
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0366TS393_1
# Molecule2: number of CA atoms   84 (  589),  selected   84 , name T0366.pdb
# PARAMETERS: T0366TS393_1.T0366.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       1      -       -           -
LGA    E       2      -       -           -
LGA    N       3      -       -           -
LGA    L       4      -       -           -
LGA    Y       5      -       -           -
LGA    F       6      -       -           -
LGA    Q       7      -       -           -
LGA    S       8      -       -           -
LGA    M       9      -       -           -
LGA    G      10      -       -           -
LGA    L      11      L      11          3.007
LGA    R      12      R      12          2.071
LGA    T      13      T      13          1.319
LGA    V      14      V      14          0.655
LGA    E      15      E      15          1.340
LGA    M      16      M      16          1.569
LGA    K      17      K      17          2.428
LGA    K      18      K      18          1.438
LGA    G      19      -       -           -
LGA    P      20      -       -           -
LGA    T      21      -       -           -
LGA    D      22      -       -           -
LGA    S      23      S      23          1.183
LGA    L      24      L      24          1.128
LGA    G      25      G      25          1.127
LGA    I      26      I      26          2.218
LGA    S      27      S      27          1.724
LGA    I      28      I      28          1.887
LGA    A      29      A      29          1.786
LGA    G      30      G      30          1.400
LGA    G      31      G      31          1.956
LGA    V      32      V      32          2.134
LGA    G      33      G      33          1.589
LGA    S      34      S      34          1.631
LGA    P      35      P      35          3.529
LGA    L      36      L      36          3.250
LGA    G      37      G      37          3.036
LGA    D      38      D      38          4.335
LGA    V      39      V      39          2.930
LGA    P      40      P      40          1.540
LGA    I      41      I      41          1.035
LGA    F      42      F      42          2.160
LGA    I      43      I      43          1.451
LGA    A      44      A      44          1.566
LGA    M      45      M      45          0.910
LGA    M      46      M      46          0.160
LGA    H      47      H      47          1.089
LGA    P      48      P      48          1.774
LGA    T      49      T      49          1.551
LGA    G      50      G      50          1.334
LGA    V      51      V      51          0.599
LGA    A      52      A      52          1.401
LGA    A      53      A      53          1.196
LGA    Q      54      Q      54          1.861
LGA    T      55      T      55          2.699
LGA    Q      56      Q      56          2.003
LGA    K      57      K      57          1.674
LGA    L      58      L      58          1.700
LGA    R      59      R      59          2.281
LGA    V      60      V      60          0.811
LGA    G      61      G      61          1.652
LGA    D      62      D      62          1.491
LGA    R      63      R      63          0.988
LGA    I      64      I      64          1.250
LGA    V      65      V      65          1.819
LGA    T      66      T      66          0.366
LGA    I      67      I      67          1.745
LGA    C      68      C      68          3.279
LGA    G      69      G      69          2.224
LGA    T      70      T      70          1.782
LGA    S      71      S      71          4.181
LGA    T      72      T      72          0.994
LGA    E      73      E      73          1.375
LGA    G      74      G      74          2.920
LGA    M      75      M      75          1.235
LGA    T      76      T      76          0.897
LGA    H      77      H      77          0.743
LGA    T      78      T      78          0.663
LGA    Q      79      Q      79          0.580
LGA    A      80      A      80          0.545
LGA    V      81      V      81          0.381
LGA    N      82      N      82          0.959
LGA    L      83      L      83          1.086
LGA    L      84      L      84          0.496
LGA    K      85      K      85          1.367
LGA    N      86      N      86          2.288
LGA    A      87      A      87          1.458
LGA    S      88      S      88          1.135
LGA    G      89      G      89          0.706
LGA    S      90      S      90          1.349
LGA    I      91      I      91          1.631
LGA    E      92      E      92          1.058
LGA    M      93      M      93          0.904
LGA    Q      94      Q      94          0.917
LGA    V      95      V      95          1.544
LGA    V      96      V      96          0.900
LGA    A      97      A      97          0.604
LGA    G      98      G      98          2.119
LGA    G      99      -       -           -
LGA    D     100      -       -           -
LGA    V     101      -       -           -
LGA    S     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    S     105      -       -           -
LGA    V     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106   84    5.0     84    1.79   100.00     89.636     4.453

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.280611 * X  +  -0.417033 * Y  +  -0.864489 * Z  +  10.188467
  Y_new =  -0.827309 * X  +   0.351561 * Y  +  -0.438137 * Z  +  22.831053
  Z_new =   0.486638 * X  +   0.838146 * Y  +  -0.246363 * Z  +  12.290386 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.856683   -1.284910  [ DEG:   106.3801    -73.6199 ]
  Theta =  -0.508237   -2.633355  [ DEG:   -29.1199   -150.8801 ]
  Phi   =  -1.243789    1.897804  [ DEG:   -71.2638    108.7362 ]
 
# 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: T0366TS393_1                                  
REMARK     2: T0366.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0366TS393_1.T0366.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106   84   5.0   84   1.79  100.00  89.636
REMARK  ---------------------------------------------------------- 
MOLECULE T0366TS393_1
PFRMAT TS
TARGET T0366
MODEL 1
PARENT N/A
ATOM      1  CA  THR     1      18.613  49.078  14.519  1.00 25.00           C
ATOM      2  CA  GLU     2      22.343  48.735  13.868  1.00 25.00           C
ATOM      3  CA  ASN     3      24.361  47.376  16.838  1.00 25.00           C
ATOM      4  CA  LEU     4      23.161  43.709  16.740  1.00 25.00           C
ATOM      5  CA  TYR     5      20.846  41.672  19.035  1.00 25.00           C
ATOM      6  CA  PHE     6      22.496  38.437  20.261  1.00 25.00           C
ATOM      7  CA  GLN     7      23.182  35.604  17.851  1.00 25.00           C
ATOM      8  CA  SER     8      21.159  36.191  14.677  1.00 25.00           C
ATOM      9  CA  MET     9      20.514  32.483  13.977  1.00 25.00           C
ATOM     10  CA  GLY    10      17.441  33.547  12.014  1.00 25.00           C
ATOM     11  CA  LEU    11      14.406  31.393  12.962  1.00 25.00           C
ATOM     12  CA  ARG    12      13.257  31.295   9.323  1.00 25.00           C
ATOM     13  CA  THR    13      10.207  31.505   7.064  1.00 25.00           C
ATOM     14  CA  VAL    14       8.124  28.535   6.085  1.00 25.00           C
ATOM     15  CA  GLU    15       4.816  28.512   4.282  1.00 25.00           C
ATOM     16  CA  MET    16       3.613  24.939   3.765  1.00 25.00           C
ATOM     17  CA  LYS    17       0.531  24.033   1.724  1.00 25.00           C
ATOM     18  CA  LYS    18      -1.844  21.986   3.791  1.00 25.00           C
ATOM     19  CA  GLY    19      -2.010  18.793   1.653  1.00 25.00           C
ATOM     20  CA  PRO    20      -5.584  19.439   0.440  1.00 25.00           C
ATOM     21  CA  THR    21      -6.881  15.881   1.119  1.00 25.00           C
ATOM     22  CA  ASP    22      -5.203  15.607   4.489  1.00 25.00           C
ATOM     23  CA  SER    23      -1.607  14.548   5.405  1.00 25.00           C
ATOM     24  CA  LEU    24       1.444  16.862   5.632  1.00 25.00           C
ATOM     25  CA  GLY    25       4.660  14.941   5.537  1.00 25.00           C
ATOM     26  CA  ILE    26       6.557  17.260   7.950  1.00 25.00           C
ATOM     27  CA  SER    27       6.413  14.175  10.169  1.00 25.00           C
ATOM     28  CA  ILE    28       7.119  13.177  13.771  1.00 25.00           C
ATOM     29  CA  ALA    29       8.994  12.383  16.916  1.00 25.00           C
ATOM     30  CA  GLY    30      11.816  13.511  19.172  1.00 25.00           C
ATOM     31  CA  GLY    31      11.675  15.754  22.274  1.00 25.00           C
ATOM     32  CA  VAL    32      11.443  15.616  26.086  1.00 25.00           C
ATOM     33  CA  GLY    33      10.096  12.178  27.217  1.00 25.00           C
ATOM     34  CA  SER    34      11.758  10.495  24.228  1.00 25.00           C
ATOM     35  CA  PRO    35      15.274  11.865  24.723  1.00 25.00           C
ATOM     36  CA  LEU    36      18.724  13.199  25.515  1.00 25.00           C
ATOM     37  CA  GLY    37      16.948  15.980  27.437  1.00 25.00           C
ATOM     38  CA  ASP    38      17.945  18.551  24.839  1.00 25.00           C
ATOM     39  CA  VAL    39      14.330  19.760  24.578  1.00 25.00           C
ATOM     40  CA  PRO    40      12.755  20.604  21.166  1.00 25.00           C
ATOM     41  CA  ILE    41      10.496  19.607  18.227  1.00 25.00           C
ATOM     42  CA  PHE    42      10.690  17.252  15.233  1.00 25.00           C
ATOM     43  CA  ILE    43      11.172  15.592  11.801  1.00 25.00           C
ATOM     44  CA  ALA    44      12.020  11.888  11.609  1.00 25.00           C
ATOM     45  CA  MET    45      10.875  11.895   7.975  1.00 25.00           C
ATOM     46  CA  MET    46       9.819  13.770   4.872  1.00 25.00           C
ATOM     47  CA  HIS    47       7.959  13.084   1.674  1.00 25.00           C
ATOM     48  CA  PRO    48       7.651  12.995  -2.103  1.00 25.00           C
ATOM     49  CA  THR    49       4.830  14.963  -3.649  1.00 25.00           C
ATOM     50  CA  GLY    50       3.042  15.989  -0.404  1.00 25.00           C
ATOM     51  CA  VAL    51       2.893  19.589   0.920  1.00 25.00           C
ATOM     52  CA  ALA    52       6.616  19.336   1.656  1.00 25.00           C
ATOM     53  CA  ALA    53       9.955  18.757  -0.129  1.00 25.00           C
ATOM     54  CA  GLN    54       8.680  20.674  -3.189  1.00 25.00           C
ATOM     55  CA  THR    55      10.166  23.986  -1.958  1.00 25.00           C
ATOM     56  CA  GLN    56      13.119  22.946   0.213  1.00 25.00           C
ATOM     57  CA  LYS    57      12.066  24.333   3.564  1.00 25.00           C
ATOM     58  CA  LEU    58      12.400  21.577   6.237  1.00 25.00           C
ATOM     59  CA  ARG    59      13.365  18.873   3.752  1.00 25.00           C
ATOM     60  CA  VAL    60      15.234  17.086   6.547  1.00 25.00           C
ATOM     61  CA  GLY    61      16.379  15.906  10.033  1.00 25.00           C
ATOM     62  CA  ASP    62      15.168  19.379  11.027  1.00 25.00           C
ATOM     63  CA  ARG    63      14.678  20.706  14.540  1.00 25.00           C
ATOM     64  CA  ILE    64      11.542  22.650  13.674  1.00 25.00           C
ATOM     65  CA  VAL    65      10.060  25.122  16.140  1.00 25.00           C
ATOM     66  CA  THR    66       7.160  27.548  16.195  1.00 25.00           C
ATOM     67  CA  ILE    67       3.444  27.303  15.374  1.00 25.00           C
ATOM     68  CA  CYS    68       2.815  30.701  13.850  1.00 25.00           C
ATOM     69  CA  GLY    69       2.001  31.641  17.496  1.00 25.00           C
ATOM     70  CA  THR    70       2.812  29.525  20.534  1.00 25.00           C
ATOM     71  CA  SER    71       3.601  25.769  20.711  1.00 25.00           C
ATOM     72  CA  THR    72       7.023  24.032  20.938  1.00 25.00           C
ATOM     73  CA  GLU    73       9.084  24.072  24.096  1.00 25.00           C
ATOM     74  CA  GLY    74       9.386  20.474  25.381  1.00 25.00           C
ATOM     75  CA  MET    75       5.702  20.079  24.681  1.00 25.00           C
ATOM     76  CA  THR    76       6.377  16.390  24.157  1.00 25.00           C
ATOM     77  CA  HIS    77       6.317  15.426  20.461  1.00 25.00           C
ATOM     78  CA  THR    78       2.630  14.570  21.043  1.00 25.00           C
ATOM     79  CA  GLN    79       1.821  18.281  21.533  1.00 25.00           C
ATOM     80  CA  ALA    80       3.664  19.137  18.286  1.00 25.00           C
ATOM     81  CA  VAL    81       1.707  16.418  16.431  1.00 25.00           C
ATOM     82  CA  ASN    82      -1.582  17.796  17.828  1.00 25.00           C
ATOM     83  CA  LEU    83      -0.609  21.326  16.705  1.00 25.00           C
ATOM     84  CA  LEU    84       0.216  20.010  13.204  1.00 25.00           C
ATOM     85  CA  LYS    85      -3.169  18.226  13.050  1.00 25.00           C
ATOM     86  CA  ASN    86      -4.944  21.449  14.111  1.00 25.00           C
ATOM     87  CA  ALA    87      -4.321  23.411  10.875  1.00 25.00           C
ATOM     88  CA  SER    88      -6.669  22.876   7.896  1.00 25.00           C
ATOM     89  CA  GLY    89      -5.118  25.899   6.177  1.00 25.00           C
ATOM     90  CA  SER    90      -1.474  27.002   5.867  1.00 25.00           C
ATOM     91  CA  ILE    91       0.756  24.835   8.157  1.00 25.00           C
ATOM     92  CA  GLU    92       2.273  28.161   9.262  1.00 25.00           C
ATOM     93  CA  MET    93       5.546  26.948  10.821  1.00 25.00           C
ATOM     94  CA  GLN    94       9.219  27.913  11.040  1.00 25.00           C
ATOM     95  CA  VAL    95      12.595  26.402  10.159  1.00 25.00           C
ATOM     96  CA  VAL    96      15.722  25.878  12.207  1.00 25.00           C
ATOM     97  CA  ALA    97      18.764  24.182  10.792  1.00 25.00           C
ATOM     98  CA  GLY    98      21.110  21.138  10.521  1.00 25.00           C
ATOM     99  CA  GLY    99      23.805  23.695   9.928  1.00 25.00           C
ATOM    100  CA  ASP   100      26.602  25.677  11.568  1.00 25.00           C
ATOM    101  CA  VAL   101      28.420  28.860  10.498  1.00 25.00           C
ATOM    102  CA  SER   102      31.759  27.205  10.229  1.00 25.00           C
ATOM    103  CA  GLU   103      34.672  29.421   9.291  1.00 25.00           C
ATOM    104  CA  THR   104      36.210  32.858   9.642  1.00 25.00           C
ATOM    105  CA  SER   105      37.488  31.494  12.991  1.00 25.00           C
ATOM    106  CA  VAL   106      36.671  29.787  16.294  1.00 25.00           C
TER
END
