
#######################################################
#                                                     #
#                        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  101 (  101),  selected  101 , name T0320TS599_1
# Molecule2: number of CA atoms  287 ( 2364),  selected  287 , name T0320.pdb
# PARAMETERS: T0320TS599_1.T0320.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L     206      M       1           -
LGA    L     207      Q       2           -
LGA    Y     208      L       3           -
LGA    S     209      S       4           -
LGA    N     210      K       5           -
LGA    E     211      A       6           -
LGA    -       -      A       7           -
LGA    -       -      E       8           -
LGA    -       -      M       9           -
LGA    -       -      C      10           -
LGA    -       -      Y      11           -
LGA    -       -      E      12           -
LGA    -       -      I      13           -
LGA    -       -      T      14           -
LGA    -       -      N      15           -
LGA    -       -      S      16           -
LGA    -       -      Y      17           -
LGA    -       -      L      18           -
LGA    -       -      H      19           -
LGA    -       -      I      20           -
LGA    -       -      D      21           -
LGA    -       -      Q      22           -
LGA    -       -      K      23           -
LGA    -       -      S      24           -
LGA    -       -      Q      25           -
LGA    -       -      I      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      S      29           -
LGA    -       -      T      30           -
LGA    -       -      Q      31           -
LGA    -       -      E      32           -
LGA    -       -      A      33           -
LGA    -       -      I      34           -
LGA    -       -      R      35           -
LGA    -       -      L      36           -
LGA    -       -      T      37           -
LGA    -       -      R      38           -
LGA    -       -      K      39           -
LGA    -       -      Y      40           -
LGA    -       -      L      41           -
LGA    -       -      L      42           -
LGA    -       -      S      43           -
LGA    -       -      E      44           -
LGA    -       -      I      45           -
LGA    -       -      F      46           -
LGA    -       -      V      47           -
LGA    -       -      R      48           -
LGA    -       -      W      49           -
LGA    -       -      S      50           -
LGA    -       -      P      51           -
LGA    -       -      L      52           -
LGA    -       -      N      53           -
LGA    -       -      G      54           -
LGA    -       -      E      55           -
LGA    -       -      I      56           -
LGA    -       -      S      57           -
LGA    -       -      F      58           -
LGA    -       -      S      59           -
LGA    P     212      Y      60          4.260
LGA    I     213      N      61          2.449
LGA    C     214      G      62          3.805
LGA    -       -      G      63           -
LGA    -       -      K      64           -
LGA    -       -      D      65           -
LGA    G     215      C      66          2.405
LGA    L     216      Q      67          4.071
LGA    Y     217      V      68          3.124
LGA    G     218      L      69          0.778
LGA    K     219      L      70          2.316
LGA    G     220      L      71          2.433
LGA    F     221      L      72           #
LGA    T     222      Y      73           -
LGA    S     223      L      74           -
LGA    I     224      S      75           -
LGA    G     225      C      76           -
LGA    G     226      L      77           -
LGA    I     227      W      78           -
LGA    N     228      E      79           -
LGA    N     229      Y      80           -
LGA    S     230      F      81           -
LGA    L     231      F      82           -
LGA    P     232      I      83           -
LGA    N     233      K      84           -
LGA    P     234      A      85           -
LGA    H     235      Q      86           -
LGA    L     236      N      87           -
LGA    R     237      S      88           -
LGA    K     238      F      97           -
LGA    D     239      P      98           -
LGA    S     240      M      99           -
LGA    N     241      Q     100           -
LGA    N     242      R     101           -
LGA    P     243      L     102           -
LGA    A     244      P     103           -
LGA    L     245      T     104           -
LGA    H     246      V     105           -
LGA    F     247      F     106           -
LGA    E     248      I     107           -
LGA    W     249      D     108           -
LGA    -       -      Q     109           -
LGA    -       -      E     110           -
LGA    -       -      E     111           -
LGA    E     250      T     112          4.469
LGA    I     251      F     113           #
LGA    -       -      P     114           -
LGA    -       -      T     115           -
LGA    I     252      L     116          4.922
LGA    H     253      E     117          3.748
LGA    A     254      N     118          4.879
LGA    F     255      F     119          5.122
LGA    G     256      V     120          2.681
LGA    K     257      L     121          1.911
LGA    D     258      -       -           -
LGA    A     259      E     122          2.616
LGA    E     260      T     123          3.328
LGA    G     261      S     124           #
LGA    E     262      E     125          2.600
LGA    R     263      R     126          2.370
LGA    S     264      -       -           -
LGA    S     265      -       -           -
LGA    A     266      Y     127          5.041
LGA    I     267      C     128          2.284
LGA    N     268      L     129          3.028
LGA    T     269      S     130          1.076
LGA    S     270      L     131          3.711
LGA    P     271      Y     132           #
LGA    I     272      E     133           -
LGA    -       -      S     134           -
LGA    -       -      Q     135           -
LGA    -       -      R     136           -
LGA    -       -      V     142           -
LGA    -       -      N     143           -
LGA    -       -      M     144           -
LGA    -       -      A     145           -
LGA    -       -      D     146           -
LGA    -       -      A     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      D     150           -
LGA    -       -      F     151           -
LGA    -       -      I     152           -
LGA    -       -      K     153           -
LGA    -       -      I     154           -
LGA    -       -      Y     155           -
LGA    -       -      P     156           -
LGA    -       -      E     157           -
LGA    -       -      T     158           -
LGA    -       -      E     159           -
LGA    -       -      A     160           -
LGA    -       -      I     161           -
LGA    S     273      V     162           #
LGA    V     274      I     163          4.731
LGA    V     275      G     164          2.833
LGA    D     276      I     165          3.225
LGA    K     277      -       -           -
LGA    E     278      -       -           -
LGA    R     279      R     166          3.120
LGA    F     280      H     167          3.800
LGA    S     281      T     168          4.258
LGA    K     282      D     169           #
LGA    -       -      P     170           -
LGA    -       -      F     171           -
LGA    -       -      G     172           -
LGA    -       -      E     173           -
LGA    -       -      A     174           -
LGA    -       -      L     175           -
LGA    -       -      K     176           -
LGA    -       -      P     177           -
LGA    -       -      I     178           -
LGA    -       -      Q     179           -
LGA    -       -      R     180           -
LGA    -       -      T     181           -
LGA    -       -      D     182           -
LGA    -       -      S     183           -
LGA    -       -      N     184           -
LGA    -       -      W     185           -
LGA    -       -      P     186           -
LGA    -       -      D     187           -
LGA    -       -      F     188           -
LGA    -       -      M     189           -
LGA    -       -      R     190           -
LGA    -       -      L     191           -
LGA    -       -      Q     192           -
LGA    -       -      P     193           -
LGA    -       -      L     194           -
LGA    Y     283      L     195           #
LGA    H     284      H     196          2.485
LGA    D     285      -       -           -
LGA    N     286      W     197           #
LGA    Y     287      D     198          1.224
LGA    Y     288      L     199           #
LGA    -       -      T     200           -
LGA    -       -      N     201           -
LGA    P     289      I     202          2.984
LGA    G     290      W     203          3.798
LGA    -       -      S     204           -
LGA    -       -      F     205           -
LGA    W     291      L     206          2.100
LGA    Y     292      L     207          2.439
LGA    -       -      Y     208           -
LGA    -       -      S     209           -
LGA    -       -      N     210           -
LGA    -       -      E     211           -
LGA    -       -      P     212           -
LGA    -       -      I     213           -
LGA    -       -      C     214           -
LGA    -       -      G     215           -
LGA    -       -      L     216           -
LGA    -       -      Y     217           -
LGA    L     293      G     218           #
LGA    -       -      K     219           -
LGA    -       -      G     220           -
LGA    -       -      F     221           -
LGA    -       -      T     222           -
LGA    -       -      S     223           -
LGA    -       -      I     224           -
LGA    -       -      G     225           -
LGA    -       -      G     226           -
LGA    -       -      I     227           -
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    -       -      P     232           -
LGA    -       -      N     233           -
LGA    -       -      P     234           -
LGA    -       -      H     235           -
LGA    -       -      L     236           -
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    -       -      N     242           -
LGA    -       -      P     243           -
LGA    -       -      A     244           -
LGA    -       -      L     245           -
LGA    -       -      H     246           -
LGA    -       -      F     247           -
LGA    -       -      E     248           -
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    V     294      A     266           #
LGA    D     295      I     267          3.564
LGA    D     296      N     268          3.455
LGA    T     297      T     269          1.825
LGA    L     298      S     270          3.624
LGA    E     299      P     271          3.594
LGA    R     300      -       -           -
LGA    A     301      -       -           -
LGA    G     302      I     272          1.033
LGA    R     303      S     273          3.612
LGA    I     304      V     274          4.275
LGA    K     305      V     275           #
LGA    N     306      D     276           #
LGA    -       -      K     277           -
LGA    -       -      E     278           -
LGA    -       -      R     279           -
LGA    -       -      F     280           -
LGA    -       -      S     281           -
LGA    -       -      K     282           -
LGA    -       -      Y     283           -
LGA    -       -      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    -       -      Y     292           -
LGA    -       -      L     293           -
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      E     299           -
LGA    -       -      R     300           -
LGA    -       -      A     301           -
LGA    -       -      G     302           -
LGA    -       -      R     303           -
LGA    -       -      I     304           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  101  287    5.0     45    3.33    13.33      8.688     1.314

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.796838 * X  +  -0.486640 * Y  +   0.358093 * Z  +  14.956940
  Y_new =  -0.434136 * X  +  -0.048961 * Y  +   0.899516 * Z  +  23.871782
  Z_new =  -0.420208 * X  +  -0.872229 * Y  +  -0.250282 * Z  +  15.835615 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.850233    1.291359  [ DEG:  -106.0106     73.9894 ]
  Theta =   0.433675    2.707918  [ DEG:    24.8477    155.1523 ]
  Phi   =  -0.498860    2.642733  [ DEG:   -28.5826    151.4174 ]
 
# 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: T0320TS599_1                                  
REMARK     2: T0320.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_1.T0320.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  101  287   5.0   45   3.33   13.33   8.688
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_1
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    206  CA  LEU   206      24.666  22.420  16.121  1.00  0.00              
ATOM    207  CA  LEU   207      27.786  22.809  18.386  1.00  0.00              
ATOM    208  CA  TYR   208      30.015  23.345  21.904  1.00  0.00              
ATOM    209  CA  SER   209      29.791  25.261  18.480  1.00  0.00              
ATOM    210  CA  ASN   210      27.914  28.312  19.567  1.00  0.00              
ATOM    211  CA  GLU   211      24.903  28.110  17.331  1.00  0.00              
ATOM    212  CA  PRO   212      21.501  29.017  18.518  1.00  0.00              
ATOM    213  CA  ILE   213      19.162  26.082  18.208  1.00  0.00              
ATOM    214  CA  CYS   214      15.575  26.489  19.333  1.00  0.00              
ATOM    215  CA  GLY   215      13.746  23.495  20.342  1.00  0.00              
ATOM    216  CA  LEU   216       9.967  23.495  19.729  1.00  0.00              
ATOM    217  CA  TYR   217       8.855  21.869  23.080  1.00  0.00              
ATOM    218  CA  GLY   218      11.170  24.068  25.107  1.00  0.00              
ATOM    219  CA  LYS   219       9.924  27.185  23.337  1.00  0.00              
ATOM    220  CA  GLY   220       6.252  26.450  23.833  1.00  0.00              
ATOM    221  CA  PHE   221       5.265  25.101  20.369  1.00  0.00              
ATOM    222  CA  THR   222       2.950  22.331  20.687  1.00  0.00              
ATOM    223  CA  SER   223       4.026  19.710  18.001  1.00  0.00              
ATOM    224  CA  ILE   224       2.233  20.251  14.583  1.00  0.00              
ATOM    225  CA  GLY   225       2.657  16.865  13.008  1.00  0.00              
ATOM    226  CA  GLY   226       3.221  16.938   9.283  1.00  0.00              
ATOM    227  CA  ILE   227       5.891  19.616   8.348  1.00  0.00              
ATOM    228  CA  ASN   228       8.288  17.632   6.244  1.00  0.00              
ATOM    229  CA  ASN   229       8.506  19.929   3.224  1.00  0.00              
ATOM    230  CA  SER   230       9.106  22.954   5.363  1.00  0.00              
ATOM    231  CA  LEU   231      12.129  21.750   7.360  1.00  0.00              
ATOM    232  CA  PRO   232      14.993  20.762   5.110  1.00  0.00              
ATOM    233  CA  ASN   233      16.106  17.404   6.623  1.00  0.00              
ATOM    234  CA  PRO   234      19.554  18.372   7.839  1.00  0.00              
ATOM    235  CA  HIS   235      19.188  16.354  11.253  1.00  0.00              
ATOM    236  CA  LEU   236      17.445  13.024   9.977  1.00  0.00              
ATOM    237  CA  ARG   237      14.786  11.843  12.314  1.00  0.00              
ATOM    238  CA  LYS   238      13.932   8.230  12.891  1.00  0.00              
ATOM    239  CA  ASP   239      10.451   7.257  14.003  1.00  0.00              
ATOM    240  CA  SER   240      10.694   4.027  15.924  1.00  0.00              
ATOM    241  CA  ASN   241      12.334   4.108  19.362  1.00  0.00              
ATOM    242  CA  ASN   242      15.940   3.302  18.428  1.00  0.00              
ATOM    243  CA  PRO   243      16.095   5.107  15.150  1.00  0.00              
ATOM    244  CA  ALA   244      18.874   7.518  15.803  1.00  0.00              
ATOM    245  CA  LEU   245      19.136  10.611  13.713  1.00  0.00              
ATOM    246  CA  HIS   246      20.797  13.665  15.078  1.00  0.00              
ATOM    247  CA  PHE   247      19.692  16.956  13.338  1.00  0.00              
ATOM    248  CA  GLU   248      22.455  19.827  14.423  1.00  0.00              
ATOM    249  CA  TRP   249      21.208  23.118  13.679  1.00  0.00              
ATOM    250  CA  GLU   250      23.734  26.039  13.009  1.00  0.00              
ATOM    251  CA  ILE   251      22.693  29.454  13.803  1.00  0.00              
ATOM    252  CA  ILE   252      24.861  31.739  11.534  1.00  0.00              
ATOM    253  CA  HIS   253      25.290  34.893  13.493  1.00  0.00              
ATOM    254  CA  ALA   254      23.877  37.440  11.039  1.00  0.00              
ATOM    255  CA  PHE   255      20.629  35.620  10.237  1.00  0.00              
ATOM    256  CA  GLY   256      19.286  34.681  13.729  1.00  0.00              
ATOM    257  CA  LYS   257      20.117  38.088  15.179  1.00  0.00              
ATOM    258  CA  ASP   258      18.574  40.688  12.726  1.00  0.00              
ATOM    259  CA  ALA   259      15.295  38.719  12.146  1.00  0.00              
ATOM    260  CA  GLU   260      14.452  38.046  15.714  1.00  0.00              
ATOM    261  CA  GLY   261      15.230  41.553  17.045  1.00  0.00              
ATOM    262  CA  GLU   262      11.691  41.700  18.503  1.00  0.00              
ATOM    263  CA  ARG   263      12.225  38.266  20.109  1.00  0.00              
ATOM    264  CA  SER   264      15.489  39.339  21.844  1.00  0.00              
ATOM    265  CA  SER   265      13.796  42.496  23.176  1.00  0.00              
ATOM    266  CA  ALA   266      10.398  41.019  24.191  1.00  0.00              
ATOM    267  CA  ILE   267      11.956  37.725  25.372  1.00  0.00              
ATOM    268  CA  ASN   268      15.074  38.356  27.307  1.00  0.00              
ATOM    269  CA  THR   269      18.221  38.536  25.261  1.00  0.00              
ATOM    270  CA  SER   270      19.565  35.078  25.947  1.00  0.00              
ATOM    271  CA  PRO   271      16.473  32.979  25.164  1.00  0.00              
ATOM    272  CA  ILE   272      18.072  30.474  22.845  1.00  0.00              
ATOM    273  CA  SER   273      17.337  26.987  23.644  1.00  0.00              
ATOM    274  CA  VAL   274      19.742  24.407  22.609  1.00  0.00              
ATOM    275  CA  VAL   275      18.525  21.065  22.039  1.00  0.00              
ATOM    276  CA  ASP   276      21.035  18.351  21.870  1.00  0.00              
ATOM    277  CA  LYS   277      19.572  15.802  19.405  1.00  0.00              
ATOM    278  CA  GLU   278      20.851  12.811  21.273  1.00  0.00              
ATOM    279  CA  ARG   279      19.641  13.811  24.736  1.00  0.00              
ATOM    280  CA  PHE   280      15.981  14.605  23.951  1.00  0.00              
ATOM    281  CA  SER   281      15.219  11.472  21.990  1.00  0.00              
ATOM    282  CA  LYS   282      16.796   8.936  24.319  1.00  0.00              
ATOM    283  CA  TYR   283      15.301   9.921  27.719  1.00  0.00              
ATOM    284  CA  HIS   284      11.706  10.129  26.518  1.00  0.00              
ATOM    285  CA  ASP   285      11.325   6.982  24.652  1.00  0.00              
ATOM    286  CA  ASN   286       9.534   8.301  21.637  1.00  0.00              
ATOM    287  CA  TYR   287      10.688  11.929  21.544  1.00  0.00              
ATOM    288  CA  TYR   288       7.520  14.035  21.383  1.00  0.00              
ATOM    289  CA  PRO   289       8.370  17.651  21.212  1.00  0.00              
ATOM    290  CA  GLY   290       5.911  18.975  18.457  1.00  0.00              
ATOM    291  CA  TRP   291       7.694  21.965  16.571  1.00  0.00              
ATOM    292  CA  TYR   292       6.047  22.481  13.273  1.00  0.00              
ATOM    293  CA  LEU   293       7.802  24.645  10.776  1.00  0.00              
ATOM    294  CA  VAL   294       5.489  26.116   8.357  1.00  0.00              
ATOM    295  CA  ASP   295       6.649  27.119   4.833  1.00  0.00              
ATOM    296  CA  ASP   296       6.376  30.881   5.577  1.00  0.00              
ATOM    297  CA  THR   297       8.833  30.496   8.506  1.00  0.00              
ATOM    298  CA  LEU   298      11.302  28.485   6.410  1.00  0.00              
ATOM    299  CA  GLU   299      11.179  31.076   3.558  1.00  0.00              
ATOM    300  CA  ARG   300      11.749  34.034   5.816  1.00  0.00              
ATOM    301  CA  ALA   301      14.705  32.181   7.381  1.00  0.00              
ATOM    302  CA  GLY   302      16.211  31.004   4.109  1.00  0.00              
ATOM    303  CA  ARG   303      16.629  33.443   1.484  1.00  0.00              
ATOM    304  CA  ILE   304      18.736  36.194   2.399  1.00  0.00              
ATOM    305  CA  LYS   305      19.571  33.986   5.648  1.00  0.00              
ATOM    306  CA  ASN   306      20.481  34.968   1.690  1.00  0.00              
TER                                                                             
END
