
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0300TS599_2
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS599_2.T0300  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       7           -
LGA    A       2      K       8           -
LGA    S       3      T       9           -
LGA    K       4      Y      10           -
LGA    K       5      E      11           -
LGA    P       6      E      12           -
LGA    D       7      M      13           -
LGA    K       8      V      14           -
LGA    T       9      K      15           -
LGA    Y      10      E      16           -
LGA    E      11      V      17           -
LGA    E      12      E      18           -
LGA    M      13      R      19           -
LGA    V      14      L      20           -
LGA    K      15      -       -           -
LGA    E      16      -       -           -
LGA    V      17      -       -           -
LGA    E      18      -       -           -
LGA    R      19      -       -           -
LGA    L      20      -       -           -
LGA    K      21      -       -           -
LGA    L      22      -       -           -
LGA    E      23      -       -           -
LGA    N      24      -       -           -
LGA    K      25      -       -           -
LGA    T      26      -       -           -
LGA    L      27      -       -           -
LGA    K      28      -       -           -
LGA    Q      29      -       -           -
LGA    K      30      -       -           -
LGA    V      31      -       -           -
LGA    K      32      -       -           -
LGA    S      33      -       -           -
LGA    S      34      -       -           -
LGA    G      35      -       -           -
LGA    A      36      -       -           -
LGA    V      37      -       -           -
LGA    S      38      K      21           #
LGA    -       -      L      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    S      39      K      25           #
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      Q      29           -
LGA    -       -      K      30           -
LGA    -       -      V      31           -
LGA    -       -      S      39           -
LGA    -       -      D      40           -
LGA    D      40      D      41          4.520
LGA    D      41      S      42          3.384
LGA    S      42      -       -           -
LGA    I      43      -       -           -
LGA    L      44      -       -           -
LGA    T      45      I      43           #
LGA    A      46      L      44          2.690
LGA    A      47      T      45          1.724
LGA    -       -      A      46           -
LGA    K      48      A      47          3.774
LGA    R      49      K      48          2.561
LGA    E      50      R      49          0.779
LGA    S      51      E      50          2.126
LGA    I      52      S      51          2.262
LGA    I      53      I      52          1.460
LGA    V      54      I      53          1.083
LGA    S      55      V      54          1.500
LGA    S      56      S      55          1.644
LGA    S      57      S      56          1.873
LGA    R      58      S      57          1.603
LGA    A      59      R      58          0.840
LGA    L      60      A      59          1.739
LGA    G      61      L      60          2.402
LGA    A      62      G      61          1.462
LGA    V      63      A      62          1.034
LGA    A      64      V      63          1.573
LGA    M      65      A      64          1.446
LGA    R      66      M      65          1.090
LGA    K      67      R      66          1.099
LGA    I      68      K      67          1.520
LGA    E      69      I      68          1.288
LGA    A      70      E      69          0.559
LGA    K      71      A      70          0.750
LGA    V      72      K      71          1.120
LGA    R      73      V      72          0.980
LGA    S      74      R      73          0.446
LGA    R      75      S      74          0.359
LGA    A      76      R      75          0.871
LGA    A      77      A      76          1.395
LGA    K      78      A      77          1.245
LGA    A      79      K      78          3.200
LGA    V      80      A      79          3.351
LGA    T      81      -       -           -
LGA    E      82      V      80          3.068
LGA    Q      83      T      81          2.315
LGA    E      84      -       -           -
LGA    L      85      E      82          5.412
LGA    T      86      Q      83          4.120
LGA    S      87      E      84          3.304
LGA    L      88      L      85          4.461
LGA    L      89      T      86          1.469
LGA    Q      90      -       -           -
LGA    S      91      -       -           -
LGA    L      92      S      87          4.685
LGA    T      93      L      88           #
LGA    -       -      L      89           -
LGA    L      94      Q      90          1.294
LGA    R      95      S      91          2.594
LGA    V      96      L      92          2.314
LGA    -       -      T      93           -
LGA    D      97      L      94          3.121
LGA    V      98      R      95          3.281
LGA    S      99      V      96          4.238
LGA    M     100      D      97          2.042
LGA    E     101      V      98          1.509
LGA    E     102      S      99          4.019
LGA    -       -      M     100           -
LGA    -       -      E     101           -
LGA    -       -      E     102           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   89    5.0     54    2.48    11.11     45.929     2.096

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.581705 * X  +   0.320269 * Y  +  -0.747695 * Z  +  39.958313
  Y_new =  -0.733878 * X  +  -0.603058 * Y  +   0.312641 * Z  + -17.370768
  Z_new =  -0.350775 * X  +   0.730581 * Y  +   0.585840 * Z  +   5.567348 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.894909   -2.246684  [ DEG:    51.2745   -128.7255 ]
  Theta =   0.358398    2.783195  [ DEG:    20.5347    159.4653 ]
  Phi   =  -2.241037    0.900556  [ DEG:  -128.4019     51.5981 ]
 
# 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: T0300TS599_2                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS599_2.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   54   2.48   11.11  45.929
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS599_2
PFRMAT TS                                                                       
TARGET T0300                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      34.490 -24.195  15.346  1.00  0.00              
ATOM      2  CA  ALA     2      32.761 -24.683  11.541  1.00  0.00              
ATOM      3  CA  SER     3      30.566 -24.597  14.390  1.00  0.00              
ATOM      4  CA  LYS     4      30.259 -21.631  16.358  1.00  0.00              
ATOM      5  CA  LYS     5      29.582 -22.702  19.886  1.00  0.00              
ATOM      6  CA  PRO     6      32.007 -20.696  21.990  1.00  0.00              
ATOM      7  CA  ASP     7      34.273 -22.916  23.984  1.00  0.00              
ATOM      8  CA  LYS     8      37.801 -23.390  23.141  1.00  0.00              
ATOM      9  CA  THR     9      41.031 -24.062  25.034  1.00  0.00              
ATOM     10  CA  TYR    10      43.974 -21.760  24.190  1.00  0.00              
ATOM     11  CA  GLU    11      45.944 -24.758  22.992  1.00  0.00              
ATOM     12  CA  GLU    12      43.173 -26.058  20.786  1.00  0.00              
ATOM     13  CA  MET    13      42.718 -22.652  19.147  1.00  0.00              
ATOM     14  CA  VAL    14      46.444 -22.391  18.486  1.00  0.00              
ATOM     15  CA  LYS    15      46.381 -25.856  16.928  1.00  0.00              
ATOM     16  CA  GLU    16      43.405 -24.934  14.748  1.00  0.00              
ATOM     17  CA  VAL    17      45.255 -21.789  13.606  1.00  0.00              
ATOM     18  CA  GLU    18      48.371 -23.817  12.784  1.00  0.00              
ATOM     19  CA  ARG    19      46.274 -26.235  10.725  1.00  0.00              
ATOM     20  CA  LEU    20      44.633 -23.349   8.829  1.00  0.00              
ATOM     21  CA  LYS    21      48.083 -21.884   8.130  1.00  0.00              
ATOM     22  CA  LEU    22      49.427 -25.205   6.750  1.00  0.00              
ATOM     23  CA  GLU    23      46.306 -25.590   4.537  1.00  0.00              
ATOM     24  CA  ASN    24      46.628 -22.032   3.171  1.00  0.00              
ATOM     25  CA  LYS    25      50.308 -22.714   2.400  1.00  0.00              
ATOM     26  CA  THR    26      49.311 -25.911   0.565  1.00  0.00              
ATOM     27  CA  LEU    27      46.613 -24.103  -1.492  1.00  0.00              
ATOM     28  CA  LYS    28      49.064 -21.379  -2.434  1.00  0.00              
ATOM     29  CA  GLN    29      51.513 -24.062  -3.586  1.00  0.00              
ATOM     30  CA  LYS    30      48.769 -25.795  -5.635  1.00  0.00              
ATOM     31  CA  VAL    31      47.728 -22.515  -7.280  1.00  0.00              
ATOM     32  CA  LYS    32      51.308 -21.684  -8.173  1.00  0.00              
ATOM     33  CA  SER    33      51.852 -25.143  -9.712  1.00  0.00              
ATOM     34  CA  SER    34      48.726 -25.049 -11.922  1.00  0.00              
ATOM     35  CA  GLY    35      48.883 -21.668 -13.615  1.00  0.00              
ATOM     36  CA  ALA    36      45.328 -21.039 -14.615  1.00  0.00              
ATOM     37  CA  VAL    37      45.809 -19.702 -18.120  1.00  0.00              
ATOM     38  CA  SER    38      43.880 -16.487 -18.274  1.00  0.00              
ATOM     39  CA  SER    39      42.562 -16.329 -21.805  1.00  0.00              
ATOM     40  CA  ASP    40      44.925 -13.828 -23.452  1.00  0.00              
ATOM     41  CA  ASP    41      48.158 -15.294 -22.163  1.00  0.00              
ATOM     42  CA  SER    42      50.322 -14.329 -25.067  1.00  0.00              
ATOM     43  CA  ILE    43      49.705 -10.574 -25.535  1.00  0.00              
ATOM     44  CA  LEU    44      50.874  -9.754 -21.951  1.00  0.00              
ATOM     45  CA  THR    45      53.911 -11.964 -21.539  1.00  0.00              
ATOM     46  CA  ALA    46      53.799 -15.167 -19.577  1.00  0.00              
ATOM     47  CA  ALA    47      55.279 -13.563 -16.517  1.00  0.00              
ATOM     48  CA  LYS    48      52.945 -10.642 -16.548  1.00  0.00              
ATOM     49  CA  ARG    49      49.912 -12.820 -16.795  1.00  0.00              
ATOM     50  CA  GLU    50      50.853 -15.142 -14.020  1.00  0.00              
ATOM     51  CA  SER    51      51.653 -12.247 -11.662  1.00  0.00              
ATOM     52  CA  ILE    52      48.401 -10.518 -12.448  1.00  0.00              
ATOM     53  CA  ILE    53      46.394 -13.722 -11.853  1.00  0.00              
ATOM     54  CA  VAL    54      48.044 -14.503  -8.578  1.00  0.00              
ATOM     55  CA  SER    55      47.509 -11.025  -7.287  1.00  0.00              
ATOM     56  CA  SER    56      43.836 -11.005  -8.356  1.00  0.00              
ATOM     57  CA  SER    57      43.082 -14.336  -6.803  1.00  0.00              
ATOM     58  CA  ARG    58      44.700 -13.563  -3.511  1.00  0.00              
ATOM     59  CA  ALA    59      42.801 -10.358  -3.277  1.00  0.00              
ATOM     60  CA  LEU    60      39.455 -11.881  -4.111  1.00  0.00              
ATOM     61  CA  GLY    61      39.920 -14.732  -1.731  1.00  0.00              
ATOM     62  CA  ALA    62      40.888 -12.441   1.108  1.00  0.00              
ATOM     63  CA  VAL    63      37.914 -10.082   0.577  1.00  0.00              
ATOM     64  CA  ALA    64      35.384 -12.866   0.486  1.00  0.00              
ATOM     65  CA  MET    65      36.887 -14.392   3.561  1.00  0.00              
ATOM     66  CA  ARG    66      36.891 -11.138   5.587  1.00  0.00              
ATOM     67  CA  LYS    67      33.286 -10.364   4.804  1.00  0.00              
ATOM     68  CA  ILE    68      32.246 -13.854   5.743  1.00  0.00              
ATOM     69  CA  GLU    69      34.141 -13.758   8.985  1.00  0.00              
ATOM     70  CA  ALA    70      32.558 -10.505   9.984  1.00  0.00              
ATOM     71  CA  LYS    71      29.072 -11.783   9.216  1.00  0.00              
ATOM     72  CA  VAL    72      29.619 -14.948  11.161  1.00  0.00              
ATOM     73  CA  ARG    73      30.948 -13.009  14.168  1.00  0.00              
ATOM     74  CA  SER    74      27.971 -10.756  14.143  1.00  0.00              
ATOM     75  CA  ARG    75      25.531 -13.642  14.012  1.00  0.00              
ATOM     76  CA  ALA    76      27.327 -15.430  16.875  1.00  0.00              
ATOM     77  CA  ALA    77      27.363 -12.339  19.095  1.00  0.00              
ATOM     78  CA  LYS    78      23.670 -11.875  18.638  1.00  0.00              
ATOM     79  CA  ALA    79      22.820 -15.469  19.507  1.00  0.00              
ATOM     80  CA  VAL    80      24.939 -15.172  22.630  1.00  0.00              
ATOM     81  CA  THR    81      24.063 -11.848  24.264  1.00  0.00              
ATOM     82  CA  GLU    82      26.504  -8.933  24.129  1.00  0.00              
ATOM     83  CA  GLN    83      27.193  -9.228  27.891  1.00  0.00              
ATOM     84  CA  GLU    84      27.782 -12.975  27.561  1.00  0.00              
ATOM     85  CA  LEU    85      30.224 -12.578  24.627  1.00  0.00              
ATOM     86  CA  THR    86      32.229  -9.984  26.550  1.00  0.00              
ATOM     87  CA  SER    87      32.423 -12.445  29.493  1.00  0.00              
ATOM     88  CA  LEU    88      33.554 -15.240  27.182  1.00  0.00              
ATOM     89  CA  LEU    89      36.231 -12.968  25.632  1.00  0.00              
ATOM     90  CA  GLN    90      37.640 -12.222  29.067  1.00  0.00              
ATOM     91  CA  SER    91      38.081 -15.987  29.615  1.00  0.00              
ATOM     92  CA  LEU    92      39.268 -16.809  26.066  1.00  0.00              
ATOM     93  CA  THR    93      37.154 -19.371  24.212  1.00  0.00              
ATOM     94  CA  LEU    94      36.732 -18.812  20.527  1.00  0.00              
ATOM     95  CA  ARG    95      34.166 -20.515  18.373  1.00  0.00              
ATOM     96  CA  VAL    96      34.200 -19.940  14.675  1.00  0.00              
ATOM     97  CA  ASP    97      31.250 -20.792  12.413  1.00  0.00              
ATOM     98  CA  VAL    98      32.031 -20.240   8.703  1.00  0.00              
ATOM     99  CA  SER    99      29.506 -19.992   5.956  1.00  0.00              
ATOM    100  CA  MET   100      31.390 -20.987   2.323  1.00  0.00              
ATOM    101  CA  GLU   101      33.939 -18.974  -0.354  1.00  0.00              
ATOM    102  CA  GLU   102      32.812 -15.429  -2.309  1.00  0.00              
TER                                                                             
END
