
#######################################################
#                                                     #
#                        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_5
# Molecule2: number of CA atoms  107 (  848),  selected  107 , name T0304.pdb
# PARAMETERS: T0304TS599_5.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    -       -      R      17           -
LGA    -       -      P      18           -
LGA    -       -      W      19           -
LGA    S       2      W      20           #
LGA    D       3      -       -           -
LGA    T       4      -       -           -
LGA    L       5      -       -           -
LGA    P       6      G      21           #
LGA    G       7      L      22           #
LGA    T       8      P      23          3.307
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      C      24           #
LGA    L      22      T      25          4.756
LGA    P      23      V      26          3.413
LGA    C      24      T      27          2.544
LGA    T      25      P      28          1.141
LGA    V      26      C      29          4.029
LGA    T      27      F      30          3.488
LGA    P      28      -       -           -
LGA    C      29      -       -           -
LGA    F      30      G      31          2.192
LGA    G      31      A      32          5.289
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    -       -      A      45           -
LGA    A      32      D      46          5.083
LGA    R      33      R      47          3.648
LGA    L      34      A      48          4.909
LGA    V      35      -       -           -
LGA    Q      36      -       -           -
LGA    E      37      -       -           -
LGA    G      38      -       -           -
LGA    N      39      -       -           -
LGA    R      40      G      49           #
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      -       -           -
LGA    I      50      -       -           -
LGA    R      51      I      50          4.478
LGA    G      52      R      51           #
LGA    -       -      G      52           -
LGA    L      53      L      53          1.037
LGA    F      54      F      54          1.152
LGA    S      55      S      55          1.254
LGA    D      56      D      56          1.194
LGA    A      57      A      57          0.721
LGA    D      58      D      58          0.716
LGA    A      59      A      59          0.649
LGA    Y      60      Y      60          1.142
LGA    H      61      H      61          1.540
LGA    L      62      L      62          1.707
LGA    D      63      D      63          2.056
LGA    Q      64      Q      64          2.752
LGA    A      65      A      65          2.933
LGA    F      66      F      66          2.738
LGA    P      67      P      67          2.046
LGA    L      68      L      68          1.226
LGA    L      69      L      69          1.695
LGA    M      70      M      70          1.077
LGA    K      71      K      71          0.370
LGA    Q      72      Q      72          1.241
LGA    L      73      L      73          1.740
LGA    E      74      E      74          1.584
LGA    L      75      L      75          2.521
LGA    M      76      M      76          3.136
LGA    L      77      L      77          2.591
LGA    T      78      T      78          3.445
LGA    S      79      -       -           -
LGA    G      80      -       -           -
LGA    E      81      S      79          1.316
LGA    L      82      G      80          0.272
LGA    N      83      E      81           #
LGA    P      84      L      82           -
LGA    R      85      -       -           -
LGA    H      86      N      83          2.726
LGA    Q      87      -       -           -
LGA    H      88      -       -           -
LGA    T      89      -       -           -
LGA    V      90      P      84           #
LGA    T      91      R      85           -
LGA    -       -      H      86           -
LGA    -       -      Q      87           -
LGA    -       -      H      88           -
LGA    -       -      T      89           -
LGA    L      92      V      90           #
LGA    -       -      T      91           -
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    Y      93      K     100          3.299
LGA    A      94      A     101           #
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    L      97      -       -           -
LGA    T      98      D     102           #
LGA    C      99      T     103           -
LGA    K     100      -       -           -
LGA    A     101      -       -           -
LGA    D     102      -       -           -
LGA    T     103      L     104           #
LGA    L     104      S     105          3.846
LGA    S     105      -       -           -
LGA    S     106      -       -           -
LGA    C     107      -       -           -
LGA    D     108      -       -           -
LGA    Y     109      -       -           -
LGA    V     110      S     106           #
LGA    Y     111      C     107           -
LGA    -       -      D     108           -
LGA    -       -      Y     109           -
LGA    -       -      V     110           -
LGA    L     112      Y     111           #
LGA    A     113      L     112           #
LGA    V     114      A     113           -
LGA    Y     115      V     114           #
LGA    P     116      -       -           -
LGA    T     117      Y     115           #
LGA    -       -      P     116           -
LGA    P     118      T     117          4.801
LGA    -       -      P     118           -
LGA    E     119      E     119           #
LGA    M     120      M     120           -
LGA    K     121      K     121           -
LGA    N     122      N     122           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  122  107    5.0     45    2.78    60.00     29.701     1.561

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.864519 * X  +  -0.322826 * Y  +   0.385216 * Z  +  43.262936
  Y_new =  -0.041241 * X  +  -0.809424 * Y  +  -0.585775 * Z  +  27.643940
  Z_new =   0.500906 * X  +   0.490526 * Y  +  -0.713076 * Z  +  41.110901 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.539032   -0.602560  [ DEG:   145.4758    -34.5242 ]
  Theta =  -0.524645   -2.616947  [ DEG:   -30.0600   -149.9400 ]
  Phi   =  -0.047668    3.093925  [ DEG:    -2.7312    177.2688 ]
 
# 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_5                                  
REMARK     2: T0304.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0304TS599_5.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   45   2.78   60.00  29.701
REMARK  ---------------------------------------------------------- 
MOLECULE T0304TS599_5
PFRMAT TS                                                                       
TARGET T0304                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      44.915  28.654  47.113  1.00  0.00              
ATOM      2  CA  SER     2      41.823  28.180  49.924  1.00  0.00              
ATOM      3  CA  ASP     3      43.069  30.472  52.793  1.00  0.00              
ATOM      4  CA  THR     4      39.596  32.793  52.263  1.00  0.00              
ATOM      5  CA  LEU     5      39.981  32.760  48.533  1.00  0.00              
ATOM      6  CA  PRO     6      36.656  31.766  47.059  1.00  0.00              
ATOM      7  CA  GLY     7      36.242  34.530  44.528  1.00  0.00              
ATOM      8  CA  THR     8      34.856  32.569  41.572  1.00  0.00              
ATOM      9  CA  THR     9      31.111  32.442  41.430  1.00  0.00              
ATOM     10  CA  LEU    10      29.416  33.450  38.254  1.00  0.00              
ATOM     11  CA  PRO    11      26.080  32.055  37.681  1.00  0.00              
ATOM     12  CA  ASP    12      25.561  30.870  34.060  1.00  0.00              
ATOM     13  CA  ASP    13      21.825  30.962  33.671  1.00  0.00              
ATOM     14  CA  ASN    14      21.352  27.580  31.939  1.00  0.00              
ATOM     15  CA  HIS    15      19.522  25.911  34.804  1.00  0.00              
ATOM     16  CA  ASP    16      21.934  23.426  36.306  1.00  0.00              
ATOM     17  CA  ARG    17      22.752  24.994  39.677  1.00  0.00              
ATOM     18  CA  PRO    18      23.015  28.703  38.965  1.00  0.00              
ATOM     19  CA  TRP    19      25.995  29.774  41.139  1.00  0.00              
ATOM     20  CA  TRP    20      28.376  26.888  40.889  1.00  0.00              
ATOM     21  CA  GLY    21      31.643  28.230  39.588  1.00  0.00              
ATOM     22  CA  LEU    22      33.840  25.367  38.512  1.00  0.00              
ATOM     23  CA  PRO    23      35.467  25.476  35.137  1.00  0.00              
ATOM     24  CA  CYS    24      34.133  22.737  32.850  1.00  0.00              
ATOM     25  CA  THR    25      37.389  20.990  31.928  1.00  0.00              
ATOM     26  CA  VAL    26      38.629  19.163  35.045  1.00  0.00              
ATOM     27  CA  THR    27      42.335  18.716  35.590  1.00  0.00              
ATOM     28  CA  PRO    28      43.415  16.571  38.473  1.00  0.00              
ATOM     29  CA  CYS    29      45.713  18.956  40.344  1.00  0.00              
ATOM     30  CA  PHE    30      42.996  21.634  40.406  1.00  0.00              
ATOM     31  CA  GLY    31      40.025  19.383  41.165  1.00  0.00              
ATOM     32  CA  ALA    32      41.546  17.538  44.164  1.00  0.00              
ATOM     33  CA  ARG    33      42.544  20.815  45.714  1.00  0.00              
ATOM     34  CA  LEU    34      39.012  22.220  45.329  1.00  0.00              
ATOM     35  CA  VAL    35      37.386  19.145  46.901  1.00  0.00              
ATOM     36  CA  GLN    36      39.864  19.196  49.788  1.00  0.00              
ATOM     37  CA  GLU    37      39.253  22.913  50.554  1.00  0.00              
ATOM     38  CA  GLY    38      35.472  22.498  50.597  1.00  0.00              
ATOM     39  CA  ASN    39      34.693  24.220  47.370  1.00  0.00              
ATOM     40  CA  ARG    40      31.822  22.528  45.599  1.00  0.00              
ATOM     41  CA  LEU    41      32.378  22.791  41.902  1.00  0.00              
ATOM     42  CA  HIS    42      29.154  22.444  40.128  1.00  0.00              
ATOM     43  CA  TYR    43      26.759  21.385  37.548  1.00  0.00              
ATOM     44  CA  LEU    44      28.927  21.247  34.392  1.00  0.00              
ATOM     45  CA  ALA    45      31.744  19.733  36.447  1.00  0.00              
ATOM     46  CA  ASP    46      29.468  16.828  37.469  1.00  0.00              
ATOM     47  CA  ARG    47      27.981  15.791  34.156  1.00  0.00              
ATOM     48  CA  ALA    48      31.242  15.499  32.285  1.00  0.00              
ATOM     49  CA  GLY    49      33.059  13.776  35.180  1.00  0.00              
ATOM     50  CA  ILE    50      35.556  16.393  36.289  1.00  0.00              
ATOM     51  CA  ARG    51      38.706  14.228  35.836  1.00  0.00              
ATOM     52  CA  GLY    52      37.498  13.203  32.433  1.00  0.00              
ATOM     53  CA  LEU    53      36.407  16.222  30.502  1.00  0.00              
ATOM     54  CA  PHE    54      39.703  17.552  29.247  1.00  0.00              
ATOM     55  CA  SER    55      41.508  15.929  26.418  1.00  0.00              
ATOM     56  CA  ASP    56      44.644  13.945  27.245  1.00  0.00              
ATOM     57  CA  ALA    57      46.929  16.541  25.647  1.00  0.00              
ATOM     58  CA  ASP    58      45.441  19.283  27.819  1.00  0.00              
ATOM     59  CA  ALA    59      45.965  17.157  30.915  1.00  0.00              
ATOM     60  CA  TYR    60      49.645  16.691  30.038  1.00  0.00              
ATOM     61  CA  HIS    61      50.053  20.434  29.521  1.00  0.00              
ATOM     62  CA  LEU    62      48.348  21.298  32.826  1.00  0.00              
ATOM     63  CA  ASP    63      50.358  18.714  34.758  1.00  0.00              
ATOM     64  CA  GLN    64      53.580  20.118  33.446  1.00  0.00              
ATOM     65  CA  ALA    65      52.641  23.635  34.356  1.00  0.00              
ATOM     66  CA  PHE    66      51.253  22.957  37.861  1.00  0.00              
ATOM     67  CA  PRO    67      54.317  21.252  39.182  1.00  0.00              
ATOM     68  CA  LEU    68      56.472  24.140  37.911  1.00  0.00              
ATOM     69  CA  LEU    69      54.141  26.709  39.469  1.00  0.00              
ATOM     70  CA  MET    70      54.107  24.941  42.866  1.00  0.00              
ATOM     71  CA  LYS    71      57.868  24.762  42.803  1.00  0.00              
ATOM     72  CA  GLN    72      58.067  28.489  42.060  1.00  0.00              
ATOM     73  CA  LEU    73      55.689  29.283  44.948  1.00  0.00              
ATOM     74  CA  GLU    74      57.741  27.113  47.314  1.00  0.00              
ATOM     75  CA  LEU    75      60.903  28.896  46.232  1.00  0.00              
ATOM     76  CA  MET    76      59.293  32.313  46.787  1.00  0.00              
ATOM     77  CA  LEU    77      58.090  31.521  50.234  1.00  0.00              
ATOM     78  CA  THR    78      61.469  30.153  51.398  1.00  0.00              
ATOM     79  CA  SER    79      63.420  33.016  49.966  1.00  0.00              
ATOM     80  CA  GLY    80      61.624  35.997  51.332  1.00  0.00              
ATOM     81  CA  GLU    81      60.301  37.166  47.955  1.00  0.00              
ATOM     82  CA  LEU    82      56.856  37.468  49.383  1.00  0.00              
ATOM     83  CA  ASN    83      57.037  39.705  52.395  1.00  0.00              
ATOM     84  CA  PRO    84      56.426  39.241  56.067  1.00  0.00              
ATOM     85  CA  ARG    85      52.737  40.086  56.010  1.00  0.00              
ATOM     86  CA  HIS    86      52.251  37.478  53.247  1.00  0.00              
ATOM     87  CA  GLN    87      54.096  34.544  54.904  1.00  0.00              
ATOM     88  CA  HIS    88      51.038  32.281  54.380  1.00  0.00              
ATOM     89  CA  THR    89      50.997  33.121  50.613  1.00  0.00              
ATOM     90  CA  VAL    90      48.855  31.227  48.348  1.00  0.00              
ATOM     91  CA  THR    91      49.791  30.728  44.733  1.00  0.00              
ATOM     92  CA  LEU    92      47.117  30.097  42.161  1.00  0.00              
ATOM     93  CA  TYR    93      48.156  28.782  38.814  1.00  0.00              
ATOM     94  CA  ALA    94      45.985  27.478  36.148  1.00  0.00              
ATOM     95  CA  LYS    95      43.205  30.019  36.226  1.00  0.00              
ATOM     96  CA  GLY    96      45.220  33.122  36.870  1.00  0.00              
ATOM     97  CA  LEU    97      43.861  34.215  40.195  1.00  0.00              
ATOM     98  CA  THR    98      45.080  37.551  41.579  1.00  0.00              
ATOM     99  CA  CYS    99      44.432  38.567  45.077  1.00  0.00              
ATOM    100  CA  LYS   100      43.986  42.066  46.067  1.00  0.00              
ATOM    101  CA  ALA   101      45.874  43.509  48.959  1.00  0.00              
ATOM    102  CA  ASP   102      42.973  44.555  51.167  1.00  0.00              
ATOM    103  CA  THR   103      41.016  41.248  51.066  1.00  0.00              
ATOM    104  CA  LEU   104      44.041  39.003  51.415  1.00  0.00              
ATOM    105  CA  SER   105      45.241  41.074  54.382  1.00  0.00              
ATOM    106  CA  SER   106      42.092  41.255  56.506  1.00  0.00              
ATOM    107  CA  CYS   107      41.774  37.479  56.768  1.00  0.00              
ATOM    108  CA  ASP   108      45.554  36.815  56.766  1.00  0.00              
ATOM    109  CA  TYR   109      46.100  35.281  53.385  1.00  0.00              
ATOM    110  CA  VAL   110      47.912  36.638  50.325  1.00  0.00              
ATOM    111  CA  TYR   111      46.877  35.302  46.983  1.00  0.00              
ATOM    112  CA  LEU   112      49.213  35.428  44.044  1.00  0.00              
ATOM    113  CA  ALA   113      47.963  34.669  40.695  1.00  0.00              
ATOM    114  CA  VAL   114      50.290  33.050  38.094  1.00  0.00              
ATOM    115  CA  TYR   115      48.694  31.734  34.934  1.00  0.00              
ATOM    116  CA  PRO   116      50.152  29.229  32.553  1.00  0.00              
ATOM    117  CA  THR   117      50.564  30.629  29.057  1.00  0.00              
ATOM    118  CA  PRO   118      48.878  27.926  26.981  1.00  0.00              
ATOM    119  CA  GLU   119      51.677  27.445  24.410  1.00  0.00              
ATOM    120  CA  MET   120      51.956  31.592  23.786  1.00  0.00              
ATOM    121  CA  LYS   121      55.485  31.059  24.258  1.00  0.00              
ATOM    122  CA  ASN   122      52.915  33.251  23.010  1.00  0.00              
TER                                                                             
END
