
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms  287 ( 2364),  selected  287 , name T0320.pdb
# PARAMETERS: T0320TS599_2.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    -       -      Y      60           -
LGA    -       -      N      61           -
LGA    -       -      G      62           -
LGA    -       -      G      63           -
LGA    P     212      K      64           #
LGA    I     213      D      65          2.406
LGA    C     214      C      66          4.274
LGA    G     215      Q      67          2.455
LGA    -       -      V      68           -
LGA    -       -      L      69           -
LGA    -       -      L      70           -
LGA    L     216      L      71          2.617
LGA    Y     217      L      72           -
LGA    G     218      Y      73           -
LGA    K     219      -       -           -
LGA    G     220      -       -           -
LGA    F     221      L      74          4.547
LGA    T     222      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    S     223      R     101           #
LGA    I     224      L     102          3.750
LGA    G     225      P     103          1.078
LGA    G     226      T     104          4.044
LGA    I     227      V     105          3.951
LGA    N     228      F     106          4.655
LGA    N     229      -       -           -
LGA    S     230      I     107           #
LGA    L     231      D     108          4.212
LGA    P     232      Q     109           #
LGA    N     233      E     110          4.899
LGA    P     234      E     111           #
LGA    H     235      T     112           #
LGA    L     236      F     113           #
LGA    R     237      -       -           -
LGA    K     238      -       -           -
LGA    D     239      -       -           -
LGA    S     240      -       -           -
LGA    N     241      -       -           -
LGA    N     242      -       -           -
LGA    P     243      -       -           -
LGA    A     244      P     114           #
LGA    L     245      T     115           #
LGA    H     246      L     116          5.148
LGA    F     247      E     117          2.610
LGA    E     248      N     118           -
LGA    -       -      F     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      E     122           -
LGA    -       -      T     123           -
LGA    -       -      S     124           -
LGA    -       -      E     125           -
LGA    -       -      R     126           -
LGA    -       -      Y     127           -
LGA    -       -      C     128           -
LGA    -       -      L     129           -
LGA    -       -      S     130           -
LGA    -       -      L     131           -
LGA    -       -      Y     132           -
LGA    -       -      E     133           -
LGA    -       -      S     134           -
LGA    W     249      Q     135           #
LGA    E     250      R     136           #
LGA    I     251      V     142          4.360
LGA    I     252      N     143          1.588
LGA    H     253      M     144          4.852
LGA    A     254      A     145          3.031
LGA    -       -      D     146           -
LGA    -       -      A     147           -
LGA    F     255      F     148           #
LGA    G     256      R     149           -
LGA    K     257      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    D     258      I     161           #
LGA    A     259      V     162           #
LGA    E     260      -       -           -
LGA    G     261      I     163           #
LGA    E     262      G     164           #
LGA    R     263      I     165          1.214
LGA    S     264      R     166          1.055
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    -       -      M     189           -
LGA    -       -      R     190           -
LGA    -       -      L     191           -
LGA    S     265      Q     192           #
LGA    A     266      P     193          5.014
LGA    I     267      L     194          3.347
LGA    -       -      L     195           -
LGA    -       -      H     196           -
LGA    N     268      W     197          2.892
LGA    T     269      D     198          4.044
LGA    -       -      L     199           -
LGA    -       -      T     200           -
LGA    S     270      N     201          2.535
LGA    P     271      I     202          2.659
LGA    -       -      W     203           -
LGA    -       -      S     204           -
LGA    -       -      F     205           -
LGA    I     272      L     206          4.495
LGA    S     273      L     207           -
LGA    -       -      Y     208           -
LGA    V     274      S     209           #
LGA    V     275      N     210           -
LGA    D     276      E     211           -
LGA    K     277      P     212           -
LGA    E     278      I     213           -
LGA    R     279      C     214           -
LGA    F     280      G     215           -
LGA    S     281      L     216           -
LGA    K     282      Y     217           -
LGA    Y     283      G     218           -
LGA    H     284      K     219           -
LGA    D     285      G     220           -
LGA    N     286      F     221           -
LGA    Y     287      T     222           -
LGA    Y     288      S     223           -
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      I     224          2.840
LGA    A     301      G     225           #
LGA    -       -      G     226           -
LGA    -       -      I     227           -
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    G     302      P     232           #
LGA    R     303      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    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      T     269           -
LGA    -       -      S     270           -
LGA    I     304      P     271          4.398
LGA    K     305      -       -           -
LGA    N     306      I     272          0.871
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     30    3.57    10.00      6.192     0.819

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.420371 * X  +  -0.638414 * Y  +   0.644760 * Z  +  19.174385
  Y_new =   0.835132 * X  +   0.550049 * Y  +   0.000145 * Z  +  27.148380
  Z_new =  -0.354742 * X  +   0.538399 * Y  +   0.764385 * Z  +  19.256063 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.613643   -2.527949  [ DEG:    35.1592   -144.8408 ]
  Theta =   0.362639    2.778954  [ DEG:    20.7777    159.2224 ]
  Phi   =   1.104465   -2.037127  [ DEG:    63.2812   -116.7188 ]
 
# 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_2                                  
REMARK     2: T0320.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_2.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   30   3.57   10.00   6.192
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_2
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM    206  CA  LEU   206      18.947  15.553  13.432  1.00  0.00              
ATOM    207  CA  LEU   207      15.155  14.932  11.921  1.00  0.00              
ATOM    208  CA  TYR   208      12.758  11.527  11.196  1.00  0.00              
ATOM    209  CA  SER   209      16.047  12.625  12.739  1.00  0.00              
ATOM    210  CA  ASN   210      15.671  11.785  16.457  1.00  0.00              
ATOM    211  CA  GLU   211      16.204  15.290  17.709  1.00  0.00              
ATOM    212  CA  PRO   212      14.321  16.631  20.736  1.00  0.00              
ATOM    213  CA  ILE   213      13.004  19.381  19.753  1.00  0.00              
ATOM    214  CA  CYS   214      11.755  22.671  22.245  1.00  0.00              
ATOM    215  CA  GLY   215      10.823  25.287  20.937  1.00  0.00              
ATOM    216  CA  LEU   216      10.503  28.637  23.038  1.00  0.00              
ATOM    217  CA  TYR   217      11.214  31.487  20.606  1.00  0.00              
ATOM    218  CA  GLY   218       9.220  29.960  17.710  1.00  0.00              
ATOM    219  CA  LYS   219       6.068  29.872  19.845  1.00  0.00              
ATOM    220  CA  GLY   220       6.416  33.537  20.728  1.00  0.00              
ATOM    221  CA  PHE   221       7.765  33.537  24.300  1.00  0.00              
ATOM    222  CA  THR   222      10.594  35.969  24.399  1.00  0.00              
ATOM    223  CA  SER   223      12.478  34.985  27.520  1.00  0.00              
ATOM    224  CA  ILE   224      15.920  34.388  26.055  1.00  0.00              
ATOM    225  CA  GLY   225      18.086  35.965  28.807  1.00  0.00              
ATOM    226  CA  GLY   226      20.648  37.722  26.646  1.00  0.00              
ATOM    227  CA  ILE   227      23.775  35.749  27.017  1.00  0.00              
ATOM    228  CA  ASN   228      25.577  35.384  23.665  1.00  0.00              
ATOM    229  CA  ASN   229      29.137  35.923  24.980  1.00  0.00              
ATOM    230  CA  SER   230      30.962  33.086  23.179  1.00  0.00              
ATOM    231  CA  LEU   231      30.017  34.061  19.659  1.00  0.00              
ATOM    232  CA  PRO   232      32.920  35.682  17.734  1.00  0.00              
ATOM    233  CA  ASN   233      32.885  34.088  14.362  1.00  0.00              
ATOM    234  CA  PRO   234      31.242  36.804  12.346  1.00  0.00              
ATOM    235  CA  HIS   235      29.553  34.835   9.715  1.00  0.00              
ATOM    236  CA  LEU   236      26.141  36.275   8.537  1.00  0.00              
ATOM    237  CA  ARG   237      25.185  35.667   5.026  1.00  0.00              
ATOM    238  CA  LYS   238      21.965  36.875   3.426  1.00  0.00              
ATOM    239  CA  ASP   239      21.619  35.779  -0.208  1.00  0.00              
ATOM    240  CA  SER   240      18.598  37.361  -1.453  1.00  0.00              
ATOM    241  CA  ASN   241      15.111  36.009  -1.390  1.00  0.00              
ATOM    242  CA  ASN   242      13.774  36.472   2.092  1.00  0.00              
ATOM    243  CA  PRO   243      16.395  38.738   3.414  1.00  0.00              
ATOM    244  CA  ALA   244      17.118  36.880   6.598  1.00  0.00              
ATOM    245  CA  LEU   245      20.510  37.109   8.185  1.00  0.00              
ATOM    246  CA  HIS   246      22.567  34.181   9.067  1.00  0.00              
ATOM    247  CA  PHE   247      24.436  34.403  12.330  1.00  0.00              
ATOM    248  CA  GLU   248      27.474  32.323  12.647  1.00  0.00              
ATOM    249  CA  TRP   249      28.397  30.629  15.925  1.00  0.00              
ATOM    250  CA  GLU   250      31.464  28.401  16.085  1.00  0.00              
ATOM    251  CA  ILE   251      31.209  25.102  17.870  1.00  0.00              
ATOM    252  CA  ILE   252      34.246  24.196  19.888  1.00  0.00              
ATOM    253  CA  HIS   253      34.103  20.559  20.794  1.00  0.00              
ATOM    254  CA  ALA   254      32.925  21.075  24.404  1.00  0.00              
ATOM    255  CA  PHE   255      29.761  22.937  23.409  1.00  0.00              
ATOM    256  CA  GLY   256      28.479  20.476  20.828  1.00  0.00              
ATOM    257  CA  LYS   257      28.835  17.544  23.276  1.00  0.00              
ATOM    258  CA  ASP   258      27.375  18.558  26.600  1.00  0.00              
ATOM    259  CA  ALA   259      24.256  20.468  25.568  1.00  0.00              
ATOM    260  CA  GLU   260      22.998  18.205  22.836  1.00  0.00              
ATOM    261  CA  GLY   261      22.994  14.975  24.802  1.00  0.00              
ATOM    262  CA  GLU   262      21.114  16.636  27.695  1.00  0.00              
ATOM    263  CA  ARG   263      18.421  18.078  25.388  1.00  0.00              
ATOM    264  CA  SER   264      17.886  14.831  23.354  1.00  0.00              
ATOM    265  CA  SER   265      17.555  12.934  26.643  1.00  0.00              
ATOM    266  CA  ALA   266      14.914  14.995  28.216  1.00  0.00              
ATOM    267  CA  ILE   267      12.816  15.380  25.014  1.00  0.00              
ATOM    268  CA  ASN   268       9.347  14.905  26.239  1.00  0.00              
ATOM    269  CA  THR   269       7.689  13.103  23.322  1.00  0.00              
ATOM    270  CA  SER   270       5.399  15.568  21.851  1.00  0.00              
ATOM    271  CA  PRO   271       6.980  15.984  18.424  1.00  0.00              
ATOM    272  CA  ILE   272       7.580  19.668  18.833  1.00  0.00              
ATOM    273  CA  SER   273       7.342  20.674  22.435  1.00  0.00              
ATOM    274  CA  VAL   274       6.512  24.189  23.266  1.00  0.00              
ATOM    275  CA  VAL   275       7.819  25.548  26.349  1.00  0.00              
ATOM    276  CA  ASP   276       6.012  28.334  28.134  1.00  0.00              
ATOM    277  CA  LYS   277       7.753  31.646  27.974  1.00  0.00              
ATOM    278  CA  GLU   278       7.191  32.287  31.587  1.00  0.00              
ATOM    279  CA  ARG   279       8.985  29.163  32.822  1.00  0.00              
ATOM    280  CA  PHE   280      12.303  29.404  30.939  1.00  0.00              
ATOM    281  CA  SER   281      12.761  33.155  31.337  1.00  0.00              
ATOM    282  CA  LYS   282      12.201  33.271  35.080  1.00  0.00              
ATOM    283  CA  TYR   283      14.649  30.597  36.155  1.00  0.00              
ATOM    284  CA  HIS   284      17.429  31.941  33.941  1.00  0.00              
ATOM    285  CA  ASP   285      17.306  35.678  34.829  1.00  0.00              
ATOM    286  CA  ASN   286      20.787  36.418  33.855  1.00  0.00              
ATOM    287  CA  TYR   287      21.374  34.088  31.005  1.00  0.00              
ATOM    288  CA  TYR   288      24.842  32.708  31.351  1.00  0.00              
ATOM    289  CA  PRO   289      25.894  30.432  28.633  1.00  0.00              
ATOM    290  CA  GLY   290      28.094  31.387  25.730  1.00  0.00              
ATOM    291  CA  TRP   291      26.339  29.666  22.893  1.00  0.00              
ATOM    292  CA  TYR   292      28.446  27.885  20.331  1.00  0.00              
ATOM    293  CA  LEU   293      26.175  27.167  17.276  1.00  0.00              
ATOM    294  CA  VAL   294      27.332  24.267  15.253  1.00  0.00              
ATOM    295  CA  ASP   295      26.892  23.397  11.700  1.00  0.00              
ATOM    296  CA  ASP   296      24.369  20.659  12.390  1.00  0.00              
ATOM    297  CA  THR   297      22.030  23.224  14.101  1.00  0.00              
ATOM    298  CA  LEU   298      22.311  25.777  11.247  1.00  0.00              
ATOM    299  CA  GLU   299      21.709  23.130   8.616  1.00  0.00              
ATOM    300  CA  ARG   300      18.592  21.735  10.329  1.00  0.00              
ATOM    301  CA  ALA   301      17.140  25.238  10.637  1.00  0.00              
ATOM    302  CA  GLY   302      17.713  25.945   6.883  1.00  0.00              
ATOM    303  CA  ARG   303      19.653  29.132   7.208  1.00  0.00              
ATOM    304  CA  ILE   304      17.321  30.616   3.943  1.00  0.00              
ATOM    305  CA  LYS   305      17.677  30.823   7.828  1.00  0.00              
ATOM    306  CA  ASN   306      16.557  31.778   4.063  1.00  0.00              
TER                                                                             
END
