
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms  291 ( 2337),  selected  291 , name T0386.pdb
# PARAMETERS: T0386TS599_2.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    H     212      N      10           -
LGA    L     213      T      11           -
LGA    F     214      E      12           -
LGA    -       -      I      13           -
LGA    -       -      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    E     215      L      36           #
LGA    D     216      -       -           -
LGA    I     217      -       -           -
LGA    S     218      N      37          4.961
LGA    -       -      A      38           -
LGA    -       -      F      39           -
LGA    N     219      L      40          1.795
LGA    P     220      E      41          1.428
LGA    E     221      K      42          1.440
LGA    K     222      C      43          1.530
LGA    I     223      S      44          1.046
LGA    R     224      H      45          0.682
LGA    L     225      D      46          0.735
LGA    L     226      T      47          0.788
LGA    K     227      A      48          0.887
LGA    E     228      K      49          0.659
LGA    F     229      A      50          0.496
LGA    M     230      M      51          1.303
LGA    H     231      I      52          1.311
LGA    T     232      N      53          0.480
LGA    M     233      L      54          0.439
LGA    K     234      R      55          0.378
LGA    N     235      E      56          1.731
LGA    T     236      E      57          2.036
LGA    G     237      -       -           -
LGA    R     238      S      58          1.265
LGA    N     239      -       -           -
LGA    V     240      L      59          4.740
LGA    N     241      P      60          2.061
LGA    D     242      E      61          5.049
LGA    R     243      Y      62           #
LGA    P     244      F      63           #
LGA    V     245      D      64           #
LGA    M     246      T      65          3.313
LGA    V     247      A      66          5.172
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      Y      67          3.924
LGA    T     257      -       -           -
LGA    Y     258      -       -           -
LGA    R     259      L      68          3.963
LGA    G     260      C      69           -
LGA    A     261      H      70           -
LGA    G     262      I      71           -
LGA    L     263      -       -           -
LGA    E     264      -       -           -
LGA    G     265      -       -           -
LGA    F     266      -       -           -
LGA    A     267      -       -           -
LGA    L     268      H      72          1.313
LGA    N     269      Q      73          0.969
LGA    V     270      Q      74          0.405
LGA    K     271      L      75           #
LGA    G     272      F      76           -
LGA    A     273      K      77           -
LGA    -       -      N      78           -
LGA    -       -      T      79           -
LGA    -       -      F      80           -
LGA    -       -      E      81           -
LGA    -       -      W      82           -
LGA    -       -      A      83           -
LGA    Y     274      G      84          4.754
LGA    I     275      -       -           -
LGA    I     276      Y      85          3.357
LGA    G     277      L      86          2.611
LGA    N     278      R      87          1.955
LGA    I     279      -       -           -
LGA    D     280      H      88          2.719
LGA    H     281      I      89          4.473
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    -       -      A      99           -
LGA    -       -      A     100           -
LGA    L     282      M     101          0.647
LGA    P     283      P     102           #
LGA    P     284      E     103          5.021
LGA    E     285      M     104           #
LGA    Q     286      K     105           #
LGA    L     287      -       -           -
LGA    K     288      R     106          1.872
LGA    I     289      T     107          3.007
LGA    L     290      G     108          2.759
LGA    K     291      W     109          2.293
LGA    P     292      K     110          3.122
LGA    G     293      N     111          3.965
LGA    -       -      A     112           -
LGA    -       -      F     113           -
LGA    -       -      A     114           -
LGA    -       -      I     115           -
LGA    -       -      G     116           -
LGA    -       -      D     117           -
LGA    -       -      E     118           -
LGA    -       -      I     119           -
LGA    -       -      Q     120           -
LGA    -       -      E     121           -
LGA    -       -      G     122           -
LGA    -       -      L     123           -
LGA    -       -      Q     124           -
LGA    -       -      R     125           -
LGA    -       -      L     126           -
LGA    -       -      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    -       -      A     148           -
LGA    -       -      I     149           -
LGA    -       -      E     150           -
LGA    -       -      L     151           -
LGA    -       -      F     152           -
LGA    -       -      N     153           -
LGA    -       -      S     154           -
LGA    -       -      L     155           -
LGA    -       -      N     156           -
LGA    -       -      Q     157           -
LGA    -       -      L     158           -
LGA    -       -      H     159           -
LGA    -       -      P     160           -
LGA    -       -      F     161           -
LGA    -       -      R     162           -
LGA    D     294      E     163          4.481
LGA    K     295      G     164          1.567
LGA    I     296      -       -           -
LGA    T     297      N     165           #
LGA    F     298      G     166           -
LGA    T     299      R     167           -
LGA    -       -      T     168           -
LGA    -       -      Q     169           -
LGA    -       -      R     170           -
LGA    -       -      L     171           -
LGA    -       -      F     172           -
LGA    -       -      F     173           -
LGA    -       -      E     174           -
LGA    -       -      N     175           -
LGA    -       -      L     176           -
LGA    -       -      A     177           -
LGA    -       -      K     178           -
LGA    -       -      A     179           -
LGA    -       -      A     180           -
LGA    -       -      G     181           -
LGA    -       -      H     182           -
LGA    -       -      Q     183           -
LGA    -       -      L     184           -
LGA    -       -      N     185           -
LGA    -       -      F     186           -
LGA    -       -      S     187           -
LGA    -       -      L     188           -
LGA    -       -      I     189           -
LGA    -       -      T     190           -
LGA    -       -      K     191           -
LGA    -       -      E     192           -
LGA    -       -      R     193           -
LGA    -       -      M     194           -
LGA    -       -      M     195           -
LGA    -       -      V     196           -
LGA    -       -      A     197           -
LGA    -       -      S     198           -
LGA    -       -      V     199           -
LGA    -       -      A     200           -
LGA    -       -      V     201           -
LGA    -       -      A     202           -
LGA    -       -      E     203           -
LGA    -       -      N     204           -
LGA    -       -      G     205           -
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     46    2.74     2.17     10.686     1.618

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.791151 * X  +  -0.463985 * Y  +   0.398494 * Z  +  10.492784
  Y_new =   0.338030 * X  +  -0.874695 * Y  +  -0.347338 * Z  +  63.410248
  Z_new =   0.509721 * X  +  -0.140094 * Y  +   0.848857 * Z  +  49.091522 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.163564    2.978029  [ DEG:    -9.3715    170.6285 ]
  Theta =  -0.534860   -2.606733  [ DEG:   -30.6452   -149.3548 ]
  Phi   =   2.737806   -0.403786  [ DEG:   156.8647    -23.1353 ]
 
# 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_2                                  
REMARK     2: T0386.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_2.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   46   2.74    2.17  10.686
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_2
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM    211  CA  GLN   211      25.272  66.280  57.115  1.00  0.00              
ATOM    212  CA  HIS   212      22.230  64.779  54.645  1.00  0.00              
ATOM    213  CA  LEU   213      19.294  65.078  51.625  1.00  0.00              
ATOM    214  CA  PHE   214      22.226  65.755  54.010  1.00  0.00              
ATOM    215  CA  GLU   215      23.789  67.933  51.281  1.00  0.00              
ATOM    216  CA  ASP   216      20.528  69.769  50.843  1.00  0.00              
ATOM    217  CA  ILE   217      20.031  70.486  54.577  1.00  0.00              
ATOM    218  CA  SER   218      23.613  71.788  54.822  1.00  0.00              
ATOM    219  CA  ASN   219      22.971  74.252  51.957  1.00  0.00              
ATOM    220  CA  PRO   220      20.985  77.008  53.699  1.00  0.00              
ATOM    221  CA  GLU   221      18.691  78.283  51.017  1.00  0.00              
ATOM    222  CA  LYS   222      17.270  74.849  50.241  1.00  0.00              
ATOM    223  CA  ILE   223      16.964  73.857  53.889  1.00  0.00              
ATOM    224  CA  ARG   224      15.156  76.910  55.329  1.00  0.00              
ATOM    225  CA  LEU   225      12.622  76.714  52.555  1.00  0.00              
ATOM    226  CA  LEU   226      11.966  73.020  52.667  1.00  0.00              
ATOM    227  CA  LYS   227      11.397  73.236  56.443  1.00  0.00              
ATOM    228  CA  GLU   228       8.847  76.024  55.969  1.00  0.00              
ATOM    229  CA  PHE   229       7.027  73.981  53.289  1.00  0.00              
ATOM    230  CA  MET   230       6.942  70.865  55.448  1.00  0.00              
ATOM    231  CA  HIS   231       5.568  72.972  58.347  1.00  0.00              
ATOM    232  CA  THR   232       2.750  74.265  56.152  1.00  0.00              
ATOM    233  CA  MET   233       1.944  70.700  55.054  1.00  0.00              
ATOM    234  CA  LYS   234       1.729  69.511  58.681  1.00  0.00              
ATOM    235  CA  ASN   235      -0.621  72.402  59.666  1.00  0.00              
ATOM    236  CA  THR   236      -2.816  71.658  56.738  1.00  0.00              
ATOM    237  CA  GLY   237      -2.718  68.004  57.954  1.00  0.00              
ATOM    238  CA  ARG   238      -6.248  67.580  56.907  1.00  0.00              
ATOM    239  CA  ASN   239      -5.433  69.060  53.449  1.00  0.00              
ATOM    240  CA  VAL   240      -2.392  66.788  53.003  1.00  0.00              
ATOM    241  CA  ASN   241      -4.263  63.558  53.903  1.00  0.00              
ATOM    242  CA  ASP   242      -6.796  64.316  51.164  1.00  0.00              
ATOM    243  CA  ARG   243      -4.112  65.086  48.539  1.00  0.00              
ATOM    244  CA  PRO   244      -1.325  62.563  48.610  1.00  0.00              
ATOM    245  CA  VAL   245       0.122  61.263  45.326  1.00  0.00              
ATOM    246  CA  MET   246       2.675  58.483  45.317  1.00  0.00              
ATOM    247  CA  VAL   247       4.783  57.922  42.134  1.00  0.00              
ATOM    248  CA  ALA   248       6.909  54.827  41.888  1.00  0.00              
ATOM    249  CA  LYS   249      10.104  54.560  39.832  1.00  0.00              
ATOM    250  CA  GLU   250       8.308  52.466  37.181  1.00  0.00              
ATOM    251  CA  GLY   251       5.597  54.960  36.446  1.00  0.00              
ATOM    252  CA  GLU   252       2.795  53.650  38.635  1.00  0.00              
ATOM    253  CA  THR   253       0.604  56.290  40.107  1.00  0.00              
ATOM    254  CA  TYR   254      -0.326  55.710  43.774  1.00  0.00              
ATOM    255  CA  THR   255      -2.729  57.733  45.793  1.00  0.00              
ATOM    256  CA  GLY   256      -1.840  57.431  49.428  1.00  0.00              
ATOM    257  CA  THR   257      -1.988  59.640  52.301  1.00  0.00              
ATOM    258  CA  TYR   258       1.344  58.914  54.092  1.00  0.00              
ATOM    259  CA  ARG   259       3.130  56.556  51.837  1.00  0.00              
ATOM    260  CA  GLY   260       5.980  55.209  53.992  1.00  0.00              
ATOM    261  CA  ALA   261       8.342  52.755  52.245  1.00  0.00              
ATOM    262  CA  GLY   262      11.232  54.806  50.992  1.00  0.00              
ATOM    263  CA  LEU   263      13.937  52.252  50.555  1.00  0.00              
ATOM    264  CA  GLU   264      15.848  53.371  47.521  1.00  0.00              
ATOM    265  CA  GLY   265      15.824  57.116  47.492  1.00  0.00              
ATOM    266  CA  PHE   266      12.750  59.118  48.448  1.00  0.00              
ATOM    267  CA  ALA   267      11.999  62.430  46.872  1.00  0.00              
ATOM    268  CA  LEU   268       9.357  64.563  48.394  1.00  0.00              
ATOM    269  CA  ASN   269       7.664  67.191  46.331  1.00  0.00              
ATOM    270  CA  VAL   270       5.569  69.671  48.059  1.00  0.00              
ATOM    271  CA  LYS   271       2.747  71.365  46.207  1.00  0.00              
ATOM    272  CA  GLY   272      -0.227  69.222  47.382  1.00  0.00              
ATOM    273  CA  ALA   273       1.913  66.252  48.520  1.00  0.00              
ATOM    274  CA  TYR   274       3.837  64.353  45.882  1.00  0.00              
ATOM    275  CA  ILE   275       6.055  61.386  46.852  1.00  0.00              
ATOM    276  CA  ILE   276       8.508  60.185  44.322  1.00  0.00              
ATOM    277  CA  GLY   277      10.164  56.972  44.805  1.00  0.00              
ATOM    278  CA  ASN   278      13.209  56.302  42.886  1.00  0.00              
ATOM    279  CA  ILE   279      14.838  53.066  43.391  1.00  0.00              
ATOM    280  CA  ASP   280      14.618  51.728  39.892  1.00  0.00              
ATOM    281  CA  HIS   281      16.015  54.820  38.179  1.00  0.00              
ATOM    282  CA  LEU   282      19.102  55.489  40.108  1.00  0.00              
ATOM    283  CA  PRO   283      22.465  55.294  38.442  1.00  0.00              
ATOM    284  CA  PRO   284      25.288  53.708  40.330  1.00  0.00              
ATOM    285  CA  GLU   285      27.079  57.069  40.617  1.00  0.00              
ATOM    286  CA  GLN   286      23.910  58.729  42.015  1.00  0.00              
ATOM    287  CA  LEU   287      23.336  56.056  44.599  1.00  0.00              
ATOM    288  CA  LYS   288      26.810  56.398  45.917  1.00  0.00              
ATOM    289  CA  ILE   289      26.742  60.210  46.054  1.00  0.00              
ATOM    290  CA  LEU   290      23.408  60.400  47.870  1.00  0.00              
ATOM    291  CA  LYS   291      23.264  57.654  50.537  1.00  0.00              
ATOM    292  CA  PRO   292      20.485  55.046  50.571  1.00  0.00              
ATOM    293  CA  GLY   293      17.584  56.201  52.639  1.00  0.00              
ATOM    294  CA  ASP   294      18.293  59.870  52.077  1.00  0.00              
ATOM    295  CA  LYS   295      15.374  62.170  51.742  1.00  0.00              
ATOM    296  CA  ILE   296      15.350  65.035  49.329  1.00  0.00              
ATOM    297  CA  THR   297      12.630  67.784  49.688  1.00  0.00              
ATOM    298  CA  PHE   298      11.605  69.908  46.738  1.00  0.00              
ATOM    299  CA  THR   299       8.381  72.620  46.974  1.00  0.00              
TER                                                                             
END
