
#######################################################
#                                                     #
#                        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_5
# Molecule2: number of CA atoms  291 ( 2337),  selected  291 , name T0386.pdb
# PARAMETERS: T0386TS599_5.T0386.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    Q     211      K       9           -
LGA    -       -      N      10           -
LGA    -       -      T      11           -
LGA    -       -      E      12           -
LGA    -       -      I      13           -
LGA    H     212      I      14           #
LGA    -       -      S      15           -
LGA    -       -      P      16           -
LGA    -       -      H      17           -
LGA    -       -      H      18           -
LGA    -       -      Y      19           -
LGA    -       -      V      20           -
LGA    -       -      Y      21           -
LGA    -       -      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    L     213      P      90           #
LGA    F     214      F      91           -
LGA    E     215      -       -           -
LGA    D     216      T      92          4.281
LGA    I     217      F      93           #
LGA    S     218      A      94           -
LGA    N     219      D      95          4.222
LGA    P     220      G      96           #
LGA    E     221      T      97          3.748
LGA    K     222      -       -           -
LGA    I     223      T      98          0.420
LGA    R     224      A      99          1.965
LGA    L     225      -       -           -
LGA    L     226      -       -           -
LGA    K     227      A     100          2.086
LGA    E     228      M     101          3.300
LGA    F     229      -       -           -
LGA    M     230      -       -           -
LGA    H     231      P     102          3.737
LGA    -       -      E     103           -
LGA    T     232      M     104           #
LGA    M     233      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    -       -      A     114           -
LGA    -       -      I     115           -
LGA    -       -      G     116           -
LGA    K     234      D     117          5.182
LGA    N     235      E     118          5.059
LGA    T     236      I     119          4.088
LGA    G     237      Q     120          3.111
LGA    R     238      E     121          3.161
LGA    N     239      G     122          2.913
LGA    V     240      L     123          3.494
LGA    -       -      Q     124           -
LGA    N     241      R     125          2.008
LGA    D     242      L     126           #
LGA    R     243      D     127           -
LGA    -       -      Q     128           -
LGA    -       -      T     129           -
LGA    -       -      L     130           -
LGA    -       -      A     131           -
LGA    -       -      E     132           -
LGA    -       -      K     133           -
LGA    -       -      N     134           -
LGA    -       -      N     135           -
LGA    -       -      L     136           -
LGA    -       -      Q     137           -
LGA    -       -      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    P     244      A     148           #
LGA    V     245      I     149          4.636
LGA    M     246      E     150          3.786
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      L     151           #
LGA    G     265      F     152          5.010
LGA    F     266      N     153          5.549
LGA    A     267      S     154          4.486
LGA    L     268      L     155           #
LGA    N     269      N     156          3.962
LGA    V     270      Q     157           #
LGA    K     271      L     158           -
LGA    G     272      H     159           -
LGA    -       -      P     160           -
LGA    -       -      F     161           -
LGA    -       -      R     162           -
LGA    -       -      E     163           -
LGA    -       -      G     164           -
LGA    A     273      N     165           #
LGA    Y     274      G     166          4.668
LGA    I     275      R     167           #
LGA    -       -      T     168           -
LGA    I     276      Q     169          3.306
LGA    G     277      R     170          4.575
LGA    -       -      L     171           -
LGA    -       -      F     172           -
LGA    N     278      F     173          3.998
LGA    I     279      E     174           #
LGA    D     280      N     175          4.778
LGA    H     281      L     176          1.635
LGA    L     282      A     177          2.417
LGA    P     283      K     178          3.485
LGA    P     284      A     179           -
LGA    -       -      A     180           -
LGA    -       -      G     181           -
LGA    -       -      H     182           -
LGA    E     285      Q     183          3.875
LGA    Q     286      L     184          1.323
LGA    L     287      N     185          3.941
LGA    K     288      F     186          2.011
LGA    I     289      S     187           #
LGA    L     290      L     188           #
LGA    K     291      I     189           #
LGA    P     292      T     190           #
LGA    G     293      K     191          4.966
LGA    D     294      E     192           #
LGA    -       -      R     193           -
LGA    -       -      M     194           -
LGA    K     295      M     195          1.916
LGA    -       -      V     196           -
LGA    I     296      A     197          2.388
LGA    T     297      S     198          2.938
LGA    -       -      V     199           -
LGA    -       -      A     200           -
LGA    F     298      V     201          2.421
LGA    -       -      A     202           -
LGA    -       -      E     203           -
LGA    -       -      N     204           -
LGA    T     299      G     205          1.758
LGA    -       -      D     206           -
LGA    -       -      L     207           -
LGA    -       -      E     208           -
LGA    -       -      P     209           -
LGA    -       -      M     210           -
LGA    -       -      Q     211           -
LGA    -       -      H     212           -
LGA    -       -      L     213           -
LGA    -       -      F     214           -
LGA    -       -      E     215           -
LGA    -       -      D     216           -
LGA    -       -      I     217           -
LGA    -       -      S     218           -
LGA    -       -      N     219           -
LGA    -       -      P     220           -
LGA    -       -      E     221           -
LGA    -       -      K     222           -
LGA    -       -      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     40    3.62     2.50      7.430     1.074

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.904152 * X  +  -0.126363 * Y  +  -0.408096 * Z  +  11.269234
  Y_new =   0.294810 * X  +  -0.875902 * Y  +  -0.381947 * Z  +  54.733963
  Z_new =  -0.309188 * X  +  -0.465649 * Y  +   0.829201 * Z  +  51.806774 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.511677    2.629915  [ DEG:   -29.3170    150.6830 ]
  Theta =   0.314339    2.827254  [ DEG:    18.0103    161.9897 ]
  Phi   =   2.826401   -0.315192  [ DEG:   161.9408    -18.0592 ]
 
# 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_5                                  
REMARK     2: T0386.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_5.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   40   3.62    2.50   7.430
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_5
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM    211  CA  GLN   211      17.274  64.723  19.916  1.00  0.00              
ATOM    212  CA  HIS   212      15.831  62.215  22.058  1.00  0.00              
ATOM    213  CA  LEU   213      13.309  60.570  24.990  1.00  0.00              
ATOM    214  CA  PHE   214      15.176  63.235  22.894  1.00  0.00              
ATOM    215  CA  GLU   215      14.803  65.863  25.547  1.00  0.00              
ATOM    216  CA  ASP   216      16.133  63.553  28.256  1.00  0.00              
ATOM    217  CA  ILE   217      19.130  62.590  26.087  1.00  0.00              
ATOM    218  CA  SER   218      20.142  66.133  25.265  1.00  0.00              
ATOM    219  CA  ASN   219      20.411  67.797  28.606  1.00  0.00              
ATOM    220  CA  PRO   220      22.670  65.416  30.594  1.00  0.00              
ATOM    221  CA  GLU   221      21.803  66.756  34.007  1.00  0.00              
ATOM    222  CA  LYS   222      18.009  66.545  33.465  1.00  0.00              
ATOM    223  CA  ILE   223      18.468  62.949  32.223  1.00  0.00              
ATOM    224  CA  ARG   224      20.744  61.617  35.000  1.00  0.00              
ATOM    225  CA  LEU   225      18.478  63.116  37.690  1.00  0.00              
ATOM    226  CA  LEU   226      15.234  61.801  36.186  1.00  0.00              
ATOM    227  CA  LYS   227      16.857  58.364  35.949  1.00  0.00              
ATOM    228  CA  GLU   228      17.835  58.488  39.653  1.00  0.00              
ATOM    229  CA  PHE   229      14.285  59.513  40.621  1.00  0.00              
ATOM    230  CA  MET   230      12.830  56.701  38.550  1.00  0.00              
ATOM    231  CA  HIS   231      15.205  54.175  40.192  1.00  0.00              
ATOM    232  CA  THR   232      14.275  55.448  43.629  1.00  0.00              
ATOM    233  CA  MET   233      10.551  55.156  42.802  1.00  0.00              
ATOM    234  CA  LYS   234      11.157  51.586  41.658  1.00  0.00              
ATOM    235  CA  ASN   235      13.014  50.692  44.863  1.00  0.00              
ATOM    236  CA  THR   236      10.267  52.168  47.008  1.00  0.00              
ATOM    237  CA  GLY   237       7.653  50.238  45.097  1.00  0.00              
ATOM    238  CA  ARG   238       9.553  46.980  45.584  1.00  0.00              
ATOM    239  CA  ASN   239      10.055  47.551  49.300  1.00  0.00              
ATOM    240  CA  VAL   240       6.433  48.471  49.876  1.00  0.00              
ATOM    241  CA  ASN   241       5.180  45.430  48.035  1.00  0.00              
ATOM    242  CA  ASP   242       7.434  43.079  49.956  1.00  0.00              
ATOM    243  CA  ARG   243       6.946  43.693  53.505  1.00  0.00              
ATOM    244  CA  PRO   244       6.768  46.488  56.019  1.00  0.00              
ATOM    245  CA  VAL   245       9.440  46.937  58.632  1.00  0.00              
ATOM    246  CA  MET   246       8.618  48.461  61.978  1.00  0.00              
ATOM    247  CA  VAL   247      11.270  50.382  64.027  1.00  0.00              
ATOM    248  CA  ALA   248      10.451  51.631  67.500  1.00  0.00              
ATOM    249  CA  LYS   249      11.478  54.739  69.408  1.00  0.00              
ATOM    250  CA  GLU   250      13.875  52.945  71.683  1.00  0.00              
ATOM    251  CA  GLY   251      15.827  51.307  68.903  1.00  0.00              
ATOM    252  CA  GLU   252      14.036  47.985  68.723  1.00  0.00              
ATOM    253  CA  THR   253      14.024  46.494  65.338  1.00  0.00              
ATOM    254  CA  TYR   254      10.809  44.585  64.436  1.00  0.00              
ATOM    255  CA  THR   255      10.251  42.771  61.252  1.00  0.00              
ATOM    256  CA  GLY   256       6.583  42.956  60.545  1.00  0.00              
ATOM    257  CA  THR   257       6.021  41.543  57.102  1.00  0.00              
ATOM    258  CA  TYR   258       3.241  43.650  55.565  1.00  0.00              
ATOM    259  CA  ARG   259       1.888  42.172  52.340  1.00  0.00              
ATOM    260  CA  GLY   260       0.853  45.324  50.425  1.00  0.00              
ATOM    261  CA  ALA   261      -0.594  47.464  53.189  1.00  0.00              
ATOM    262  CA  GLY   262       0.953  50.864  52.894  1.00  0.00              
ATOM    263  CA  LEU   263      -0.164  53.403  55.410  1.00  0.00              
ATOM    264  CA  GLU   264       0.289  51.706  58.723  1.00  0.00              
ATOM    265  CA  GLY   265       3.648  50.176  57.953  1.00  0.00              
ATOM    266  CA  PHE   266       6.811  51.890  59.276  1.00  0.00              
ATOM    267  CA  ALA   267      10.042  51.350  57.425  1.00  0.00              
ATOM    268  CA  LEU   268      13.311  51.978  59.127  1.00  0.00              
ATOM    269  CA  ASN   269      16.449  51.889  57.157  1.00  0.00              
ATOM    270  CA  VAL   270      19.759  52.272  58.858  1.00  0.00              
ATOM    271  CA  LYS   271      22.815  53.445  57.008  1.00  0.00              
ATOM    272  CA  GLY   272      22.556  57.088  55.952  1.00  0.00              
ATOM    273  CA  ALA   273      19.425  57.440  58.002  1.00  0.00              
ATOM    274  CA  TYR   274      16.129  56.850  56.326  1.00  0.00              
ATOM    275  CA  ILE   275      12.864  56.799  58.148  1.00  0.00              
ATOM    276  CA  ILE   276       9.831  56.014  56.276  1.00  0.00              
ATOM    277  CA  GLY   277       6.500  56.636  57.841  1.00  0.00              
ATOM    278  CA  ASN   278       3.377  55.695  56.005  1.00  0.00              
ATOM    279  CA  ILE   279       1.641  59.012  55.874  1.00  0.00              
ATOM    280  CA  ASP   280      -1.918  58.310  56.463  1.00  0.00              
ATOM    281  CA  HIS   281      -1.602  56.218  59.556  1.00  0.00              
ATOM    282  CA  LEU   282       1.011  57.975  61.562  1.00  0.00              
ATOM    283  CA  PRO   283      -0.057  59.462  64.844  1.00  0.00              
ATOM    284  CA  PRO   284       1.633  62.745  65.821  1.00  0.00              
ATOM    285  CA  GLU   285       3.393  60.953  68.637  1.00  0.00              
ATOM    286  CA  GLN   286       4.885  58.390  66.242  1.00  0.00              
ATOM    287  CA  LEU   287       5.993  60.944  63.647  1.00  0.00              
ATOM    288  CA  LYS   288       7.654  62.953  66.400  1.00  0.00              
ATOM    289  CA  ILE   289       9.501  59.925  67.810  1.00  0.00              
ATOM    290  CA  LEU   290      10.927  58.778  64.469  1.00  0.00              
ATOM    291  CA  LYS   291      12.180  61.840  62.585  1.00  0.00              
ATOM    292  CA  PRO   292      13.527  62.394  59.146  1.00  0.00              
ATOM    293  CA  GLY   293      17.173  61.371  58.908  1.00  0.00              
ATOM    294  CA  ASP   294      16.988  58.942  61.873  1.00  0.00              
ATOM    295  CA  LYS   295      18.328  55.482  61.484  1.00  0.00              
ATOM    296  CA  ILE   296      16.473  52.384  62.867  1.00  0.00              
ATOM    297  CA  THR   297      17.871  48.925  61.590  1.00  0.00              
ATOM    298  CA  PHE   298      15.069  45.989  60.875  1.00  0.00              
ATOM    299  CA  THR   299      15.714  42.384  61.644  1.00  0.00              
TER                                                                             
END
