
#######################################################
#                                                     #
#                        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   93 (   93),  selected   93 , name T0288TS168_2
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS168_2.T0288  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           -
LGA    M       2      M       2           -
LGA    V       3      V       3          5.926
LGA    P       4      P       4          2.786
LGA    G       5      G       5          1.788
LGA    K       6      K       6          2.846
LGA    V       7      V       7          0.739
LGA    T       8      T       8          1.896
LGA    L       9      L       9          0.890
LGA    Q      10      Q      10          0.563
LGA    K      11      K      11          0.213
LGA    D      12      D      12          1.009
LGA    A      13      A      13          1.908
LGA    Q      14      Q      14          2.198
LGA    N      15      N      15          2.397
LGA    L      16      L      16          0.643
LGA    I      17      I      17          1.571
LGA    G      18      G      18          1.316
LGA    I      19      I      19          1.794
LGA    S      20      S      20          1.897
LGA    I      21      I      21          1.552
LGA    G      22      G      22          1.350
LGA    G      23      G      23          1.348
LGA    G      24      G      24          1.981
LGA    A      25      A      25          5.467
LGA    Q      26      -       -           -
LGA    Y      27      -       -           -
LGA    C      28      Q      26           #
LGA    P      29      P      29          2.475
LGA    C      30      C      30          1.235
LGA    L      31      L      31          1.115
LGA    Y      32      Y      32          1.586
LGA    I      33      I      33          0.295
LGA    V      34      V      34          0.583
LGA    Q      35      Q      35          0.749
LGA    V      36      V      36          0.524
LGA    F      37      F      37          1.704
LGA    D      38      D      38          0.545
LGA    N      39      N      39          0.678
LGA    T      40      T      40          0.866
LGA    P      41      P      41          1.312
LGA    A      42      A      42          1.525
LGA    A      43      A      43          1.404
LGA    L      44      L      44          1.499
LGA    D      45      D      45          1.177
LGA    G      46      G      46          1.603
LGA    T      47      T      47          1.666
LGA    V      48      V      48          0.967
LGA    A      49      A      49          0.987
LGA    A      50      A      50          1.445
LGA    G      51      G      51          1.378
LGA    D      52      D      52          0.741
LGA    E      53      E      53          1.459
LGA    I      54      I      54          1.676
LGA    T      55      T      55          2.179
LGA    G      56      G      56          3.320
LGA    V      57      V      57          1.573
LGA    N      58      N      58          1.170
LGA    G      59      G      59          1.910
LGA    R      60      R      60          1.034
LGA    S      61      S      61          0.440
LGA    I      62      I      62          0.884
LGA    K      63      K      63          2.380
LGA    G      64      G      64          2.044
LGA    K      65      K      65          2.329
LGA    T      66      T      66          1.034
LGA    K      67      K      67          1.059
LGA    V      68      V      68          1.637
LGA    E      69      E      69          0.923
LGA    V      70      V      70          0.364
LGA    A      71      A      71          1.116
LGA    K      72      K      72          0.898
LGA    M      73      M      73          0.637
LGA    I      74      I      74          1.339
LGA    Q      75      Q      75          0.952
LGA    E      76      E      76          0.968
LGA    V      77      V      77          1.468
LGA    K      78      K      78          0.910
LGA    G      79      G      79          3.085
LGA    E      80      E      80          1.359
LGA    V      81      V      81          0.863
LGA    T      82      T      82          0.807
LGA    I      83      I      83          0.933
LGA    H      84      H      84          0.897
LGA    Y      85      Y      85          0.602
LGA    N      86      N      86          0.526
LGA    K      87      K      87          0.365
LGA    L      88      L      88          2.164
LGA    Q      89      Q      89          1.723
LGA    Y      90      Y      90          3.070
LGA    Y      91      Y      91          3.595
LGA    K      92      K      92           -
LGA    V      93      V      93           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   93   91    5.0     86    1.77   100.00     85.844     4.593

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.297674 * X  +  -0.574492 * Y  +  -0.762462 * Z  +  27.696903
  Y_new =   0.494770 * X  +   0.590200 * Y  +  -0.637861 * Z  +  17.430908
  Z_new =   0.816451 * X  +  -0.567118 * Y  +   0.108554 * Z  +  13.147358 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.381671    1.759921  [ DEG:   -79.1639    100.8361 ]
  Theta =  -0.955239   -2.186354  [ DEG:   -54.7311   -125.2689 ]
  Phi   =   2.112423   -1.029170  [ DEG:   121.0329    -58.9671 ]
 
# 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: T0288TS168_2                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS168_2.T0288 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   93   91   5.0   86   1.77  100.00  85.844
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS168_2
PFRMAT TS
TARGET T0288
MODEL 2
PARENT N/A
ATOM      1  CA  SER     1      28.702   8.994  32.420  1.00 25.00           C
ATOM      2  CA  MET     2      26.016   9.426  29.807  1.00 25.00           C
ATOM      3  CA  VAL     3      26.470  11.785  26.922  1.00 25.00           C
ATOM      4  CA  PRO     4      24.445  13.277  24.091  1.00 25.00           C
ATOM      5  CA  GLY     5      23.782  16.990  23.610  1.00 25.00           C
ATOM      6  CA  LYS     6      20.808  18.733  21.978  1.00 25.00           C
ATOM      7  CA  VAL     7      20.938  20.172  18.477  1.00 25.00           C
ATOM      8  CA  THR     8      18.663  22.353  16.349  1.00 25.00           C
ATOM      9  CA  LEU     9      20.138  23.683  13.146  1.00 25.00           C
ATOM     10  CA  GLN    10      17.817  25.612  10.860  1.00 25.00           C
ATOM     11  CA  LYS    11      19.098  25.433   7.312  1.00 25.00           C
ATOM     12  CA  ASP    12      19.860  29.175   6.922  1.00 25.00           C
ATOM     13  CA  ALA    13      17.882  30.488   3.879  1.00 25.00           C
ATOM     14  CA  GLN    14      20.227  29.412   1.031  1.00 25.00           C
ATOM     15  CA  ASN    15      22.858  26.817   2.046  1.00 25.00           C
ATOM     16  CA  LEU    16      24.168  24.818   4.979  1.00 25.00           C
ATOM     17  CA  ILE    17      25.216  24.224   8.593  1.00 25.00           C
ATOM     18  CA  GLY    18      28.285  26.485   8.245  1.00 25.00           C
ATOM     19  CA  ILE    19      30.284  23.255   8.191  1.00 25.00           C
ATOM     20  CA  SER    20      33.197  21.421   6.488  1.00 25.00           C
ATOM     21  CA  ILE    21      33.409  17.749   7.512  1.00 25.00           C
ATOM     22  CA  GLY    22      36.643  15.776   7.824  1.00 25.00           C
ATOM     23  CA  GLY    23      37.010  12.197   8.906  1.00 25.00           C
ATOM     24  CA  GLY    24      35.258   8.933   9.588  1.00 25.00           C
ATOM     25  CA  ALA    25      36.006   6.066   7.200  1.00 25.00           C
ATOM     26  CA  GLN    26      38.269   3.822   9.280  1.00 25.00           C
ATOM     27  CA  TYR    27      40.103   6.673  10.897  1.00 25.00           C
ATOM     28  CA  CYS    28      37.952   5.667  13.922  1.00 25.00           C
ATOM     29  CA  PRO    29      34.277   4.633  13.605  1.00 25.00           C
ATOM     30  CA  CYS    30      33.265   8.227  14.535  1.00 25.00           C
ATOM     31  CA  LEU    31      32.112  11.320  12.701  1.00 25.00           C
ATOM     32  CA  TYR    32      33.305  14.953  12.185  1.00 25.00           C
ATOM     33  CA  ILE    33      32.621  18.590  13.194  1.00 25.00           C
ATOM     34  CA  VAL    34      35.450  20.580  11.751  1.00 25.00           C
ATOM     35  CA  GLN    35      35.137  24.383  11.261  1.00 25.00           C
ATOM     36  CA  VAL    36      31.804  25.938  12.228  1.00 25.00           C
ATOM     37  CA  PHE    37      32.461  29.577  11.331  1.00 25.00           C
ATOM     38  CA  ASP    38      30.094  32.472  11.557  1.00 25.00           C
ATOM     39  CA  ASN    39      26.890  34.405  10.979  1.00 25.00           C
ATOM     40  CA  THR    40      25.197  31.189   9.769  1.00 25.00           C
ATOM     41  CA  PRO    41      23.815  28.138  11.612  1.00 25.00           C
ATOM     42  CA  ALA    42      26.768  26.719  13.657  1.00 25.00           C
ATOM     43  CA  ALA    43      26.433  29.512  16.229  1.00 25.00           C
ATOM     44  CA  LEU    44      22.826  30.728  16.204  1.00 25.00           C
ATOM     45  CA  ASP    45      22.080  28.148  18.868  1.00 25.00           C
ATOM     46  CA  GLY    46      25.171  27.839  21.087  1.00 25.00           C
ATOM     47  CA  THR    47      25.709  24.548  19.288  1.00 25.00           C
ATOM     48  CA  VAL    48      28.129  21.648  18.713  1.00 25.00           C
ATOM     49  CA  ALA    49      31.265  23.816  18.159  1.00 25.00           C
ATOM     50  CA  ALA    50      34.819  23.372  16.778  1.00 25.00           C
ATOM     51  CA  GLY    51      35.724  19.675  17.009  1.00 25.00           C
ATOM     52  CA  ASP    52      32.616  18.088  18.617  1.00 25.00           C
ATOM     53  CA  GLU    53      31.212  15.041  16.824  1.00 25.00           C
ATOM     54  CA  ILE    54      28.653  14.623  14.030  1.00 25.00           C
ATOM     55  CA  THR    55      26.121  11.954  14.878  1.00 25.00           C
ATOM     56  CA  GLY    56      24.390  12.118  11.541  1.00 25.00           C
ATOM     57  CA  VAL    57      20.836  13.016  10.576  1.00 25.00           C
ATOM     58  CA  ASN    58      17.166  13.499  11.293  1.00 25.00           C
ATOM     59  CA  GLY    59      16.413  10.281  13.255  1.00 25.00           C
ATOM     60  CA  ARG    60      19.606   8.441  12.183  1.00 25.00           C
ATOM     61  CA  SER    61      22.696   6.991  13.864  1.00 25.00           C
ATOM     62  CA  ILE    62      26.014   7.390  11.990  1.00 25.00           C
ATOM     63  CA  LYS    63      28.571   5.439  14.034  1.00 25.00           C
ATOM     64  CA  GLY    64      28.947   2.827  11.333  1.00 25.00           C
ATOM     65  CA  LYS    65      30.111   5.079   8.430  1.00 25.00           C
ATOM     66  CA  THR    66      30.850   6.172   4.869  1.00 25.00           C
ATOM     67  CA  LYS    67      31.756   9.860   5.152  1.00 25.00           C
ATOM     68  CA  VAL    68      30.108  10.202   1.711  1.00 25.00           C
ATOM     69  CA  GLU    69      26.775   8.996   3.159  1.00 25.00           C
ATOM     70  CA  VAL    70      27.066  11.537   6.009  1.00 25.00           C
ATOM     71  CA  ALA    71      27.785  14.324   3.484  1.00 25.00           C
ATOM     72  CA  LYS    72      24.731  13.280   1.423  1.00 25.00           C
ATOM     73  CA  MET    73      22.559  13.319   4.577  1.00 25.00           C
ATOM     74  CA  ILE    74      23.854  16.815   5.456  1.00 25.00           C
ATOM     75  CA  GLN    75      23.063  18.025   1.909  1.00 25.00           C
ATOM     76  CA  GLU    76      19.529  16.574   2.175  1.00 25.00           C
ATOM     77  CA  VAL    77      17.847  17.241   5.579  1.00 25.00           C
ATOM     78  CA  LYS    78      15.897  19.969   3.768  1.00 25.00           C
ATOM     79  CA  GLY    79      13.822  20.238   6.924  1.00 25.00           C
ATOM     80  CA  GLU    80      15.801  20.838  10.099  1.00 25.00           C
ATOM     81  CA  VAL    81      18.619  18.377  10.718  1.00 25.00           C
ATOM     82  CA  THR    82      19.634  17.319  14.204  1.00 25.00           C
ATOM     83  CA  ILE    83      23.309  17.001  15.170  1.00 25.00           C
ATOM     84  CA  HIS    84      23.185  14.796  18.233  1.00 25.00           C
ATOM     85  CA  TYR    85      26.849  14.632  19.411  1.00 25.00           C
ATOM     86  CA  ASN    86      29.258  13.711  22.188  1.00 25.00           C
ATOM     87  CA  LYS    87      31.595  16.428  23.571  1.00 25.00           C
ATOM     88  CA  LEU    88      35.336  16.402  22.682  1.00 25.00           C
ATOM     89  CA  GLN    89      38.001  17.213  25.224  1.00 25.00           C
ATOM     90  CA  TYR    90      40.834  18.411  27.508  1.00 25.00           C
ATOM     91  CA  TYR    91      44.194  17.914  29.145  1.00 25.00           C
ATOM     92  CA  LYS    92      45.655  14.833  30.792  1.00 25.00           C
ATOM     93  CA  VAL    93      44.892  11.499  32.361  1.00 25.00           C
TER
END
