
#######################################################
#                                                     #
#                        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  122 (  122),  selected  122 , name T0304TS599_1
# Molecule2: number of CA atoms  107 (  848),  selected  107 , name T0304.pdb
# PARAMETERS: T0304TS599_1.T0304.pdb  -4  -ie  -o1  -sia  -d:55A/  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D      16           -
LGA    S       2      R      17           -
LGA    D       3      P      18           -
LGA    T       4      W      19           -
LGA    L       5      W      20           -
LGA    P       6      G      21           -
LGA    G       7      -       -           -
LGA    T       8      -       -           -
LGA    T       9      -       -           -
LGA    L      10      -       -           -
LGA    P      11      -       -           -
LGA    D      12      -       -           -
LGA    D      13      -       -           -
LGA    N      14      -       -           -
LGA    H      15      -       -           -
LGA    D      16      -       -           -
LGA    R      17      -       -           -
LGA    P      18      -       -           -
LGA    W      19      -       -           -
LGA    W      20      -       -           -
LGA    G      21      -       -           -
LGA    L      22      -       -           -
LGA    P      23      -       -           -
LGA    C      24      L      22           #
LGA    -       -      P      23           -
LGA    -       -      C      24           -
LGA    -       -      T      25           -
LGA    -       -      V      26           -
LGA    -       -      T      27           -
LGA    -       -      P      28           -
LGA    T      25      C      29           #
LGA    V      26      F      30          2.701
LGA    T      27      G      31           #
LGA    P      28      A      32           #
LGA    -       -      R      33           -
LGA    -       -      L      34           -
LGA    -       -      V      35           -
LGA    -       -      Q      36           -
LGA    -       -      E      37           -
LGA    -       -      G      38           -
LGA    -       -      N      39           -
LGA    -       -      R      40           -
LGA    -       -      L      41           -
LGA    -       -      H      42           -
LGA    -       -      Y      43           -
LGA    -       -      L      44           -
LGA    C      29      A      45          2.354
LGA    F      30      D      46          4.437
LGA    G      31      R      47          4.078
LGA    A      32      -       -           -
LGA    R      33      -       -           -
LGA    L      34      A      48          6.158
LGA    V      35      G      49           -
LGA    Q      36      -       -           -
LGA    E      37      -       -           -
LGA    G      38      -       -           -
LGA    N      39      -       -           -
LGA    R      40      -       -           -
LGA    L      41      -       -           -
LGA    H      42      -       -           -
LGA    Y      43      -       -           -
LGA    L      44      -       -           -
LGA    A      45      -       -           -
LGA    D      46      -       -           -
LGA    R      47      -       -           -
LGA    A      48      -       -           -
LGA    G      49      I      50          3.805
LGA    I      50      R      51          4.052
LGA    R      51      G      52           #
LGA    G      52      L      53          5.995
LGA    L      53      F      54          4.970
LGA    -       -      S      55           -
LGA    -       -      D      56           -
LGA    -       -      A      57           -
LGA    -       -      D      58           -
LGA    F      54      A      59          4.687
LGA    S      55      Y      60          3.042
LGA    -       -      H      61           -
LGA    -       -      L      62           -
LGA    D      56      D      63          1.347
LGA    A      57      Q      64          0.489
LGA    D      58      A      65          1.608
LGA    A      59      F      66          1.061
LGA    Y      60      P      67          2.177
LGA    H      61      L      68          2.201
LGA    L      62      L      69          1.004
LGA    D      63      M      70          1.963
LGA    Q      64      K      71          2.427
LGA    A      65      Q      72          1.322
LGA    F      66      L      73          1.666
LGA    P      67      E      74          1.894
LGA    L      68      L      75          0.876
LGA    L      69      M      76          1.307
LGA    M      70      L      77          1.496
LGA    K      71      T      78          0.975
LGA    Q      72      S      79          1.043
LGA    L      73      G      80          1.546
LGA    E      74      -       -           -
LGA    L      75      -       -           -
LGA    M      76      -       -           -
LGA    L      77      E      81           #
LGA    T      78      L      82           -
LGA    S      79      -       -           -
LGA    G      80      -       -           -
LGA    E      81      -       -           -
LGA    L      82      -       -           -
LGA    N      83      -       -           -
LGA    P      84      -       -           -
LGA    R      85      -       -           -
LGA    H      86      -       -           -
LGA    Q      87      N      83          5.870
LGA    -       -      P      84           -
LGA    H      88      R      85          1.523
LGA    T      89      H      86          3.230
LGA    V      90      Q      87          2.650
LGA    T      91      H      88           #
LGA    L      92      T      89           #
LGA    Y      93      V      90           -
LGA    A      94      T      91           -
LGA    K      95      L      92           -
LGA    G      96      Y      93           -
LGA    L      97      A      94           -
LGA    -       -      K      95           -
LGA    -       -      G      96           -
LGA    -       -      L      97           -
LGA    -       -      T      98           -
LGA    -       -      C      99           -
LGA    T      98      K     100           #
LGA    C      99      A     101           #
LGA    -       -      D     102           -
LGA    K     100      T     103          4.083
LGA    A     101      L     104           #
LGA    -       -      S     105           -
LGA    -       -      S     106           -
LGA    -       -      C     107           -
LGA    D     102      D     108          2.343
LGA    T     103      Y     109          1.344
LGA    L     104      V     110          1.458
LGA    S     105      -       -           -
LGA    S     106      -       -           -
LGA    C     107      -       -           -
LGA    D     108      Y     111           #
LGA    Y     109      L     112          2.993
LGA    V     110      A     113           #
LGA    Y     111      V     114           -
LGA    L     112      Y     115           -
LGA    A     113      P     116           -
LGA    V     114      T     117           -
LGA    Y     115      P     118           -
LGA    P     116      E     119           -
LGA    T     117      M     120           -
LGA    P     118      K     121           -
LGA    E     119      N     122           -
LGA    M     120      -       -           -
LGA    K     121      -       -           -
LGA    N     122      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  122  107    5.0     38    3.00    10.53     24.654     1.225

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.847573 * X  +  -0.317885 * Y  +   0.424934 * Z  +  45.075638
  Y_new =   0.380670 * X  +  -0.922097 * Y  +   0.069483 * Z  +  32.047741
  Z_new =   0.369743 * X  +   0.220652 * Y  +   0.902554 * Z  +  42.962132 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.239772   -2.901821  [ DEG:    13.7379   -166.2621 ]
  Theta =  -0.378732   -2.762861  [ DEG:   -21.6997   -158.3003 ]
  Phi   =   2.719463   -0.422130  [ DEG:   155.8137    -24.1863 ]
 
# 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: T0304TS599_1                                  
REMARK     2: T0304.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0304TS599_1.T0304.pdb -4 -ie -o1 -sia -d:55A/ 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  122  107   5.0   38   3.00   10.53  24.654
REMARK  ---------------------------------------------------------- 
MOLECULE T0304TS599_1
PFRMAT TS                                                                       
TARGET T0304                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      37.714  30.247  29.099  1.00  0.00              
ATOM      2  CA  SER     2      35.802  32.260  26.520  1.00  0.00              
ATOM      3  CA  ASP     3      32.417  32.188  25.301  1.00  0.00              
ATOM      4  CA  THR     4      33.178  30.803  29.198  1.00  0.00              
ATOM      5  CA  LEU     5      33.063  34.340  30.486  1.00  0.00              
ATOM      6  CA  PRO     6      36.313  34.560  32.495  1.00  0.00              
ATOM      7  CA  GLY     7      37.399  38.025  31.367  1.00  0.00              
ATOM      8  CA  THR     8      37.879  39.560  34.825  1.00  0.00              
ATOM      9  CA  THR     9      40.899  41.789  34.326  1.00  0.00              
ATOM     10  CA  LEU    10      42.735  42.596  37.561  1.00  0.00              
ATOM     11  CA  PRO    11      42.891  46.209  38.591  1.00  0.00              
ATOM     12  CA  ASP    12      46.304  47.710  39.011  1.00  0.00              
ATOM     13  CA  ASP    13      45.708  49.258  42.469  1.00  0.00              
ATOM     14  CA  ASN    14      49.224  50.343  43.270  1.00  0.00              
ATOM     15  CA  HIS    15      49.983  47.950  46.176  1.00  0.00              
ATOM     16  CA  ASP    16      53.083  46.022  45.300  1.00  0.00              
ATOM     17  CA  ARG    17      51.757  43.469  42.864  1.00  0.00              
ATOM     18  CA  PRO    18      52.061  40.263  44.966  1.00  0.00              
ATOM     19  CA  TRP    19      49.365  38.229  43.290  1.00  0.00              
ATOM     20  CA  TRP    20      51.143  34.989  42.606  1.00  0.00              
ATOM     21  CA  GLY    21      50.035  33.681  39.378  1.00  0.00              
ATOM     22  CA  LEU    22      50.734  29.904  39.441  1.00  0.00              
ATOM     23  CA  PRO    23      48.538  27.937  37.118  1.00  0.00              
ATOM     24  CA  CYS    24      46.047  25.740  38.855  1.00  0.00              
ATOM     25  CA  THR    25      45.991  22.182  37.851  1.00  0.00              
ATOM     26  CA  VAL    26      43.218  20.092  39.431  1.00  0.00              
ATOM     27  CA  THR    27      44.092  16.571  40.731  1.00  0.00              
ATOM     28  CA  PRO    28      41.243  14.566  42.305  1.00  0.00              
ATOM     29  CA  CYS    29      42.656  14.146  45.812  1.00  0.00              
ATOM     30  CA  PHE    30      43.434  17.889  45.993  1.00  0.00              
ATOM     31  CA  GLY    31      40.183  19.227  44.485  1.00  0.00              
ATOM     32  CA  ALA    32      38.018  17.396  47.033  1.00  0.00              
ATOM     33  CA  ARG    33      40.252  18.844  49.753  1.00  0.00              
ATOM     34  CA  LEU    34      39.712  22.385  48.423  1.00  0.00              
ATOM     35  CA  VAL    35      35.905  21.925  48.346  1.00  0.00              
ATOM     36  CA  GLN    36      35.995  20.559  51.831  1.00  0.00              
ATOM     37  CA  GLU    37      38.116  23.443  53.230  1.00  0.00              
ATOM     38  CA  GLY    38      35.948  26.145  51.738  1.00  0.00              
ATOM     39  CA  ASN    39      38.360  27.523  49.195  1.00  0.00              
ATOM     40  CA  ARG    40      36.410  28.245  46.092  1.00  0.00              
ATOM     41  CA  LEU    41      38.119  27.449  42.825  1.00  0.00              
ATOM     42  CA  HIS    42      36.084  29.087  40.177  1.00  0.00              
ATOM     43  CA  TYR    43      34.674  29.499  36.752  1.00  0.00              
ATOM     44  CA  LEU    44      37.712  28.717  34.514  1.00  0.00              
ATOM     45  CA  ALA    45      38.483  25.721  36.778  1.00  0.00              
ATOM     46  CA  ASP    46      34.981  24.276  36.232  1.00  0.00              
ATOM     47  CA  ARG    47      35.073  24.542  32.448  1.00  0.00              
ATOM     48  CA  ALA    48      38.377  22.685  32.318  1.00  0.00              
ATOM     49  CA  GLY    49      37.296  19.865  34.621  1.00  0.00              
ATOM     50  CA  ILE    50      39.450  20.199  37.728  1.00  0.00              
ATOM     51  CA  ARG    51      40.958  16.757  37.985  1.00  0.00              
ATOM     52  CA  GLY    52      41.797  16.580  34.287  1.00  0.00              
ATOM     53  CA  LEU    53      43.163  19.924  33.377  1.00  0.00              
ATOM     54  CA  PHE    54      46.820  19.653  34.073  1.00  0.00              
ATOM     55  CA  SER    55      49.038  17.257  32.245  1.00  0.00              
ATOM     56  CA  ASP    56      51.446  15.667  34.719  1.00  0.00              
ATOM     57  CA  ALA    57      54.435  17.432  33.134  1.00  0.00              
ATOM     58  CA  ASP    58      52.779  20.834  33.543  1.00  0.00              
ATOM     59  CA  ALA    59      52.046  19.946  37.219  1.00  0.00              
ATOM     60  CA  TYR    60      55.801  19.345  37.726  1.00  0.00              
ATOM     61  CA  HIS    61      56.527  22.760  36.113  1.00  0.00              
ATOM     62  CA  LEU    62      53.897  24.480  38.287  1.00  0.00              
ATOM     63  CA  ASP    63      55.331  22.794  41.411  1.00  0.00              
ATOM     64  CA  GLN    64      58.700  24.315  40.631  1.00  0.00              
ATOM     65  CA  ALA    65      57.265  27.836  40.153  1.00  0.00              
ATOM     66  CA  PHE    66      55.162  27.681  43.271  1.00  0.00              
ATOM     67  CA  PRO    67      57.927  27.073  45.743  1.00  0.00              
ATOM     68  CA  LEU    68      59.680  30.269  44.515  1.00  0.00              
ATOM     69  CA  LEU    69      56.538  32.315  44.552  1.00  0.00              
ATOM     70  CA  MET    70      55.548  31.354  48.072  1.00  0.00              
ATOM     71  CA  LYS    71      59.002  32.144  49.382  1.00  0.00              
ATOM     72  CA  GLN    72      58.978  35.577  47.716  1.00  0.00              
ATOM     73  CA  LEU    73      55.535  36.292  49.093  1.00  0.00              
ATOM     74  CA  GLU    74      56.687  35.295  52.622  1.00  0.00              
ATOM     75  CA  LEU    75      59.728  37.566  52.398  1.00  0.00              
ATOM     76  CA  MET    76      57.446  40.447  51.315  1.00  0.00              
ATOM     77  CA  LEU    77      55.014  39.786  54.158  1.00  0.00              
ATOM     78  CA  THR    78      57.697  39.734  56.851  1.00  0.00              
ATOM     79  CA  SER    79      59.160  43.025  55.531  1.00  0.00              
ATOM     80  CA  GLY    80      55.998  45.055  55.401  1.00  0.00              
ATOM     81  CA  GLU    81      56.160  45.822  51.718  1.00  0.00              
ATOM     82  CA  LEU    82      52.731  44.543  50.937  1.00  0.00              
ATOM     83  CA  ASN    83      49.642  46.077  52.065  1.00  0.00              
ATOM     84  CA  PRO    84      46.766  45.716  54.328  1.00  0.00              
ATOM     85  CA  ARG    85      44.428  44.131  51.856  1.00  0.00              
ATOM     86  CA  HIS    86      46.968  41.449  50.768  1.00  0.00              
ATOM     87  CA  GLN    87      48.012  40.138  54.140  1.00  0.00              
ATOM     88  CA  HIS    88      47.528  36.471  53.568  1.00  0.00              
ATOM     89  CA  THR    89      44.263  36.483  51.547  1.00  0.00              
ATOM     90  CA  VAL    90      44.225  35.702  47.879  1.00  0.00              
ATOM     91  CA  THR    91      41.313  36.847  45.766  1.00  0.00              
ATOM     92  CA  LEU    92      40.542  35.174  42.620  1.00  0.00              
ATOM     93  CA  TYR    93      38.354  36.963  40.148  1.00  0.00              
ATOM     94  CA  ALA    94      36.410  34.943  37.545  1.00  0.00              
ATOM     95  CA  LYS    95      33.350  34.104  39.668  1.00  0.00              
ATOM     96  CA  GLY    96      34.532  34.892  43.134  1.00  0.00              
ATOM     97  CA  LEU    97      37.082  32.551  44.584  1.00  0.00              
ATOM     98  CA  THR    98      38.686  33.266  47.903  1.00  0.00              
ATOM     99  CA  CYS    99      41.949  31.695  48.820  1.00  0.00              
ATOM    100  CA  LYS   100      43.242  31.921  52.364  1.00  0.00              
ATOM    101  CA  ALA   101      47.038  32.285  52.555  1.00  0.00              
ATOM    102  CA  ASP   102      47.995  29.058  54.193  1.00  0.00              
ATOM    103  CA  THR   103      45.583  26.525  52.664  1.00  0.00              
ATOM    104  CA  LEU   104      46.038  27.515  49.018  1.00  0.00              
ATOM    105  CA  SER   105      49.821  27.477  49.396  1.00  0.00              
ATOM    106  CA  SER   106      50.023  24.052  51.029  1.00  0.00              
ATOM    107  CA  CYS   107      47.833  22.505  48.389  1.00  0.00              
ATOM    108  CA  ASP   108      49.419  23.794  45.249  1.00  0.00              
ATOM    109  CA  TYR   109      47.094  26.679  44.386  1.00  0.00              
ATOM    110  CA  VAL   110      47.928  29.898  42.508  1.00  0.00              
ATOM    111  CA  TYR   111      46.381  33.175  43.821  1.00  0.00              
ATOM    112  CA  LEU   112      45.118  35.896  41.572  1.00  0.00              
ATOM    113  CA  ALA   113      44.183  39.161  43.115  1.00  0.00              
ATOM    114  CA  VAL   114      41.383  41.198  41.612  1.00  0.00              
ATOM    115  CA  TYR   115      40.945  44.863  42.622  1.00  0.00              
ATOM    116  CA  PRO   116      37.667  46.632  42.057  1.00  0.00              
ATOM    117  CA  THR   117      38.074  49.781  40.054  1.00  0.00              
ATOM    118  CA  PRO   118      36.295  52.319  42.170  1.00  0.00              
ATOM    119  CA  GLU   119      33.954  53.765  39.490  1.00  0.00              
ATOM    120  CA  MET   120      32.971  49.913  38.131  1.00  0.00              
ATOM    121  CA  LYS   121      32.999  45.887  39.333  1.00  0.00              
ATOM    122  CA  ASN   122      30.146  48.112  39.978  1.00  0.00              
TER                                                                             
END
