
#######################################################
#                                                     #
#                        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  125 (  125),  selected  125 , name T0285TS599_4
# Molecule2: number of CA atoms   99 (  800),  selected   99 , name T0285.pdb
# PARAMETERS: T0285TS599_4.T0285.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       1      S       7           -
LGA    Y       2      P       8           -
LGA    L       3      A       9           -
LGA    P       4      K      10           -
LGA    D       5      R      11           -
LGA    D       6      L      12           -
LGA    S       7      L      13           -
LGA    P       8      -       -           -
LGA    A       9      -       -           -
LGA    K      10      -       -           -
LGA    R      11      -       -           -
LGA    L      12      -       -           -
LGA    L      13      -       -           -
LGA    F      14      -       -           -
LGA    Q      15      -       -           -
LGA    M      16      -       -           -
LGA    V      17      F      14           #
LGA    G      18      Q      15           -
LGA    N      19      -       -           -
LGA    A      20      -       -           -
LGA    I      21      M      16           #
LGA    N      22      V      17           -
LGA    R      23      G      18           #
LGA    N      24      N      19          2.742
LGA    T      25      A      20          2.819
LGA    Q      26      I      21          5.058
LGA    Q      27      N      22          5.016
LGA    L      28      R      23          2.829
LGA    T      29      N      24          1.665
LGA    Q      30      -       -           -
LGA    D      31      T      25          3.894
LGA    L      32      Q      26          3.715
LGA    R      33      Q      27           #
LGA    A      34      -       -           -
LGA    M      35      -       -           -
LGA    P      36      -       -           -
LGA    N      37      -       -           -
LGA    W      38      -       -           -
LGA    S      39      -       -           -
LGA    L      40      L      28           #
LGA    -       -      T      29           -
LGA    -       -      Q      30           -
LGA    -       -      D      31           -
LGA    R      41      L      32           #
LGA    -       -      R      33           -
LGA    -       -      A      34           -
LGA    -       -      M      35           -
LGA    -       -      P      36           -
LGA    -       -      N      37           -
LGA    -       -      W      38           -
LGA    -       -      S      39           -
LGA    -       -      L      40           -
LGA    -       -      R      41           -
LGA    F      42      F      42           #
LGA    V      43      V      43          0.222
LGA    Y      44      -       -           -
LGA    I      45      -       -           -
LGA    V      46      -       -           -
LGA    D      47      -       -           -
LGA    R      48      -       -           -
LGA    N      49      -       -           -
LGA    N      50      -       -           -
LGA    Q      51      -       -           -
LGA    D      52      -       -           -
LGA    L      53      -       -           -
LGA    L      54      -       -           -
LGA    K      55      -       -           -
LGA    R      56      -       -           -
LGA    P      57      -       -           -
LGA    L      58      -       -           -
LGA    P      59      -       -           -
LGA    P      60      -       -           -
LGA    G      61      -       -           -
LGA    I      62      -       -           -
LGA    M      63      Y      44          4.824
LGA    V      64      I      45          3.632
LGA    L      65      V      46          2.861
LGA    A      66      D      47          2.472
LGA    P      67      R      48          2.479
LGA    R      68      N      49          5.095
LGA    -       -      N      50           -
LGA    -       -      Q      51           -
LGA    L      69      D      52          4.337
LGA    T      70      L      53           #
LGA    A      71      L      54          4.415
LGA    K      72      K      55          3.276
LGA    H      73      R      56          2.698
LGA    P      74      -       -           -
LGA    Y      75      -       -           -
LGA    D      76      P      57          1.961
LGA    K      77      L      58          1.191
LGA    V      78      -       -           -
LGA    Q      79      -       -           -
LGA    D      80      P      59          1.865
LGA    R      81      P      60          1.862
LGA    N      82      G      61          4.702
LGA    R      83      I      62           -
LGA    K      84      M      63           -
LGA    -       -      V      64           -
LGA    -       -      L      65           -
LGA    -       -      A      66           -
LGA    -       -      P      67           -
LGA    -       -      R      68           -
LGA    -       -      L      69           -
LGA    -       -      T      70           -
LGA    -       -      A      71           -
LGA    -       -      K      72           -
LGA    -       -      H      73           -
LGA    -       -      P      74           -
LGA    -       -      Y      75           -
LGA    -       -      D      76           -
LGA    -       -      K      77           -
LGA    -       -      V      78           -
LGA    L      85      Q      79          5.329
LGA    Y      86      D      80          2.269
LGA    -       -      R      81           -
LGA    -       -      N      82           -
LGA    G      87      R      83          1.961
LGA    R      88      K      84          3.051
LGA    H      89      L      85          1.039
LGA    I      90      Y      86          3.096
LGA    T      91      G      87          0.767
LGA    L      92      R      88          2.420
LGA    N      93      H      89          1.905
LGA    D      94      I      90          4.377
LGA    G      95      T      91          3.378
LGA    -       -      L      92           -
LGA    -       -      N      93           -
LGA    -       -      D      94           -
LGA    -       -      G      95           -
LGA    -       -      N      96           -
LGA    N      96      S      97          3.690
LGA    S      97      V      98          2.301
LGA    V      98      K      99          1.805
LGA    K      99      V     100          2.185
LGA    V     100      V     101          2.125
LGA    V     101      T     102          1.988
LGA    T     102      I     103          1.981
LGA    I     103      S     104          1.799
LGA    S     104      A     105          2.481
LGA    A     105      -       -           -
LGA    G     106      -       -           -
LGA    R     107      -       -           -
LGA    D     108      -       -           -
LGA    E     109      -       -           -
LGA    G     110      -       -           -
LGA    P     111      -       -           -
LGA    D     112      -       -           -
LGA    R     113      -       -           -
LGA    D     114      -       -           -
LGA    I     115      -       -           -
LGA    I     116      -       -           -
LGA    W     117      -       -           -
LGA    E     118      -       -           -
LGA    M     119      -       -           -
LGA    F     120      -       -           -
LGA    L     121      -       -           -
LGA    E     122      -       -           -
LGA    N     123      -       -           -
LGA    L     124      -       -           -
LGA    E     125      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  125   99    5.0     44    3.11     9.09     27.075     1.370

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.141426 * X  +  -0.844511 * Y  +  -0.516526 * Z  +  21.488935
  Y_new =   0.940633 * X  +   0.047993 * Y  +  -0.336015 * Z  +  10.562178
  Z_new =   0.308558 * X  +  -0.533383 * Y  +   0.787588 * Z  +  80.585381 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.595284    2.546308  [ DEG:   -34.1073    145.8927 ]
  Theta =  -0.313676   -2.827916  [ DEG:   -17.9723   -162.0277 ]
  Phi   =   1.720030   -1.421563  [ DEG:    98.5505    -81.4495 ]
 
# 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: T0285TS599_4                                  
REMARK     2: T0285.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0285TS599_4.T0285.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  125   99   5.0   44   3.11    9.09  27.075
REMARK  ---------------------------------------------------------- 
MOLECULE T0285TS599_4
PFRMAT TS                                                                       
TARGET T0285                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  ALA     1      24.559  30.910  76.268  1.00  0.00              
ATOM      2  CA  TYR     2      20.484  29.895  76.144  1.00  0.00              
ATOM      3  CA  LEU     3      17.085  31.843  75.539  1.00  0.00              
ATOM      4  CA  PRO     4      16.329  35.689  74.016  1.00  0.00              
ATOM      5  CA  ASP     5      14.715  34.871  70.735  1.00  0.00              
ATOM      6  CA  ASP     6      16.679  37.040  68.278  1.00  0.00              
ATOM      7  CA  SER     7      20.161  36.484  69.529  1.00  0.00              
ATOM      8  CA  PRO     8      22.575  34.270  67.654  1.00  0.00              
ATOM      9  CA  ALA     9      23.563  32.250  70.743  1.00  0.00              
ATOM     10  CA  LYS    10      20.235  30.728  71.822  1.00  0.00              
ATOM     11  CA  ARG    11      19.591  29.618  68.217  1.00  0.00              
ATOM     12  CA  LEU    12      23.054  28.222  67.364  1.00  0.00              
ATOM     13  CA  LEU    13      23.258  26.157  70.594  1.00  0.00              
ATOM     14  CA  PHE    14      19.728  24.703  70.354  1.00  0.00              
ATOM     15  CA  GLN    15      20.400  23.772  66.731  1.00  0.00              
ATOM     16  CA  MET    16      23.657  21.992  67.597  1.00  0.00              
ATOM     17  CA  VAL    17      22.058  20.050  70.462  1.00  0.00              
ATOM     18  CA  GLY    18      19.024  19.071  68.409  1.00  0.00              
ATOM     19  CA  ASN    19      21.329  17.788  65.658  1.00  0.00              
ATOM     20  CA  ALA    20      23.381  15.809  68.190  1.00  0.00              
ATOM     21  CA  ILE    21      20.427  14.081  69.860  1.00  0.00              
ATOM     22  CA  ASN    22      18.883  12.910  66.594  1.00  0.00              
ATOM     23  CA  ARG    23      22.279  11.518  65.563  1.00  0.00              
ATOM     24  CA  ASN    24      22.983   9.806  68.880  1.00  0.00              
ATOM     25  CA  THR    25      19.528   8.143  68.831  1.00  0.00              
ATOM     26  CA  GLN    26      20.453   6.722  65.474  1.00  0.00              
ATOM     27  CA  GLN    27      23.827   5.358  66.642  1.00  0.00              
ATOM     28  CA  LEU    28      22.282   3.708  69.648  1.00  0.00              
ATOM     29  CA  THR    29      19.644   2.123  67.485  1.00  0.00              
ATOM     30  CA  GLN    30      22.266   0.800  65.037  1.00  0.00              
ATOM     31  CA  ASP    31      24.386  -0.607  67.826  1.00  0.00              
ATOM     32  CA  LEU    32      21.421  -2.317  69.518  1.00  0.00              
ATOM     33  CA  ARG    33      20.321  -3.892  66.283  1.00  0.00              
ATOM     34  CA  ALA    34      23.871  -5.292  65.801  1.00  0.00              
ATOM     35  CA  MET    35      24.386  -6.762  69.261  1.00  0.00              
ATOM     36  CA  PRO    36      21.189  -8.678  69.724  1.00  0.00              
ATOM     37  CA  ASN    37      21.198  -8.993  73.544  1.00  0.00              
ATOM     38  CA  TRP    38      23.136  -5.915  74.475  1.00  0.00              
ATOM     39  CA  SER    39      21.502  -3.978  77.513  1.00  0.00              
ATOM     40  CA  LEU    40      22.642  -0.245  77.769  1.00  0.00              
ATOM     41  CA  ARG    41      22.592   1.426  80.988  1.00  0.00              
ATOM     42  CA  PHE    42      22.107   5.342  80.688  1.00  0.00              
ATOM     43  CA  VAL    43      22.899   7.623  83.734  1.00  0.00              
ATOM     44  CA  TYR    44      22.659  11.333  83.304  1.00  0.00              
ATOM     45  CA  ILE    45      24.180  13.560  85.931  1.00  0.00              
ATOM     46  CA  VAL    46      22.792  17.011  86.464  1.00  0.00              
ATOM     47  CA  ASP    47      24.596  19.611  88.604  1.00  0.00              
ATOM     48  CA  ARG    48      22.423  22.027  90.499  1.00  0.00              
ATOM     49  CA  ASN    49      22.723  24.999  88.231  1.00  0.00              
ATOM     50  CA  ASN    50      22.537  23.286  84.892  1.00  0.00              
ATOM     51  CA  GLN    51      19.534  21.090  85.263  1.00  0.00              
ATOM     52  CA  ASP    52      17.226  23.050  82.990  1.00  0.00              
ATOM     53  CA  LEU    53      19.587  23.327  80.080  1.00  0.00              
ATOM     54  CA  LEU    54      20.355  19.590  80.173  1.00  0.00              
ATOM     55  CA  LYS    55      16.639  18.633  80.355  1.00  0.00              
ATOM     56  CA  ARG    56      15.561  20.950  77.683  1.00  0.00              
ATOM     57  CA  PRO    57      17.763  20.100  74.782  1.00  0.00              
ATOM     58  CA  LEU    58      18.522  16.361  75.320  1.00  0.00              
ATOM     59  CA  PRO    59      21.507  15.784  77.502  1.00  0.00              
ATOM     60  CA  PRO    60      24.593  14.290  75.843  1.00  0.00              
ATOM     61  CA  GLY    61      24.961  12.154  78.967  1.00  0.00              
ATOM     62  CA  ILE    62      21.646  10.418  78.438  1.00  0.00              
ATOM     63  CA  MET    63      21.491   6.529  79.001  1.00  0.00              
ATOM     64  CA  VAL    64      19.249   4.338  76.644  1.00  0.00              
ATOM     65  CA  LEU    65      18.148   1.101  78.077  1.00  0.00              
ATOM     66  CA  ALA    66      17.323  -1.783  75.780  1.00  0.00              
ATOM     67  CA  PRO    67      15.653  -4.911  77.153  1.00  0.00              
ATOM     68  CA  ARG    68      18.700  -7.141  76.917  1.00  0.00              
ATOM     69  CA  LEU    69      21.347  -4.740  78.601  1.00  0.00              
ATOM     70  CA  THR    70      23.204  -7.034  81.250  1.00  0.00              
ATOM     71  CA  ALA    71      26.891  -6.545  81.798  1.00  0.00              
ATOM     72  CA  LYS    72      26.296  -5.637  85.497  1.00  0.00              
ATOM     73  CA  HIS    73      22.902  -3.985  85.084  1.00  0.00              
ATOM     74  CA  PRO    74      20.048  -5.886  86.622  1.00  0.00              
ATOM     75  CA  TYR    75      21.236  -6.050  90.265  1.00  0.00              
ATOM     76  CA  ASP    76      22.445  -2.458  90.159  1.00  0.00              
ATOM     77  CA  LYS    77      19.072  -1.080  88.998  1.00  0.00              
ATOM     78  CA  VAL    78      17.036  -2.878  91.685  1.00  0.00              
ATOM     79  CA  GLN    79      19.275  -1.707  94.558  1.00  0.00              
ATOM     80  CA  ASP    80      19.439   1.924  93.400  1.00  0.00              
ATOM     81  CA  ARG    81      15.716   2.240  92.990  1.00  0.00              
ATOM     82  CA  ASN    82      14.797   1.429  96.536  1.00  0.00              
ATOM     83  CA  ARG    83      17.308   3.642  98.224  1.00  0.00              
ATOM     84  CA  LYS    84      16.890   6.862  96.172  1.00  0.00              
ATOM     85  CA  LEU    85      13.165   6.986  95.799  1.00  0.00              
ATOM     86  CA  TYR    86      12.099  10.661  96.180  1.00  0.00              
ATOM     87  CA  GLY    87      15.215  12.256  94.709  1.00  0.00              
ATOM     88  CA  ARG    88      16.020  10.141  91.733  1.00  0.00              
ATOM     89  CA  HIS    89      14.547  11.210  88.464  1.00  0.00              
ATOM     90  CA  ILE    90      13.434   8.573  86.054  1.00  0.00              
ATOM     91  CA  THR    91      12.800   9.494  82.492  1.00  0.00              
ATOM     92  CA  LEU    92      10.868   7.154  80.305  1.00  0.00              
ATOM     93  CA  ASN    93      11.133   7.482  76.630  1.00  0.00              
ATOM     94  CA  ASP    94       8.234   6.313  74.468  1.00  0.00              
ATOM     95  CA  GLY    95      10.148   3.527  72.728  1.00  0.00              
ATOM     96  CA  ASN    96      11.283   1.777  75.851  1.00  0.00              
ATOM     97  CA  SER    97      14.543   3.432  76.774  1.00  0.00              
ATOM     98  CA  VAL    98      14.991   4.350  80.466  1.00  0.00              
ATOM     99  CA  LYS    99      17.028   7.368  81.372  1.00  0.00              
ATOM    100  CA  VAL   100      18.076   7.807  84.979  1.00  0.00              
ATOM    101  CA  VAL   101      18.841  11.309  86.128  1.00  0.00              
ATOM    102  CA  THR   102      20.961  11.853  89.180  1.00  0.00              
ATOM    103  CA  ILE   103      21.116  15.275  90.692  1.00  0.00              
ATOM    104  CA  SER   104      24.264  16.338  92.473  1.00  0.00              
ATOM    105  CA  ALA   105      24.987  19.915  93.650  1.00  0.00              
ATOM    106  CA  GLY   106      28.322  19.412  95.416  1.00  0.00              
ATOM    107  CA  ARG   107      30.646  21.558  93.372  1.00  0.00              
ATOM    108  CA  ASP   108      33.642  19.305  93.263  1.00  0.00              
ATOM    109  CA  GLU   109      34.220  16.618  90.694  1.00  0.00              
ATOM    110  CA  GLY   110      35.109  13.603  92.810  1.00  0.00              
ATOM    111  CA  PRO   111      33.289  14.454  96.009  1.00  0.00              
ATOM    112  CA  ASP   112      31.417  11.249  96.738  1.00  0.00              
ATOM    113  CA  ARG   113      28.025  12.197  95.218  1.00  0.00              
ATOM    114  CA  ASP   114      26.636   8.774  94.546  1.00  0.00              
ATOM    115  CA  ILE   115      24.798   9.305  91.271  1.00  0.00              
ATOM    116  CA  ILE   116      27.930  10.970  89.875  1.00  0.00              
ATOM    117  CA  TRP   117      30.433   8.263  90.901  1.00  0.00              
ATOM    118  CA  GLU   118      28.225   5.524  89.587  1.00  0.00              
ATOM    119  CA  MET   119      27.667   7.227  86.185  1.00  0.00              
ATOM    120  CA  PHE   120      31.408   7.928  85.722  1.00  0.00              
ATOM    121  CA  LEU   121      32.451   4.412  86.561  1.00  0.00              
ATOM    122  CA  GLU   122      29.894   2.856  84.289  1.00  0.00              
ATOM    123  CA  ASN   123      30.915   5.177  81.182  1.00  0.00              
ATOM    124  CA  LEU   124      35.029   5.011  82.026  1.00  0.00              
ATOM    125  CA  GLU   125      31.947   5.365  80.205  1.00  0.00              
TER                                                                             
END
