
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms  107 (  848),  selected  107 , name T0304.pdb
# PARAMETERS: T0304TS599_2.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      -       -           -
LGA    P       6      -       -           -
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      W      20           #
LGA    G      21      G      21           #
LGA    -       -      L      22           -
LGA    -       -      P      23           -
LGA    L      22      C      24          1.137
LGA    P      23      T      25          3.958
LGA    C      24      V      26          1.393
LGA    T      25      T      27          1.879
LGA    V      26      P      28          2.240
LGA    T      27      C      29          3.741
LGA    P      28      -       -           -
LGA    C      29      -       -           -
LGA    F      30      -       -           -
LGA    G      31      F      30          2.051
LGA    A      32      -       -           -
LGA    R      33      G      31          4.472
LGA    L      34      A      32          3.438
LGA    V      35      R      33          3.694
LGA    Q      36      L      34          3.670
LGA    E      37      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    -       -      A      45           -
LGA    -       -      D      46           -
LGA    G      38      R      47           #
LGA    N      39      A      48           -
LGA    R      40      -       -           -
LGA    L      41      -       -           -
LGA    H      42      -       -           -
LGA    Y      43      -       -           -
LGA    L      44      -       -           -
LGA    A      45      -       -           -
LGA    D      46      G      49           #
LGA    R      47      -       -           -
LGA    A      48      -       -           -
LGA    G      49      I      50           #
LGA    I      50      R      51          1.506
LGA    R      51      -       -           -
LGA    G      52      G      52          4.098
LGA    L      53      L      53          2.004
LGA    F      54      F      54          1.413
LGA    S      55      S      55          1.251
LGA    D      56      D      56          1.681
LGA    A      57      A      57          1.292
LGA    D      58      D      58          0.831
LGA    A      59      A      59          1.157
LGA    Y      60      Y      60          1.265
LGA    H      61      H      61          0.924
LGA    L      62      L      62          1.772
LGA    D      63      D      63          2.308
LGA    Q      64      Q      64          1.892
LGA    A      65      A      65          1.996
LGA    F      66      F      66          2.662
LGA    P      67      P      67          1.661
LGA    L      68      L      68          1.004
LGA    L      69      L      69          2.296
LGA    M      70      M      70          1.519
LGA    K      71      K      71          2.331
LGA    Q      72      Q      72          4.292
LGA    L      73      L      73          4.579
LGA    E      74      E      74          3.936
LGA    L      75      -       -           -
LGA    M      76      -       -           -
LGA    L      77      L      75          4.372
LGA    T      78      M      76           -
LGA    S      79      L      77           -
LGA    G      80      -       -           -
LGA    E      81      T      78           #
LGA    L      82      S      79          1.204
LGA    N      83      -       -           -
LGA    P      84      -       -           -
LGA    R      85      -       -           -
LGA    H      86      G      80          1.885
LGA    Q      87      E      81           #
LGA    H      88      L      82          2.075
LGA    T      89      N      83          3.263
LGA    -       -      P      84           -
LGA    -       -      R      85           -
LGA    V      90      H      86           #
LGA    T      91      Q      87          4.076
LGA    L      92      H      88          5.001
LGA    Y      93      -       -           -
LGA    A      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    L      97      -       -           -
LGA    T      98      -       -           -
LGA    C      99      -       -           -
LGA    K     100      -       -           -
LGA    A     101      -       -           -
LGA    D     102      -       -           -
LGA    T     103      -       -           -
LGA    L     104      -       -           -
LGA    S     105      -       -           -
LGA    S     106      -       -           -
LGA    C     107      -       -           -
LGA    D     108      -       -           -
LGA    Y     109      T      89           #
LGA    V     110      V      90          1.623
LGA    Y     111      T      91          5.562
LGA    -       -      L      92           -
LGA    -       -      Y      93           -
LGA    -       -      A      94           -
LGA    -       -      K      95           -
LGA    -       -      G      96           -
LGA    -       -      L      97           -
LGA    -       -      T      98           -
LGA    -       -      C      99           -
LGA    -       -      K     100           -
LGA    -       -      A     101           -
LGA    L     112      D     102           #
LGA    A     113      T     103           -
LGA    V     114      L     104           -
LGA    Y     115      S     105           -
LGA    P     116      S     106           -
LGA    T     117      C     107           -
LGA    P     118      D     108           -
LGA    E     119      Y     109           -
LGA    M     120      V     110           -
LGA    K     121      Y     111           -
LGA    N     122      L     112           -
LGA    -       -      A     113           -
LGA    -       -      V     114           -
LGA    -       -      Y     115           -
LGA    -       -      P     116           -
LGA    -       -      T     117           -
LGA    -       -      P     118           -
LGA    -       -      E     119           -
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     44    2.82    59.09     27.669     1.508

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.421234 * X  +   0.169988 * Y  +   0.890880 * Z  +  44.236805
  Y_new =  -0.839615 * X  +   0.298336 * Y  +  -0.453919 * Z  +  29.717489
  Z_new =  -0.342942 * X  +  -0.939202 * Y  +   0.017055 * Z  +  41.461765 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.552639    1.588953  [ DEG:   -88.9597     91.0403 ]
  Theta =   0.350048    2.791545  [ DEG:    20.0562    159.9438 ]
  Phi   =  -2.035802    1.105791  [ DEG:  -116.6429     63.3571 ]
 
# 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_2                                  
REMARK     2: T0304.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0304TS599_2.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   44   2.82   59.09  27.669
REMARK  ---------------------------------------------------------- 
MOLECULE T0304TS599_2
PFRMAT TS                                                                       
TARGET T0304                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      49.040  33.698  63.406  1.00  0.00              
ATOM      2  CA  SER     2      49.595  31.563  60.265  1.00  0.00              
ATOM      3  CA  ASP     3      47.355  33.930  61.796  1.00  0.00              
ATOM      4  CA  THR     4      50.319  36.373  61.555  1.00  0.00              
ATOM      5  CA  LEU     5      50.691  36.033  57.740  1.00  0.00              
ATOM      6  CA  PRO     6      47.250  36.670  56.348  1.00  0.00              
ATOM      7  CA  GLY     7      47.990  39.240  53.714  1.00  0.00              
ATOM      8  CA  THR     8      45.709  37.973  50.953  1.00  0.00              
ATOM      9  CA  THR     9      43.657  40.525  49.369  1.00  0.00              
ATOM     10  CA  LEU    10      40.170  39.596  48.302  1.00  0.00              
ATOM     11  CA  PRO    11      38.188  42.493  47.014  1.00  0.00              
ATOM     12  CA  ASP    12      34.723  43.038  48.354  1.00  0.00              
ATOM     13  CA  ASP    13      32.819  43.110  45.074  1.00  0.00              
ATOM     14  CA  ASN    14      29.420  42.059  46.280  1.00  0.00              
ATOM     15  CA  HIS    15      28.927  39.201  43.883  1.00  0.00              
ATOM     16  CA  ASP    16      27.239  36.724  46.159  1.00  0.00              
ATOM     17  CA  ARG    17      29.898  34.143  46.664  1.00  0.00              
ATOM     18  CA  PRO    18      33.061  36.084  47.083  1.00  0.00              
ATOM     19  CA  TRP    19      35.578  33.347  46.168  1.00  0.00              
ATOM     20  CA  TRP    20      34.176  32.141  42.881  1.00  0.00              
ATOM     21  CA  GLY    21      37.245  31.180  40.922  1.00  0.00              
ATOM     22  CA  LEU    22      36.492  28.403  38.458  1.00  0.00              
ATOM     23  CA  PRO    23      37.936  28.462  35.079  1.00  0.00              
ATOM     24  CA  CYS    24      35.224  27.305  32.733  1.00  0.00              
ATOM     25  CA  THR    25      37.318  24.723  30.850  1.00  0.00              
ATOM     26  CA  VAL    26      38.721  22.757  33.768  1.00  0.00              
ATOM     27  CA  THR    27      41.721  20.433  33.581  1.00  0.00              
ATOM     28  CA  PRO    28      41.857  17.884  36.447  1.00  0.00              
ATOM     29  CA  CYS    29      45.473  18.561  37.387  1.00  0.00              
ATOM     30  CA  PHE    30      44.601  22.295  37.760  1.00  0.00              
ATOM     31  CA  GLY    31      41.328  21.698  39.613  1.00  0.00              
ATOM     32  CA  ALA    32      43.135  19.816  42.408  1.00  0.00              
ATOM     33  CA  ARG    33      45.464  22.804  42.795  1.00  0.00              
ATOM     34  CA  LEU    34      42.527  25.245  43.005  1.00  0.00              
ATOM     35  CA  VAL    35      40.741  23.125  45.671  1.00  0.00              
ATOM     36  CA  GLN    36      43.951  22.897  47.604  1.00  0.00              
ATOM     37  CA  GLU    37      44.525  26.683  47.611  1.00  0.00              
ATOM     38  CA  GLY    38      41.102  27.457  48.971  1.00  0.00              
ATOM     39  CA  ASN    39      39.542  29.153  45.983  1.00  0.00              
ATOM     40  CA  ARG    40      35.974  27.946  45.649  1.00  0.00              
ATOM     41  CA  LEU    41      34.729  27.369  42.123  1.00  0.00              
ATOM     42  CA  HIS    42      31.756  25.098  42.517  1.00  0.00              
ATOM     43  CA  TYR    43      28.907  25.773  40.069  1.00  0.00              
ATOM     44  CA  LEU    44      30.963  25.844  36.843  1.00  0.00              
ATOM     45  CA  ALA    45      33.133  22.912  37.866  1.00  0.00              
ATOM     46  CA  ASP    46      30.118  20.679  38.614  1.00  0.00              
ATOM     47  CA  ARG    47      28.228  21.235  35.415  1.00  0.00              
ATOM     48  CA  ALA    48      31.149  20.179  33.279  1.00  0.00              
ATOM     49  CA  GLY    49      32.212  17.236  35.494  1.00  0.00              
ATOM     50  CA  ILE    50      35.652  18.478  36.597  1.00  0.00              
ATOM     51  CA  ARG    51      37.546  15.312  35.592  1.00  0.00              
ATOM     52  CA  GLY    52      35.726  14.788  32.284  1.00  0.00              
ATOM     53  CA  LEU    53      35.943  18.319  30.871  1.00  0.00              
ATOM     54  CA  PHE    54      39.466  18.398  29.609  1.00  0.00              
ATOM     55  CA  SER    55      40.759  16.753  26.453  1.00  0.00              
ATOM     56  CA  ASP    56      43.536  14.270  27.424  1.00  0.00              
ATOM     57  CA  ALA    57      46.289  16.408  25.894  1.00  0.00              
ATOM     58  CA  ASP    58      45.297  19.410  27.969  1.00  0.00              
ATOM     59  CA  ALA    59      45.283  17.369  31.175  1.00  0.00              
ATOM     60  CA  TYR    60      48.801  16.177  30.626  1.00  0.00              
ATOM     61  CA  HIS    61      50.093  19.698  29.765  1.00  0.00              
ATOM     62  CA  LEU    62      48.480  21.402  32.768  1.00  0.00              
ATOM     63  CA  ASP    63      49.777  18.781  35.244  1.00  0.00              
ATOM     64  CA  GLN    64      53.289  19.074  33.909  1.00  0.00              
ATOM     65  CA  ALA    65      53.341  22.874  34.077  1.00  0.00              
ATOM     66  CA  PHE    66      52.049  23.125  37.654  1.00  0.00              
ATOM     67  CA  PRO    67      54.454  20.676  39.153  1.00  0.00              
ATOM     68  CA  LEU    68      57.394  22.477  37.480  1.00  0.00              
ATOM     69  CA  LEU    69      56.150  25.856  38.717  1.00  0.00              
ATOM     70  CA  MET    70      55.634  24.632  42.247  1.00  0.00              
ATOM     71  CA  LYS    71      59.112  23.109  42.402  1.00  0.00              
ATOM     72  CA  GLN    72      60.761  26.261  41.148  1.00  0.00              
ATOM     73  CA  LEU    73      58.861  28.241  43.710  1.00  0.00              
ATOM     74  CA  GLU    74      59.915  25.853  46.521  1.00  0.00              
ATOM     75  CA  LEU    75      63.574  26.273  45.600  1.00  0.00              
ATOM     76  CA  MET    76      63.146  30.083  45.633  1.00  0.00              
ATOM     77  CA  LEU    77      61.387  29.977  49.052  1.00  0.00              
ATOM     78  CA  THR    78      64.085  27.787  50.612  1.00  0.00              
ATOM     79  CA  SER    79      66.828  30.132  49.258  1.00  0.00              
ATOM     80  CA  GLY    80      65.300  33.256  50.653  1.00  0.00              
ATOM     81  CA  GLU    81      64.328  35.001  47.482  1.00  0.00              
ATOM     82  CA  LEU    82      60.683  35.090  48.415  1.00  0.00              
ATOM     83  CA  ASN    83      60.082  36.631  51.855  1.00  0.00              
ATOM     84  CA  PRO    84      57.735  35.461  54.565  1.00  0.00              
ATOM     85  CA  ARG    85      55.023  38.095  53.908  1.00  0.00              
ATOM     86  CA  HIS    86      55.039  37.304  50.208  1.00  0.00              
ATOM     87  CA  GLN    87      54.794  33.483  50.492  1.00  0.00              
ATOM     88  CA  HIS    88      52.226  33.098  47.932  1.00  0.00              
ATOM     89  CA  THR    89      50.158  36.260  47.986  1.00  0.00              
ATOM     90  CA  VAL    90      46.700  35.971  46.618  1.00  0.00              
ATOM     91  CA  THR    91      44.938  38.921  45.091  1.00  0.00              
ATOM     92  CA  LEU    92      41.315  38.707  44.154  1.00  0.00              
ATOM     93  CA  TYR    93      40.025  41.059  41.488  1.00  0.00              
ATOM     94  CA  ALA    94      36.381  41.437  40.846  1.00  0.00              
ATOM     95  CA  LYS    95      36.244  42.267  37.200  1.00  0.00              
ATOM     96  CA  GLY    96      38.818  40.223  35.557  1.00  0.00              
ATOM     97  CA  LEU    97      42.506  39.868  36.447  1.00  0.00              
ATOM     98  CA  THR    98      43.929  36.465  35.721  1.00  0.00              
ATOM     99  CA  CYS    99      47.284  35.418  37.050  1.00  0.00              
ATOM    100  CA  LYS   100      49.256  33.094  34.848  1.00  0.00              
ATOM    101  CA  ALA   101      51.060  30.204  36.437  1.00  0.00              
ATOM    102  CA  ASP   102      54.503  31.380  35.259  1.00  0.00              
ATOM    103  CA  THR   103      54.401  35.133  36.008  1.00  0.00              
ATOM    104  CA  LEU   104      52.610  34.877  39.374  1.00  0.00              
ATOM    105  CA  SER   105      54.816  31.997  40.410  1.00  0.00              
ATOM    106  CA  SER   106      58.113  33.798  39.627  1.00  0.00              
ATOM    107  CA  CYS   107      57.229  36.922  41.636  1.00  0.00              
ATOM    108  CA  ASP   108      55.088  35.380  44.382  1.00  0.00              
ATOM    109  CA  TYR   109      51.684  36.864  43.494  1.00  0.00              
ATOM    110  CA  VAL   110      48.618  35.028  42.368  1.00  0.00              
ATOM    111  CA  TYR   111      45.903  37.011  40.712  1.00  0.00              
ATOM    112  CA  LEU   112      42.490  35.589  40.434  1.00  0.00              
ATOM    113  CA  ALA   113      39.887  37.234  38.295  1.00  0.00              
ATOM    114  CA  VAL   114      36.213  36.809  39.019  1.00  0.00              
ATOM    115  CA  TYR   115      33.667  37.366  36.210  1.00  0.00              
ATOM    116  CA  PRO   116      29.923  37.536  36.679  1.00  0.00              
ATOM    117  CA  THR   117      28.383  34.433  35.017  1.00  0.00              
ATOM    118  CA  PRO   118      25.730  36.014  32.913  1.00  0.00              
ATOM    119  CA  GLU   119      22.700  33.978  34.142  1.00  0.00              
ATOM    120  CA  MET   120      24.824  30.393  33.817  1.00  0.00              
ATOM    121  CA  LYS   121      27.439  27.528  35.412  1.00  0.00              
ATOM    122  CA  ASN   122      24.338  27.864  37.205  1.00  0.00              
TER                                                                             
END
