
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  287 ( 2364),  selected  287 , name T0320.pdb
# PARAMETERS: T0320TS599_4.T0320.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      Q       2           -
LGA    -       -      L       3           -
LGA    -       -      S       4           -
LGA    -       -      K       5           -
LGA    -       -      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    L     206      T      30          3.600
LGA    L     207      Q      31          3.668
LGA    Y     208      E      32          4.202
LGA    S     209      A      33           #
LGA    N     210      I      34           #
LGA    -       -      R      35           -
LGA    E     211      L      36          3.479
LGA    P     212      T      37          2.929
LGA    I     213      R      38           -
LGA    C     214      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    -       -      Y      60           -
LGA    -       -      N      61           -
LGA    -       -      G      62           -
LGA    -       -      G      63           -
LGA    G     215      K      64          4.166
LGA    L     216      D      65          2.618
LGA    Y     217      C      66           #
LGA    G     218      Q      67          2.411
LGA    K     219      V      68           #
LGA    -       -      L      69           -
LGA    -       -      L      70           -
LGA    -       -      L      71           -
LGA    -       -      L      72           -
LGA    -       -      Y      73           -
LGA    -       -      L      74           -
LGA    -       -      S      75           -
LGA    -       -      C      76           -
LGA    -       -      L      77           -
LGA    -       -      W      78           -
LGA    -       -      E      79           -
LGA    -       -      Y      80           -
LGA    -       -      F      81           -
LGA    -       -      F      82           -
LGA    -       -      I      83           -
LGA    -       -      K      84           -
LGA    -       -      A      85           -
LGA    -       -      Q      86           -
LGA    -       -      N      87           -
LGA    -       -      S      88           -
LGA    -       -      F      97           -
LGA    -       -      P      98           -
LGA    -       -      M      99           -
LGA    -       -      Q     100           -
LGA    -       -      R     101           -
LGA    -       -      L     102           -
LGA    -       -      P     103           -
LGA    -       -      T     104           -
LGA    -       -      V     105           -
LGA    -       -      F     106           -
LGA    -       -      I     107           -
LGA    -       -      D     108           -
LGA    -       -      Q     109           -
LGA    -       -      E     110           -
LGA    -       -      E     111           -
LGA    -       -      T     112           -
LGA    -       -      F     113           -
LGA    -       -      P     114           -
LGA    -       -      T     115           -
LGA    -       -      L     116           -
LGA    -       -      E     117           -
LGA    -       -      N     118           -
LGA    -       -      F     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      E     122           -
LGA    G     220      T     123           #
LGA    F     221      S     124           -
LGA    T     222      E     125           -
LGA    S     223      R     126           -
LGA    I     224      Y     127           -
LGA    G     225      C     128           -
LGA    G     226      L     129           -
LGA    I     227      S     130           -
LGA    N     228      L     131           -
LGA    N     229      Y     132           -
LGA    S     230      E     133           -
LGA    L     231      S     134           -
LGA    P     232      Q     135           -
LGA    N     233      R     136           -
LGA    P     234      V     142           -
LGA    H     235      N     143           -
LGA    L     236      M     144           -
LGA    R     237      A     145           -
LGA    K     238      D     146           -
LGA    D     239      A     147           -
LGA    S     240      F     148           -
LGA    N     241      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    N     242      T     158          3.754
LGA    P     243      E     159          1.195
LGA    A     244      A     160          1.421
LGA    -       -      I     161           -
LGA    -       -      V     162           -
LGA    -       -      I     163           -
LGA    -       -      G     164           -
LGA    -       -      I     165           -
LGA    -       -      R     166           -
LGA    -       -      H     167           -
LGA    -       -      T     168           -
LGA    -       -      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    L     245      M     189          4.044
LGA    H     246      R     190          2.953
LGA    -       -      L     191           -
LGA    F     247      Q     192          3.058
LGA    E     248      P     193          3.162
LGA    W     249      L     194          3.239
LGA    E     250      L     195          2.674
LGA    I     251      H     196          1.887
LGA    I     252      W     197           #
LGA    H     253      -       -           -
LGA    A     254      -       -           -
LGA    F     255      -       -           -
LGA    G     256      D     198          1.603
LGA    K     257      L     199          3.837
LGA    D     258      T     200          2.426
LGA    A     259      N     201          2.050
LGA    E     260      I     202          3.269
LGA    G     261      W     203          3.938
LGA    -       -      S     204           -
LGA    E     262      F     205           #
LGA    R     263      L     206          4.673
LGA    S     264      -       -           -
LGA    S     265      -       -           -
LGA    A     266      L     207          5.204
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    I     267      Y     217          4.078
LGA    N     268      G     218          1.174
LGA    -       -      K     219           -
LGA    T     269      G     220          2.887
LGA    S     270      F     221          1.790
LGA    P     271      T     222           #
LGA    I     272      S     223          3.911
LGA    S     273      I     224          2.945
LGA    V     274      G     225          0.767
LGA    V     275      G     226          4.489
LGA    D     276      I     227           -
LGA    K     277      N     228           -
LGA    E     278      N     229           -
LGA    R     279      S     230           -
LGA    F     280      L     231           -
LGA    S     281      P     232           -
LGA    K     282      N     233           -
LGA    Y     283      P     234           -
LGA    H     284      H     235           -
LGA    D     285      L     236           -
LGA    N     286      R     237           -
LGA    Y     287      K     238           -
LGA    Y     288      D     239           -
LGA    P     289      S     240           -
LGA    G     290      N     241           -
LGA    W     291      N     242           -
LGA    Y     292      P     243           -
LGA    L     293      A     244           -
LGA    V     294      L     245           -
LGA    D     295      H     246           -
LGA    D     296      F     247           -
LGA    T     297      E     248           -
LGA    L     298      W     249           -
LGA    E     299      E     250           -
LGA    R     300      I     251           -
LGA    A     301      I     252           -
LGA    -       -      H     253           -
LGA    G     302      A     254           #
LGA    R     303      F     255          1.800
LGA    I     304      G     256          5.035
LGA    K     305      K     257           -
LGA    N     306      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      T     269           -
LGA    -       -      S     270           -
LGA    -       -      P     271           -
LGA    -       -      I     272           -
LGA    -       -      S     273           -
LGA    -       -      V     274           -
LGA    -       -      V     275           -
LGA    -       -      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     36    3.26     2.78      7.181     1.070

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.811125 * X  +   0.102792 * Y  +  -0.575769 * Z  +  15.718670
  Y_new =  -0.495264 * X  +  -0.402936 * Y  +  -0.769647 * Z  +  21.257744
  Z_new =  -0.311112 * X  +   0.909437 * Y  +  -0.275922 * Z  +  22.993395 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.865369   -1.276224  [ DEG:   106.8778    -73.1222 ]
  Theta =   0.316363    2.825229  [ DEG:    18.1263    161.8737 ]
  Phi   =  -0.548169    2.593424  [ DEG:   -31.4078    148.5922 ]
 
# 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_4                                  
REMARK     2: T0320.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_4.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   36   3.26    2.78   7.181
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_4
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM    206  CA  LEU   206       3.980  14.984  26.209  1.00  0.00              
ATOM    207  CA  LEU   207       2.395  18.175  27.863  1.00  0.00              
ATOM    208  CA  TYR   208      -0.715  16.573  30.125  1.00  0.00              
ATOM    209  CA  SER   209       1.829  14.046  30.415  1.00  0.00              
ATOM    210  CA  ASN   210       4.824  15.663  31.977  1.00  0.00              
ATOM    211  CA  GLU   211       7.456  14.891  29.362  1.00  0.00              
ATOM    212  CA  PRO   212      10.122  17.719  28.960  1.00  0.00              
ATOM    213  CA  ILE   213      10.216  18.506  25.117  1.00  0.00              
ATOM    214  CA  CYS   214      12.843  21.023  23.851  1.00  0.00              
ATOM    215  CA  GLY   215      12.531  22.393  20.319  1.00  0.00              
ATOM    216  CA  LEU   216      15.942  23.248  18.787  1.00  0.00              
ATOM    217  CA  TYR   217      14.746  25.329  15.842  1.00  0.00              
ATOM    218  CA  GLY   218      12.070  27.293  17.758  1.00  0.00              
ATOM    219  CA  LYS   219      14.461  28.253  20.601  1.00  0.00              
ATOM    220  CA  GLY   220      17.348  29.098  18.380  1.00  0.00              
ATOM    221  CA  PHE   221      19.521  26.059  18.700  1.00  0.00              
ATOM    222  CA  THR   222      20.620  24.602  15.396  1.00  0.00              
ATOM    223  CA  SER   223      21.607  21.120  15.800  1.00  0.00              
ATOM    224  CA  ILE   224      24.417  20.186  17.979  1.00  0.00              
ATOM    225  CA  GLY   225      24.780  16.450  18.220  1.00  0.00              
ATOM    226  CA  GLY   226      25.529  15.766  21.828  1.00  0.00              
ATOM    227  CA  ILE   227      28.814  17.627  22.466  1.00  0.00              
ATOM    228  CA  ASN   228      30.858  15.311  24.659  1.00  0.00              
ATOM    229  CA  ASN   229      32.448  18.038  26.783  1.00  0.00              
ATOM    230  CA  SER   230      29.065  19.604  27.663  1.00  0.00              
ATOM    231  CA  LEU   231      27.503  16.674  29.310  1.00  0.00              
ATOM    232  CA  PRO   232      25.024  14.515  27.458  1.00  0.00              
ATOM    233  CA  ASN   233      22.533  13.849  30.165  1.00  0.00              
ATOM    234  CA  PRO   234      19.202  14.779  28.722  1.00  0.00              
ATOM    235  CA  HIS   235      18.125  16.585  32.093  1.00  0.00              
ATOM    236  CA  LEU   236      21.154  18.707  32.177  1.00  0.00              
ATOM    237  CA  ARG   237      22.822  19.441  35.709  1.00  0.00              
ATOM    238  CA  LYS   238      24.465  22.577  36.217  1.00  0.00              
ATOM    239  CA  ASP   239      26.936  22.323  39.380  1.00  0.00              
ATOM    240  CA  SER   240      28.793  25.273  39.962  1.00  0.00              
ATOM    241  CA  ASN   241      30.750  27.040  37.111  1.00  0.00              
ATOM    242  CA  ASN   242      28.307  29.799  35.962  1.00  0.00              
ATOM    243  CA  PRO   243      25.244  28.537  37.898  1.00  0.00              
ATOM    244  CA  ALA   244      22.763  28.022  35.091  1.00  0.00              
ATOM    245  CA  LEU   245      20.478  25.094  35.703  1.00  0.00              
ATOM    246  CA  HIS   246      19.775  22.743  32.856  1.00  0.00              
ATOM    247  CA  PHE   247      16.489  20.794  32.827  1.00  0.00              
ATOM    248  CA  GLU   248      16.478  18.051  30.352  1.00  0.00              
ATOM    249  CA  TRP   249      12.817  16.616  29.673  1.00  0.00              
ATOM    250  CA  GLU   250      12.912  13.277  28.278  1.00  0.00              
ATOM    251  CA  ILE   251      10.202  12.331  25.699  1.00  0.00              
ATOM    252  CA  ILE   252       9.263   8.715  25.788  1.00  0.00              
ATOM    253  CA  HIS   253       8.757   7.334  22.358  1.00  0.00              
ATOM    254  CA  ALA   254       5.180   8.350  21.553  1.00  0.00              
ATOM    255  CA  PHE   255       5.600  11.993  22.474  1.00  0.00              
ATOM    256  CA  GLY   256       8.863  12.680  20.633  1.00  0.00              
ATOM    257  CA  LYS   257       7.695  11.195  17.431  1.00  0.00              
ATOM    258  CA  ASP   258       4.493  13.076  16.689  1.00  0.00              
ATOM    259  CA  ALA   259       5.992  16.399  17.701  1.00  0.00              
ATOM    260  CA  GLU   260       9.166  16.181  15.672  1.00  0.00              
ATOM    261  CA  GLY   261       7.393  15.430  12.407  1.00  0.00              
ATOM    262  CA  GLU   262       5.191  18.472  12.864  1.00  0.00              
ATOM    263  CA  ARG   263       8.243  20.704  13.318  1.00  0.00              
ATOM    264  CA  SER   264       9.960  19.345  10.264  1.00  0.00              
ATOM    265  CA  SER   265       6.836  19.954   8.200  1.00  0.00              
ATOM    266  CA  ALA   266       6.385  23.479   9.092  1.00  0.00              
ATOM    267  CA  ILE   267      10.082  24.178   8.852  1.00  0.00              
ATOM    268  CA  ASN   268      11.159  22.896   5.470  1.00  0.00              
ATOM    269  CA  THR   269      12.893  19.536   6.148  1.00  0.00              
ATOM    270  CA  SER   270      16.415  20.553   5.748  1.00  0.00              
ATOM    271  CA  PRO   271      16.770  23.461   8.131  1.00  0.00              
ATOM    272  CA  ILE   272      19.145  21.826  10.634  1.00  0.00              
ATOM    273  CA  SER   273      21.990  24.077  11.102  1.00  0.00              
ATOM    274  CA  VAL   274      24.899  22.116  12.313  1.00  0.00              
ATOM    275  CA  VAL   275      26.963  23.508  14.998  1.00  0.00              
ATOM    276  CA  ASP   276      30.632  22.577  15.376  1.00  0.00              
ATOM    277  CA  LYS   277      31.104  20.670  18.623  1.00  0.00              
ATOM    278  CA  GLU   278      34.022  22.935  19.624  1.00  0.00              
ATOM    279  CA  ARG   279      32.237  26.061  19.342  1.00  0.00              
ATOM    280  CA  PHE   280      28.894  25.517  20.949  1.00  0.00              
ATOM    281  CA  SER   281      30.066  23.445  23.922  1.00  0.00              
ATOM    282  CA  LYS   282      33.133  25.439  24.644  1.00  0.00              
ATOM    283  CA  TYR   283      31.450  28.844  25.181  1.00  0.00              
ATOM    284  CA  HIS   284      28.889  27.442  27.550  1.00  0.00              
ATOM    285  CA  ASP   285      28.354  29.990  30.256  1.00  0.00              
ATOM    286  CA  ASN   286      24.548  30.062  30.024  1.00  0.00              
ATOM    287  CA  TYR   287      24.089  29.135  26.320  1.00  0.00              
ATOM    288  CA  TYR   288      22.471  25.894  26.050  1.00  0.00              
ATOM    289  CA  PRO   289      19.239  25.114  24.461  1.00  0.00              
ATOM    290  CA  GLY   290      17.520  22.722  26.748  1.00  0.00              
ATOM    291  CA  TRP   291      13.904  22.958  25.300  1.00  0.00              
ATOM    292  CA  TYR   292      11.178  22.935  28.152  1.00  0.00              
ATOM    293  CA  LEU   293       8.190  22.383  27.227  1.00  0.00              
ATOM    294  CA  VAL   294       5.061  23.264  29.850  1.00  0.00              
ATOM    295  CA  ASP   295       1.929  22.360  29.124  1.00  0.00              
ATOM    296  CA  ASP   296       0.490  25.909  28.750  1.00  0.00              
ATOM    297  CA  THR   297       3.492  26.806  26.508  1.00  0.00              
ATOM    298  CA  LEU   298       3.100  23.773  24.189  1.00  0.00              
ATOM    299  CA  GLU   299      -0.653  24.564  23.651  1.00  0.00              
ATOM    300  CA  ARG   300       0.248  28.289  22.978  1.00  0.00              
ATOM    301  CA  ALA   301       2.862  27.252  20.415  1.00  0.00              
ATOM    302  CA  GLY   302       0.602  24.789  18.593  1.00  0.00              
ATOM    303  CA  ARG   303      -2.340  26.844  17.551  1.00  0.00              
ATOM    304  CA  ILE   304       0.213  29.368  15.330  1.00  0.00              
ATOM    305  CA  LYS   305       2.822  26.265  14.194  1.00  0.00              
ATOM    306  CA  ASN   306       0.027  28.980  13.903  1.00  0.00              
TER                                                                             
END
