA  TYR    68       2.975  -0.136  13.933  1.00 25.00           C
ATOM     69  CA  TYR    69       1.025  -3.421  13.886  1.00 25.00           C
ATOM     70  CA  ASP    70      -0.173  -3.830  10.265  1.00 25.00           C
ATOM     71  CA  ARG    71      -0.551  -1.999   6.922  1.00 25.00           C
ATOM     72  CA  ILE    72      -4.065  -2.907   5.772  1.00 25.00           C
ATOM     73  CA  ILE    73      -4.714  -4.026   2.177  1.00 25.00           C
ATOM     74  CA  ASP    74      -8.405  -3.038   1.618  1.00 25.00           C
ATOM     75  CA  ARG    75      -9.516  -3.603  -1.993  1.00 25.00           C
ATOM     76  CA  THR    76     -11.448  -1.265  -4.318  1.00 25.00           C
ATOM     77  CA  ASN    77     -13.568   1.656  -3.118  1.00 25.00           C
ATOM     78  CA  THR    78     -10.721   2.532  -0.755  1.00 25.00           C
ATOM     79  CA  THR    79      -7.963   2.105   1.786  1.00 25.00           C
ATOM     80  CA  LEU    80      -4.258   1.469   1.740  1.00 25.00           C
ATOM     81  CA  TYR    81      -3.543   3.019   5.193  1.00 25.00           C
ATOM     82  CA  ILE    82      -1.480   2.789   8.330  1.00 25.00           C
ATOM     83  CA  VAL    83      -2.121   0.650  11.405  1.00 25.00           C
ATOM     84  CA  MET    84      -1.274   2.925  14.352  1.00 25.00           C
ATOM     85  CA  GLU    85      -0.512   1.921  17.869  1.00 25.00           C
ATOM     86  CA  TYR    86      -1.876   3.951  20.750  1.00 25.00           C
TER
END
