
#######################################################
#                                                     #
#                        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   89 (   89),  selected   89 , name T0386TS599_3
# Molecule2: number of CA atoms  291 ( 2337),  selected  291 , name T0386.pdb
# PARAMETERS: T0386TS599_3.T0386.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      K       9           -
LGA    -       -      N      10           -
LGA    -       -      T      11           -
LGA    -       -      E      12           -
LGA    -       -      I      13           -
LGA    -       -      I      14           -
LGA    -       -      S      15           -
LGA    -       -      P      16           -
LGA    Q     211      H      17           #
LGA    H     212      H      18          2.255
LGA    L     213      Y      19          1.541
LGA    F     214      V      20          4.207
LGA    E     215      Y      21           #
LGA    D     216      P      22           -
LGA    -       -      N      23           -
LGA    -       -      T      24           -
LGA    -       -      T      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      N      29           -
LGA    -       -      K      30           -
LGA    -       -      Y      31           -
LGA    -       -      G      32           -
LGA    -       -      I      33           -
LGA    -       -      K      34           -
LGA    -       -      N      35           -
LGA    -       -      L      36           -
LGA    -       -      N      37           -
LGA    -       -      A      38           -
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    -       -      E      41           -
LGA    -       -      K      42           -
LGA    -       -      C      43           -
LGA    -       -      S      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      T      47           -
LGA    -       -      A      48           -
LGA    -       -      K      49           -
LGA    -       -      A      50           -
LGA    -       -      M      51           -
LGA    -       -      I      52           -
LGA    -       -      N      53           -
LGA    -       -      L      54           -
LGA    -       -      R      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      S      58           -
LGA    -       -      L      59           -
LGA    -       -      P      60           -
LGA    -       -      E      61           -
LGA    -       -      Y      62           -
LGA    -       -      F      63           -
LGA    -       -      D      64           -
LGA    -       -      T      65           -
LGA    -       -      A      66           -
LGA    -       -      Y      67           -
LGA    -       -      L      68           -
LGA    -       -      C      69           -
LGA    -       -      H      70           -
LGA    -       -      I      71           -
LGA    -       -      H      72           -
LGA    -       -      Q      73           -
LGA    -       -      Q      74           -
LGA    -       -      L      75           -
LGA    -       -      F      76           -
LGA    -       -      K      77           -
LGA    -       -      N      78           -
LGA    -       -      T      79           -
LGA    -       -      F      80           -
LGA    -       -      E      81           -
LGA    -       -      W      82           -
LGA    -       -      A      83           -
LGA    -       -      G      84           -
LGA    -       -      Y      85           -
LGA    -       -      L      86           -
LGA    -       -      R      87           -
LGA    -       -      H      88           -
LGA    -       -      I      89           -
LGA    -       -      P      90           -
LGA    -       -      F      91           -
LGA    -       -      T      92           -
LGA    -       -      F      93           -
LGA    -       -      A      94           -
LGA    -       -      D      95           -
LGA    -       -      G      96           -
LGA    -       -      T      97           -
LGA    -       -      T      98           -
LGA    I     217      A      99          4.964
LGA    S     218      A     100           -
LGA    N     219      -       -           -
LGA    P     220      -       -           -
LGA    E     221      -       -           -
LGA    K     222      -       -           -
LGA    I     223      M     101          4.867
LGA    R     224      P     102           #
LGA    L     225      E     103          1.784
LGA    L     226      M     104          5.098
LGA    -       -      K     105           -
LGA    -       -      R     106           -
LGA    -       -      T     107           -
LGA    -       -      G     108           -
LGA    -       -      W     109           -
LGA    -       -      K     110           -
LGA    -       -      N     111           -
LGA    -       -      A     112           -
LGA    -       -      F     113           -
LGA    K     227      A     114           #
LGA    E     228      I     115          2.805
LGA    F     229      -       -           -
LGA    M     230      G     116          4.594
LGA    H     231      D     117          2.562
LGA    T     232      E     118          2.119
LGA    M     233      I     119          2.107
LGA    K     234      Q     120          1.600
LGA    N     235      E     121          1.228
LGA    T     236      G     122          0.980
LGA    G     237      L     123          0.927
LGA    R     238      Q     124          1.058
LGA    N     239      R     125          1.021
LGA    V     240      L     126          1.021
LGA    N     241      D     127          1.714
LGA    D     242      Q     128          2.400
LGA    R     243      T     129          2.198
LGA    P     244      L     130          3.894
LGA    V     245      A     131           -
LGA    M     246      E     132           -
LGA    V     247      K     133           -
LGA    A     248      N     134           -
LGA    K     249      N     135           -
LGA    E     250      -       -           -
LGA    G     251      -       -           -
LGA    E     252      -       -           -
LGA    T     253      -       -           -
LGA    Y     254      L     136          4.242
LGA    T     255      Q     137          3.545
LGA    G     256      G     138           -
LGA    -       -      L     139           -
LGA    -       -      T     140           -
LGA    -       -      R     141           -
LGA    -       -      E     142           -
LGA    -       -      E     143           -
LGA    -       -      F     144           -
LGA    -       -      N     145           -
LGA    -       -      S     146           -
LGA    -       -      E     147           -
LGA    -       -      A     148           -
LGA    -       -      I     149           -
LGA    -       -      E     150           -
LGA    T     257      L     151           #
LGA    Y     258      F     152           -
LGA    R     259      N     153           -
LGA    G     260      S     154           -
LGA    A     261      -       -           -
LGA    G     262      -       -           -
LGA    L     263      -       -           -
LGA    E     264      L     155           #
LGA    G     265      N     156          3.744
LGA    -       -      Q     157           -
LGA    -       -      L     158           -
LGA    -       -      H     159           -
LGA    -       -      P     160           -
LGA    -       -      F     161           -
LGA    -       -      R     162           -
LGA    -       -      E     163           -
LGA    -       -      G     164           -
LGA    -       -      N     165           -
LGA    F     266      G     166           #
LGA    -       -      R     167           -
LGA    -       -      T     168           -
LGA    -       -      Q     169           -
LGA    -       -      R     170           -
LGA    -       -      L     171           -
LGA    A     267      F     172           #
LGA    L     268      F     173          3.355
LGA    N     269      E     174           #
LGA    V     270      N     175          3.485
LGA    K     271      L     176          3.808
LGA    G     272      A     177          2.643
LGA    -       -      K     178           -
LGA    -       -      A     179           -
LGA    -       -      A     180           -
LGA    -       -      G     181           -
LGA    -       -      H     182           -
LGA    A     273      Q     183          5.029
LGA    Y     274      L     184          5.173
LGA    -       -      N     185           -
LGA    I     275      F     186           #
LGA    I     276      S     187           -
LGA    -       -      L     188           -
LGA    -       -      I     189           -
LGA    -       -      T     190           -
LGA    -       -      K     191           -
LGA    -       -      E     192           -
LGA    -       -      R     193           -
LGA    G     277      M     194           #
LGA    N     278      M     195           -
LGA    I     279      V     196           -
LGA    D     280      A     197           -
LGA    H     281      S     198          4.133
LGA    L     282      V     199           -
LGA    P     283      A     200           #
LGA    -       -      V     201           -
LGA    -       -      A     202           -
LGA    -       -      E     203           -
LGA    -       -      N     204           -
LGA    -       -      G     205           -
LGA    P     284      D     206           #
LGA    E     285      L     207          2.707
LGA    -       -      E     208           -
LGA    Q     286      P     209          2.032
LGA    L     287      M     210          2.238
LGA    K     288      Q     211          2.076
LGA    I     289      H     212          2.310
LGA    L     290      L     213          2.778
LGA    K     291      F     214           #
LGA    -       -      E     215           -
LGA    P     292      D     216          1.670
LGA    G     293      I     217          1.056
LGA    D     294      S     218           #
LGA    K     295      N     219           -
LGA    I     296      P     220           -
LGA    T     297      E     221           -
LGA    F     298      K     222           -
LGA    T     299      I     223           -
LGA    -       -      R     224           -
LGA    -       -      L     225           -
LGA    -       -      L     226           -
LGA    -       -      K     227           -
LGA    -       -      E     228           -
LGA    -       -      F     229           -
LGA    -       -      M     230           -
LGA    -       -      H     231           -
LGA    -       -      T     232           -
LGA    -       -      M     233           -
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    -       -      T     236           -
LGA    -       -      G     237           -
LGA    -       -      R     238           -
LGA    -       -      N     239           -
LGA    -       -      V     240           -
LGA    -       -      N     241           -
LGA    -       -      D     242           -
LGA    -       -      R     243           -
LGA    -       -      P     244           -
LGA    -       -      V     245           -
LGA    -       -      M     246           -
LGA    -       -      V     247           -
LGA    -       -      A     248           -
LGA    -       -      K     249           -
LGA    -       -      E     250           -
LGA    -       -      G     251           -
LGA    -       -      E     252           -
LGA    -       -      T     253           -
LGA    -       -      Y     254           -
LGA    -       -      T     255           -
LGA    -       -      G     256           -
LGA    -       -      T     257           -
LGA    -       -      Y     258           -
LGA    -       -      R     259           -
LGA    -       -      G     260           -
LGA    -       -      A     261           -
LGA    -       -      G     262           -
LGA    -       -      L     263           -
LGA    -       -      E     264           -
LGA    -       -      G     265           -
LGA    -       -      F     266           -
LGA    -       -      A     267           -
LGA    -       -      L     268           -
LGA    -       -      N     269           -
LGA    -       -      V     270           -
LGA    -       -      K     271           -
LGA    -       -      G     272           -
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    -       -      I     275           -
LGA    -       -      I     276           -
LGA    -       -      G     277           -
LGA    -       -      N     278           -
LGA    -       -      I     279           -
LGA    -       -      D     280           -
LGA    -       -      H     281           -
LGA    -       -      L     282           -
LGA    -       -      P     283           -
LGA    -       -      P     284           -
LGA    -       -      E     285           -
LGA    -       -      Q     286           -
LGA    -       -      L     287           -
LGA    -       -      K     288           -
LGA    -       -      I     289           -
LGA    -       -      L     290           -
LGA    -       -      K     291           -
LGA    -       -      P     292           -
LGA    -       -      G     293           -
LGA    -       -      D     294           -
LGA    -       -      K     295           -
LGA    -       -      I     296           -
LGA    -       -      T     297           -
LGA    -       -      F     298           -
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   89  291    5.0     41    3.05     4.88      9.216     1.302

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.241188 * X  +   0.903981 * Y  +  -0.353052 * Z  +   9.802119
  Y_new =  -0.179783 * X  +  -0.399114 * Y  +  -0.899103 * Z  +  53.251335
  Z_new =  -0.953681 * X  +  -0.153380 * Y  +   0.258782 * Z  +  54.098526 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.535035    2.606557  [ DEG:   -30.6553    149.3447 ]
  Theta =   1.265243    1.876350  [ DEG:    72.4931    107.5069 ]
  Phi   =  -2.501039    0.640554  [ DEG:  -143.2990     36.7010 ]
 
# 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: T0386TS599_3                                  
REMARK     2: T0386.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_3.T0386.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   89  291   5.0   41   3.05    4.88   9.216
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_3
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    211  CA  GLN   211      23.935  65.084  32.529  1.00  0.00              
ATOM    212  CA  HIS   212      23.510  65.485  36.187  1.00  0.00              
ATOM    213  CA  LEU   213      23.123  63.780  40.013  1.00  0.00              
ATOM    214  CA  PHE   214      24.164  64.526  36.312  1.00  0.00              
ATOM    215  CA  GLU   215      27.607  63.084  37.171  1.00  0.00              
ATOM    216  CA  ASP   216      26.027  59.997  38.721  1.00  0.00              
ATOM    217  CA  ILE   217      23.736  59.333  35.697  1.00  0.00              
ATOM    218  CA  SER   218      26.684  59.664  33.296  1.00  0.00              
ATOM    219  CA  ASN   219      28.889  57.315  35.225  1.00  0.00              
ATOM    220  CA  PRO   220      27.453  53.868  34.833  1.00  0.00              
ATOM    221  CA  GLU   221      28.016  52.402  38.318  1.00  0.00              
ATOM    222  CA  LYS   222      25.850  55.071  40.028  1.00  0.00              
ATOM    223  CA  ILE   223      23.135  54.702  37.281  1.00  0.00              
ATOM    224  CA  ARG   224      22.694  50.925  37.136  1.00  0.00              
ATOM    225  CA  LEU   225      22.524  50.982  40.967  1.00  0.00              
ATOM    226  CA  LEU   226      19.987  53.858  41.279  1.00  0.00              
ATOM    227  CA  LYS   227      17.711  52.200  38.725  1.00  0.00              
ATOM    228  CA  GLU   228      17.809  48.896  40.650  1.00  0.00              
ATOM    229  CA  PHE   229      16.996  50.778  43.838  1.00  0.00              
ATOM    230  CA  MET   230      14.068  52.474  42.112  1.00  0.00              
ATOM    231  CA  HIS   231      12.770  49.092  40.873  1.00  0.00              
ATOM    232  CA  THR   232      13.079  47.630  44.386  1.00  0.00              
ATOM    233  CA  MET   233      11.297  50.649  45.905  1.00  0.00              
ATOM    234  CA  LYS   234       8.406  50.274  43.446  1.00  0.00              
ATOM    235  CA  ASN   235       8.074  46.556  44.306  1.00  0.00              
ATOM    236  CA  THR   236       8.081  47.413  48.008  1.00  0.00              
ATOM    237  CA  GLY   237       5.452  50.154  47.440  1.00  0.00              
ATOM    238  CA  ARG   238       2.827  47.888  45.998  1.00  0.00              
ATOM    239  CA  ASN   239       3.364  45.574  49.011  1.00  0.00              
ATOM    240  CA  VAL   240       3.180  48.427  51.470  1.00  0.00              
ATOM    241  CA  ASN   241      -0.051  50.058  50.223  1.00  0.00              
ATOM    242  CA  ASP   242      -1.975  46.923  51.035  1.00  0.00              
ATOM    243  CA  ARG   243      -0.589  46.623  54.515  1.00  0.00              
ATOM    244  CA  PRO   244      -0.077  49.806  56.439  1.00  0.00              
ATOM    245  CA  VAL   245      -0.122  49.576  60.227  1.00  0.00              
ATOM    246  CA  MET   246       1.176  52.430  62.223  1.00  0.00              
ATOM    247  CA  VAL   247       2.264  51.896  65.873  1.00  0.00              
ATOM    248  CA  ALA   248       2.807  54.796  68.142  1.00  0.00              
ATOM    249  CA  LYS   249       4.922  54.627  71.364  1.00  0.00              
ATOM    250  CA  GLU   250       1.755  54.534  73.402  1.00  0.00              
ATOM    251  CA  GLY   251       0.283  51.440  71.926  1.00  0.00              
ATOM    252  CA  GLU   252      -2.233  52.593  69.391  1.00  0.00              
ATOM    253  CA  THR   253      -2.513  50.720  66.172  1.00  0.00              
ATOM    254  CA  TYR   254      -3.621  52.754  63.215  1.00  0.00              
ATOM    255  CA  THR   255      -4.321  51.217  59.786  1.00  0.00              
ATOM    256  CA  GLY   256      -4.255  53.840  57.098  1.00  0.00              
ATOM    257  CA  THR   257      -2.323  53.135  53.960  1.00  0.00              
ATOM    258  CA  TYR   258      -0.491  56.241  52.870  1.00  0.00              
ATOM    259  CA  ARG   259       2.895  55.577  51.350  1.00  0.00              
ATOM    260  CA  GLY   260       5.110  58.576  50.911  1.00  0.00              
ATOM    261  CA  ALA   261       8.836  58.577  50.648  1.00  0.00              
ATOM    262  CA  GLY   262      10.199  56.861  47.604  1.00  0.00              
ATOM    263  CA  LEU   263      13.782  56.598  46.648  1.00  0.00              
ATOM    264  CA  GLU   264      15.451  55.404  49.886  1.00  0.00              
ATOM    265  CA  GLY   265      12.480  53.695  51.437  1.00  0.00              
ATOM    266  CA  PHE   266      10.561  55.651  54.123  1.00  0.00              
ATOM    267  CA  ALA   267       6.993  54.770  54.865  1.00  0.00              
ATOM    268  CA  LEU   268       4.508  57.346  56.059  1.00  0.00              
ATOM    269  CA  ASN   269       1.168  56.152  57.275  1.00  0.00              
ATOM    270  CA  VAL   270      -1.513  58.604  58.007  1.00  0.00              
ATOM    271  CA  LYS   271      -4.470  57.805  60.207  1.00  0.00              
ATOM    272  CA  GLY   272      -3.177  58.233  63.723  1.00  0.00              
ATOM    273  CA  ALA   273       0.361  59.049  62.785  1.00  0.00              
ATOM    274  CA  TYR   274       2.865  56.268  62.009  1.00  0.00              
ATOM    275  CA  ILE   275       6.235  56.972  60.755  1.00  0.00              
ATOM    276  CA  ILE   276       8.491  54.238  59.606  1.00  0.00              
ATOM    277  CA  GLY   277      12.011  55.126  58.749  1.00  0.00              
ATOM    278  CA  ASN   278      13.797  53.199  56.074  1.00  0.00              
ATOM    279  CA  ILE   279      11.548  50.115  55.948  1.00  0.00              
ATOM    280  CA  ASP   280      14.397  47.668  55.567  1.00  0.00              
ATOM    281  CA  HIS   281      16.492  48.933  58.414  1.00  0.00              
ATOM    282  CA  LEU   282      14.026  49.015  61.248  1.00  0.00              
ATOM    283  CA  PRO   283      13.751  45.802  63.224  1.00  0.00              
ATOM    284  CA  PRO   284      10.751  45.133  65.369  1.00  0.00              
ATOM    285  CA  GLU   285      13.080  44.815  68.336  1.00  0.00              
ATOM    286  CA  GLN   286      14.400  48.380  67.816  1.00  0.00              
ATOM    287  CA  LEU   287      10.961  49.857  67.418  1.00  0.00              
ATOM    288  CA  LYS   288       9.791  48.096  70.506  1.00  0.00              
ATOM    289  CA  ILE   289      12.754  49.211  72.596  1.00  0.00              
ATOM    290  CA  LEU   290      12.559  52.834  71.580  1.00  0.00              
ATOM    291  CA  LYS   291      10.646  55.413  73.411  1.00  0.00              
ATOM    292  CA  PRO   292       7.196  56.857  74.038  1.00  0.00              
ATOM    293  CA  GLY   293       6.216  58.863  70.910  1.00  0.00              
ATOM    294  CA  ASP   294       8.405  56.778  68.613  1.00  0.00              
ATOM    295  CA  LYS   295       6.887  55.629  65.366  1.00  0.00              
ATOM    296  CA  ILE   296       7.044  52.021  64.323  1.00  0.00              
ATOM    297  CA  THR   297       5.627  50.866  60.840  1.00  0.00              
ATOM    298  CA  PHE   298       4.310  47.404  60.493  1.00  0.00              
ATOM    299  CA  THR   299       3.886  45.691  57.011  1.00  0.00              
TER                                                                             
END
