
#######################################################
#                                                     #
#                        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  124 (  124),  selected  124 , name T0356TS599_5-D1
# Molecule2: number of CA atoms  124 (  963),  selected  124 , name T0356_D1.pdb
# PARAMETERS: T0356TS599_5-D1.T0356_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N       7      -       -           -
LGA    D       8      -       -           -
LGA    L       9      -       -           -
LGA    R      10      -       -           -
LGA    D      11      -       -           -
LGA    F      12      -       -           -
LGA    L      13      -       -           -
LGA    T      14      -       -           -
LGA    L      15      -       -           -
LGA    L      16      -       -           -
LGA    E      17      -       -           -
LGA    Q      18      -       -           -
LGA    Q      19      -       -           -
LGA    G      20      -       -           -
LGA    E      21      -       -           -
LGA    L      22      -       -           -
LGA    K      23      -       -           -
LGA    R      24      -       -           -
LGA    I      25      -       -           -
LGA    T      26      -       -           -
LGA    L      27      -       -           -
LGA    P      28      -       -           -
LGA    V      29      -       -           -
LGA    D      30      -       -           -
LGA    P      31      -       -           -
LGA    H      32      -       -           -
LGA    L      33      N       7           #
LGA    E      34      D       8          3.325
LGA    I      35      L       9          2.792
LGA    T      36      R      10          2.154
LGA    E      37      D      11          1.690
LGA    I      38      F      12          2.150
LGA    A      39      L      13          1.735
LGA    D      40      T      14          1.667
LGA    R      41      L      15          1.774
LGA    T      42      L      16          1.776
LGA    L      43      E      17          1.886
LGA    R      44      Q      18          1.184
LGA    A      45      Q      19          1.223
LGA    G      46      G      20          2.058
LGA    G      47      E      21          2.385
LGA    -       -      L      22           -
LGA    -       -      K      23           -
LGA    -       -      R      24           -
LGA    -       -      I      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      P      28           -
LGA    -       -      V      29           -
LGA    -       -      D      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      I      35           -
LGA    -       -      T      36           -
LGA    -       -      E      37           -
LGA    -       -      I      38           -
LGA    -       -      A      39           -
LGA    -       -      D      40           -
LGA    -       -      R      41           -
LGA    -       -      T      42           -
LGA    -       -      L      43           -
LGA    -       -      R      44           -
LGA    -       -      A      45           -
LGA    -       -      G      46           -
LGA    -       -      G      47           -
LGA    P      48      P      48          0.677
LGA    A      49      A      49          0.817
LGA    L      50      L      50          1.831
LGA    L      51      L      51          2.732
LGA    F      52      F      52          3.662
LGA    E      53      -       -           -
LGA    N      54      E      53          4.822
LGA    P      55      N      54          3.242
LGA    K      56      P      55          3.867
LGA    G      57      K      56          1.208
LGA    -       -      G      57           -
LGA    Y      58      Y      58           #
LGA    -       -      S      59           -
LGA    -       -      M      60           -
LGA    S      59      P      61           #
LGA    M      60      V      62          2.352
LGA    P      61      L      63          3.570
LGA    V      62      C      64          1.885
LGA    L      63      N      65          2.264
LGA    C      64      L      66          1.685
LGA    N      65      F      67          1.560
LGA    L      66      G      68          1.816
LGA    F      67      -       -           -
LGA    G      68      -       -           -
LGA    T      69      T      69          2.979
LGA    P      70      P      70          1.786
LGA    K      71      K      71          3.224
LGA    R      72      R      72          3.607
LGA    V      73      V      73          2.725
LGA    A      74      A      74          1.517
LGA    M      75      M      75          3.226
LGA    -       -      G      76           -
LGA    -       -      M      77           -
LGA    -       -      G      78           -
LGA    -       -      Q      79           -
LGA    G      76      E      80          4.909
LGA    M      77      D      81           -
LGA    G      78      V      82           -
LGA    Q      79      S      83           -
LGA    E      80      A      84          4.452
LGA    D      81      L      85          2.388
LGA    -       -      R      86           -
LGA    -       -      E      87           -
LGA    V      82      V      88          4.162
LGA    S      83      G      89          2.726
LGA    -       -      K      90           -
LGA    A      84      L      91          4.912
LGA    L      85      -       -           -
LGA    R      86      -       -           -
LGA    E      87      L      92          4.096
LGA    V      88      A      93           #
LGA    G      89      F      94           -
LGA    K      90      -       -           -
LGA    L      91      L      95           #
LGA    L      92      K      96           -
LGA    A      93      D     314           -
LGA    F      94      A     315           -
LGA    L      95      I     316           -
LGA    K      96      Y     317           -
LGA    D     314      H     318           -
LGA    A     315      S     319           -
LGA    I     316      T     320           -
LGA    Y     317      Y     321           -
LGA    H     318      T     322           -
LGA    S     319      G     323           -
LGA    T     320      R     324           -
LGA    Y     321      P     325           -
LGA    T     322      P     326           -
LGA    G     323      D     327           -
LGA    R     324      E     328           -
LGA    P     325      P     329           -
LGA    P     326      A     330           -
LGA    D     327      V     331           -
LGA    E     328      L     332           -
LGA    P     329      G     333           -
LGA    A     330      V     334           -
LGA    V     331      A     335           -
LGA    L     332      L     336           -
LGA    G     333      N     337           -
LGA    V     334      E     338           -
LGA    A     335      V     339           -
LGA    L     336      F     340           -
LGA    N     337      V     341           -
LGA    E     338      P     342           -
LGA    V     339      I     343           -
LGA    F     340      L     344           -
LGA    V     341      Q     345           -
LGA    P     342      K     346           -
LGA    I     343      Q     347           -
LGA    L     344      -       -           -
LGA    Q     345      -       -           -
LGA    K     346      -       -           -
LGA    Q     347      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  124  124    5.0     44    2.79    31.82     23.359     1.525

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.471751 * X  +   0.197277 * Y  +  -0.859379 * Z  +  96.755524
  Y_new =   0.515962 * X  +   0.728590 * Y  +   0.450488 * Z  +  67.209061
  Z_new =   0.715006 * X  +  -0.655925 * Y  +   0.241926 * Z  +  75.922813 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.217445    1.924148  [ DEG:   -69.7544    110.2456 ]
  Theta =  -0.796633   -2.344959  [ DEG:   -45.6437   -134.3563 ]
  Phi   =   0.830129   -2.311463  [ DEG:    47.5629   -132.4371 ]
 
# 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: T0356TS599_5-D1                               
REMARK     2: T0356_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_5-D1.T0356_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  124  124   5.0   44   2.79   31.82  23.359
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_5-D1
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      7  CA  ASN     7      53.996  69.208  98.446  1.00  0.00              
ATOM      8  CA  ASP     8      53.712  71.206  95.504  1.00  0.00              
ATOM      9  CA  LEU     9      56.941  70.367  93.965  1.00  0.00              
ATOM     10  CA  ARG    10      56.296  66.872  94.386  1.00  0.00              
ATOM     11  CA  ASP    11      53.093  67.508  91.881  1.00  0.00              
ATOM     12  CA  PHE    12      54.825  69.303  89.237  1.00  0.00              
ATOM     13  CA  LEU    13      57.611  66.506  88.731  1.00  0.00              
ATOM     14  CA  THR    14      54.976  64.087  88.593  1.00  0.00              
ATOM     15  CA  LEU    15      53.156  66.039  85.956  1.00  0.00              
ATOM     16  CA  LEU    16      55.963  66.484  84.071  1.00  0.00              
ATOM     17  CA  GLU    17      56.391  62.776  83.944  1.00  0.00              
ATOM     18  CA  GLN    18      52.664  62.159  82.818  1.00  0.00              
ATOM     19  CA  GLN    19      53.229  64.264  79.700  1.00  0.00              
ATOM     20  CA  GLY    20      56.278  62.974  78.602  1.00  0.00              
ATOM     21  CA  GLU    21      58.492  66.284  77.692  1.00  0.00              
ATOM     22  CA  LEU    22      59.961  66.059  80.966  1.00  0.00              
ATOM     23  CA  LYS    23      62.054  63.116  79.739  1.00  0.00              
ATOM     24  CA  ARG    24      62.591  63.715  76.005  1.00  0.00              
ATOM     25  CA  ILE    25      64.039  67.309  76.888  1.00  0.00              
ATOM     26  CA  THR    26      66.198  65.622  79.788  1.00  0.00              
ATOM     27  CA  LEU    27      67.677  64.202  76.772  1.00  0.00              
ATOM     28  CA  PRO    28      67.595  67.708  74.937  1.00  0.00              
ATOM     29  CA  VAL    29      70.350  69.667  77.034  1.00  0.00              
ATOM     30  CA  ASP    30      70.112  73.156  76.270  1.00  0.00              
ATOM     31  CA  PRO    31      73.310  74.253  75.165  1.00  0.00              
ATOM     32  CA  HIS    32      73.191  77.470  77.364  1.00  0.00              
ATOM     33  CA  LEU    33      71.539  76.002  80.411  1.00  0.00              
ATOM     34  CA  GLU    34      72.750  77.634  83.646  1.00  0.00              
ATOM     35  CA  ILE    35      70.480  76.275  86.323  1.00  0.00              
ATOM     36  CA  THR    36      71.401  78.700  88.789  1.00  0.00              
ATOM     37  CA  GLU    37      71.517  81.859  86.494  1.00  0.00              
ATOM     38  CA  ILE    38      68.159  79.956  85.288  1.00  0.00              
ATOM     39  CA  ALA    39      66.624  80.144  88.558  1.00  0.00              
ATOM     40  CA  ASP    40      66.894  83.678  88.752  1.00  0.00              
ATOM     41  CA  ARG    41      65.611  84.008  85.232  1.00  0.00              
ATOM     42  CA  THR    42      62.374  82.132  85.875  1.00  0.00              
ATOM     43  CA  LEU    43      61.671  83.852  89.000  1.00  0.00              
ATOM     44  CA  ARG    44      62.133  87.450  87.710  1.00  0.00              
ATOM     45  CA  ALA    45      59.446  86.440  85.318  1.00  0.00              
ATOM     46  CA  GLY    46      56.908  84.799  87.096  1.00  0.00              
ATOM     47  CA  GLY    47      57.163  81.369  86.035  1.00  0.00              
ATOM     48  CA  PRO    48      57.670  78.149  87.552  1.00  0.00              
ATOM     49  CA  ALA    49      61.115  76.310  87.732  1.00  0.00              
ATOM     50  CA  LEU    50      62.476  75.368  90.982  1.00  0.00              
ATOM     51  CA  LEU    51      66.139  75.269  91.904  1.00  0.00              
ATOM     52  CA  PHE    52      67.154  73.440  95.435  1.00  0.00              
ATOM     53  CA  GLU    53      70.247  74.129  96.840  1.00  0.00              
ATOM     54  CA  ASN    54      70.951  71.919  99.696  1.00  0.00              
ATOM     55  CA  PRO    55      67.650  70.526 100.036  1.00  0.00              
ATOM     56  CA  LYS    56      68.225  69.083 103.529  1.00  0.00              
ATOM     57  CA  GLY    57      65.064  66.735 103.348  1.00  0.00              
ATOM     58  CA  TYR    58      64.175  66.556  99.835  1.00  0.00              
ATOM     59  CA  SER    59      65.812  65.586  96.907  1.00  0.00              
ATOM     60  CA  MET    60      65.451  68.233  94.403  1.00  0.00              
ATOM     61  CA  PRO    61      65.611  68.142  90.721  1.00  0.00              
ATOM     62  CA  VAL    62      65.225  71.314  88.669  1.00  0.00              
ATOM     63  CA  LEU    63      63.153  71.294  85.833  1.00  0.00              
ATOM     64  CA  CYS    64      62.945  74.092  83.324  1.00  0.00              
ATOM     65  CA  ASN    65      62.261  73.637  79.873  1.00  0.00              
ATOM     66  CA  LEU    66      60.269  71.784  82.538  1.00  0.00              
ATOM     67  CA  PHE    67      57.505  74.225  83.610  1.00  0.00              
ATOM     68  CA  GLY    68      58.189  77.513  82.157  1.00  0.00              
ATOM     69  CA  THR    69      56.898  77.643  78.681  1.00  0.00              
ATOM     70  CA  PRO    70      58.508  76.820  75.273  1.00  0.00              
ATOM     71  CA  LYS    71      59.277  80.449  74.400  1.00  0.00              
ATOM     72  CA  ARG    72      60.476  81.341  77.922  1.00  0.00              
ATOM     73  CA  VAL    73      62.949  78.425  77.107  1.00  0.00              
ATOM     74  CA  ALA    74      63.839  79.498  74.052  1.00  0.00              
ATOM     75  CA  MET    75      64.766  83.191  74.655  1.00  0.00              
ATOM     76  CA  GLY    76      66.370  82.121  77.882  1.00  0.00              
ATOM     77  CA  MET    77      68.660  79.688  75.683  1.00  0.00              
ATOM     78  CA  GLY    78      69.494  82.209  72.999  1.00  0.00              
ATOM     79  CA  GLN    79      68.183  80.280  70.008  1.00  0.00              
ATOM     80  CA  GLU    80      66.379  81.816  67.525  1.00  0.00              
ATOM     81  CA  ASP    81      63.939  79.177  66.294  1.00  0.00              
ATOM     82  CA  VAL    82      63.679  75.708  67.520  1.00  0.00              
ATOM     83  CA  SER    83      64.580  73.752  65.250  1.00  0.00              
ATOM     84  CA  ALA    84      67.655  75.083  65.323  1.00  0.00              
ATOM     85  CA  LEU    85      68.172  73.960  68.902  1.00  0.00              
ATOM     86  CA  ARG    86      67.525  70.382  67.979  1.00  0.00              
ATOM     87  CA  GLU    87      70.383  71.055  65.392  1.00  0.00              
ATOM     88  CA  VAL    88      72.764  72.045  67.776  1.00  0.00              
ATOM     89  CA  GLY    89      72.097  69.010  69.742  1.00  0.00              
ATOM     90  CA  LYS    90      73.266  67.272  66.888  1.00  0.00              
ATOM     91  CA  LEU    91      76.458  69.113  66.344  1.00  0.00              
ATOM     92  CA  LEU    92      77.188  68.742  70.024  1.00  0.00              
ATOM     93  CA  ALA    93      76.745  65.138  70.369  1.00  0.00              
ATOM     94  CA  PHE    94      79.146  64.453  67.535  1.00  0.00              
ATOM     95  CA  LEU    95      81.493  66.449  68.607  1.00  0.00              
ATOM     96  CA  LYS    96      81.477  65.303  72.126  1.00  0.00              
ATOM    314  CA  ASP   314     129.650  49.377  78.384  1.00  0.00              
ATOM    315  CA  ALA   315     128.185  51.530  76.141  1.00  0.00              
ATOM    316  CA  ILE   316     125.011  52.378  77.681  1.00  0.00              
ATOM    317  CA  TYR   317     121.923  51.682  76.392  1.00  0.00              
ATOM    318  CA  HIS   318     118.909  53.805  77.004  1.00  0.00              
ATOM    319  CA  SER   319     115.432  52.173  76.302  1.00  0.00              
ATOM    320  CA  THR   320     112.885  54.422  76.457  1.00  0.00              
ATOM    321  CA  TYR   321     109.483  54.157  74.612  1.00  0.00              
ATOM    322  CA  THR   322     107.508  56.711  73.410  1.00  0.00              
ATOM    323  CA  GLY   323     104.370  58.032  75.239  1.00  0.00              
ATOM    324  CA  ARG   324     100.879  58.227  73.706  1.00  0.00              
ATOM    325  CA  PRO   325      98.068  56.351  74.632  1.00  0.00              
ATOM    326  CA  PRO   326      97.121  52.846  73.013  1.00  0.00              
ATOM    327  CA  ASP   327      93.266  54.100  72.388  1.00  0.00              
ATOM    328  CA  GLU   328      93.345  56.473  70.006  1.00  0.00              
ATOM    329  CA  PRO   329      95.246  55.156  66.956  1.00  0.00              
ATOM    330  CA  ALA   330      97.705  57.536  66.356  1.00  0.00              
ATOM    331  CA  VAL   331      95.882  60.882  65.092  1.00  0.00              
ATOM    332  CA  LEU   332      96.871  64.133  66.255  1.00  0.00              
ATOM    333  CA  GLY   333     100.917  63.407  65.842  1.00  0.00              
ATOM    334  CA  VAL   334      99.496  62.077  62.538  1.00  0.00              
ATOM    335  CA  ALA   335      97.558  64.980  60.898  1.00  0.00              
ATOM    336  CA  LEU   336     100.314  67.605  61.041  1.00  0.00              
ATOM    337  CA  ASN   337     103.221  65.772  60.088  1.00  0.00              
ATOM    338  CA  GLU   338     101.253  64.780  57.006  1.00  0.00              
ATOM    339  CA  VAL   339     100.632  68.280  55.841  1.00  0.00              
ATOM    340  CA  PHE   340     103.737  69.559  56.528  1.00  0.00              
ATOM    341  CA  VAL   341     105.530  66.903  54.666  1.00  0.00              
ATOM    342  CA  PRO   342     103.919  67.661  51.984  1.00  0.00              
ATOM    343  CA  ILE   343     105.123  70.901  52.033  1.00  0.00              
ATOM    344  CA  LEU   344     108.380  70.220  52.364  1.00  0.00              
ATOM    345  CA  GLN   345     108.692  68.126  49.911  1.00  0.00              
ATOM    346  CA  LYS   346     107.655  70.584  47.525  1.00  0.00              
ATOM    347  CA  GLN   347     109.969  72.766  48.295  1.00  0.00              
TER                                                                             
END
