
#######################################################
#                                                     #
#                        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   81 (   81),  selected   81 , name T0386TS599_3-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS599_3-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
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      N     219          1.993
LGA    N     235      P     220          2.445
LGA    T     236      E     221          1.670
LGA    G     237      K     222          1.476
LGA    R     238      I     223          1.272
LGA    N     239      R     224          1.072
LGA    V     240      L     225          1.107
LGA    N     241      L     226          2.093
LGA    D     242      K     227          1.834
LGA    R     243      E     228          1.078
LGA    P     244      F     229          1.699
LGA    V     245      M     230           #
LGA    M     246      H     231           -
LGA    V     247      -       -           -
LGA    A     248      -       -           -
LGA    K     249      -       -           -
LGA    E     250      -       -           -
LGA    G     251      -       -           -
LGA    E     252      -       -           -
LGA    T     253      -       -           -
LGA    Y     254      T     232          4.887
LGA    T     255      M     233          4.397
LGA    G     256      K     234           #
LGA    T     257      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    Y     258      P     244           #
LGA    R     259      V     245          4.212
LGA    G     260      M     246          0.396
LGA    A     261      V     247          3.382
LGA    G     262      A     248          4.540
LGA    L     263      K     249          2.656
LGA    E     264      E     250          1.410
LGA    G     265      G     251           -
LGA    -       -      E     252           -
LGA    -       -      T     253           -
LGA    F     266      Y     254           #
LGA    A     267      T     255           -
LGA    L     268      G     256           -
LGA    N     269      T     257           -
LGA    V     270      Y     258           -
LGA    K     271      -       -           -
LGA    G     272      -       -           -
LGA    A     273      R     259          4.902
LGA    -       -      G     260           -
LGA    -       -      A     261           -
LGA    -       -      G     262           -
LGA    -       -      L     263           -
LGA    -       -      E     264           -
LGA    -       -      G     265           -
LGA    -       -      F     266           -
LGA    Y     274      A     267          3.598
LGA    I     275      L     268          1.117
LGA    -       -      N     269           -
LGA    -       -      V     270           -
LGA    -       -      K     271           -
LGA    -       -      G     272           -
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    I     276      I     275           #
LGA    G     277      I     276           #
LGA    N     278      G     277          4.295
LGA    I     279      N     278          1.893
LGA    -       -      I     279           -
LGA    D     280      D     280          3.449
LGA    H     281      H     281          1.336
LGA    L     282      L     282          1.369
LGA    P     283      P     283          5.239
LGA    P     284      P     284           #
LGA    E     285      E     285          5.011
LGA    Q     286      Q     286          1.489
LGA    L     287      L     287          1.778
LGA    K     288      K     288          2.545
LGA    I     289      I     289          1.174
LGA    L     290      L     290          2.978
LGA    K     291      K     291          4.836
LGA    P     292      P     292           #
LGA    G     293      G     293          1.702
LGA    D     294      D     294          2.231
LGA    K     295      K     295           #
LGA    I     296      I     296           -
LGA    T     297      T     297           -
LGA    F     298      F     298           -
LGA    T     299      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   81   81    5.0     37    2.92    37.84     29.843     1.227

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.665216 * X  +  -0.488438 * Y  +  -0.564727 * Z  +  12.813249
  Y_new =  -0.152734 * X  +  -0.651335 * Y  +   0.743259 * Z  +  57.236900
  Z_new =  -0.730863 * X  +   0.580681 * Y  +   0.358677 * Z  +  82.124367 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.017475   -2.124117  [ DEG:    58.2970   -121.7030 ]
  Theta =   0.819585    2.322007  [ DEG:    46.9588    133.0412 ]
  Phi   =  -2.915903    0.225689  [ DEG:  -167.0690     12.9310 ]
 
# 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-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_3-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   81   81   5.0   37   2.92   37.84  29.843
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_3-D2
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    219  CA  ASN   219       3.966  31.881  78.147  1.00  0.00              
ATOM    220  CA  PRO   220       1.028  34.191  78.505  1.00  0.00              
ATOM    221  CA  GLU   221       1.739  35.818  81.890  1.00  0.00              
ATOM    222  CA  LYS   222       5.074  37.313  80.716  1.00  0.00              
ATOM    223  CA  ILE   223       3.446  38.462  77.386  1.00  0.00              
ATOM    224  CA  ARG   224       0.294  40.197  78.628  1.00  0.00              
ATOM    225  CA  LEU   225       2.512  41.991  81.191  1.00  0.00              
ATOM    226  CA  LEU   226       5.260  43.098  78.736  1.00  0.00              
ATOM    227  CA  LYS   227       2.644  44.465  76.340  1.00  0.00              
ATOM    228  CA  GLU   228       1.004  46.486  79.143  1.00  0.00              
ATOM    229  CA  PHE   229       4.413  47.827  80.113  1.00  0.00              
ATOM    230  CA  MET   230       5.075  48.810  76.505  1.00  0.00              
ATOM    231  CA  HIS   231       1.703  50.613  76.320  1.00  0.00              
ATOM    232  CA  THR   232       2.453  52.456  79.578  1.00  0.00              
ATOM    233  CA  MET   233       5.937  53.423  78.342  1.00  0.00              
ATOM    234  CA  LYS   234       4.480  54.843  75.116  1.00  0.00              
ATOM    235  CA  ASN   235       1.934  56.906  77.101  1.00  0.00              
ATOM    236  CA  THR   236       4.723  58.195  79.337  1.00  0.00              
ATOM    237  CA  GLY   237       6.872  59.044  76.269  1.00  0.00              
ATOM    238  CA  ARG   238       4.411  61.412  74.708  1.00  0.00              
ATOM    239  CA  ASN   239       4.161  63.176  78.107  1.00  0.00              
ATOM    240  CA  VAL   240       7.908  63.316  78.517  1.00  0.00              
ATOM    241  CA  ASN   241       8.810  64.780  75.097  1.00  0.00              
ATOM    242  CA  ASP   242       6.847  67.897  75.886  1.00  0.00              
ATOM    243  CA  ARG   243       8.446  68.406  79.248  1.00  0.00              
ATOM    244  CA  PRO   244      12.106  67.619  79.545  1.00  0.00              
ATOM    245  CA  VAL   245      14.053  69.402  82.271  1.00  0.00              
ATOM    246  CA  MET   246      17.418  68.132  83.209  1.00  0.00              
ATOM    247  CA  VAL   247      18.946  69.048  86.617  1.00  0.00              
ATOM    248  CA  ALA   248      22.564  68.495  87.293  1.00  0.00              
ATOM    249  CA  LYS   249      24.067  68.248  90.838  1.00  0.00              
ATOM    250  CA  GLU   250      25.397  71.755  90.486  1.00  0.00              
ATOM    251  CA  GLY   251      22.141  73.485  89.914  1.00  0.00              
ATOM    252  CA  GLU   252      21.868  73.985  86.204  1.00  0.00              
ATOM    253  CA  THR   253      18.538  73.517  84.580  1.00  0.00              
ATOM    254  CA  TYR   254      18.635  72.349  81.010  1.00  0.00              
ATOM    255  CA  THR   255      15.497  72.003  78.856  1.00  0.00              
ATOM    256  CA  GLY   256      16.135  69.774  75.901  1.00  0.00              
ATOM    257  CA  THR   257      13.631  67.094  75.110  1.00  0.00              
ATOM    258  CA  TYR   258      15.421  63.943  74.085  1.00  0.00              
ATOM    259  CA  ARG   259      13.743  60.773  75.246  1.00  0.00              
ATOM    260  CA  GLY   260      15.780  57.634  74.943  1.00  0.00              
ATOM    261  CA  ALA   261      15.328  54.485  76.899  1.00  0.00              
ATOM    262  CA  GLY   262      12.091  52.695  76.275  1.00  0.00              
ATOM    263  CA  LEU   263      11.044  49.459  77.775  1.00  0.00              
ATOM    264  CA  GLU   264      11.750  49.972  81.507  1.00  0.00              
ATOM    265  CA  GLY   265      11.460  53.722  81.610  1.00  0.00              
ATOM    266  CA  PHE   266      14.739  55.716  81.563  1.00  0.00              
ATOM    267  CA  ALA   267      14.723  59.282  80.405  1.00  0.00              
ATOM    268  CA  LEU   268      17.717  60.848  78.725  1.00  0.00              
ATOM    269  CA  ASN   269      17.693  64.554  78.162  1.00  0.00              
ATOM    270  CA  VAL   270      20.340  66.125  76.099  1.00  0.00              
ATOM    271  CA  LYS   271      21.164  69.800  76.279  1.00  0.00              
ATOM    272  CA  GLY   272      23.390  70.124  79.305  1.00  0.00              
ATOM    273  CA  ALA   273      23.244  66.521  80.335  1.00  0.00              
ATOM    274  CA  TYR   274      20.315  65.201  82.406  1.00  0.00              
ATOM    275  CA  ILE   275      19.913  61.640  83.166  1.00  0.00              
ATOM    276  CA  ILE   276      16.833  60.341  84.813  1.00  0.00              
ATOM    277  CA  GLY   277      16.794  56.761  85.860  1.00  0.00              
ATOM    278  CA  ASN   278      13.556  54.869  85.826  1.00  0.00              
ATOM    279  CA  ILE   279      11.133  57.820  85.749  1.00  0.00              
ATOM    280  CA  ASP   280       8.674  56.265  88.155  1.00  0.00              
ATOM    281  CA  HIS   281      11.146  55.324  90.819  1.00  0.00              
ATOM    282  CA  LEU   282      13.010  58.541  91.353  1.00  0.00              
ATOM    283  CA  PRO   283      11.505  60.854  93.938  1.00  0.00              
ATOM    284  CA  PRO   284      12.408  64.492  94.000  1.00  0.00              
ATOM    285  CA  GLU   285      13.627  64.015  97.552  1.00  0.00              
ATOM    286  CA  GLN   286      16.157  61.354  96.439  1.00  0.00              
ATOM    287  CA  LEU   287      17.429  63.419  93.559  1.00  0.00              
ATOM    288  CA  LYS   288      17.815  66.394  95.796  1.00  0.00              
ATOM    289  CA  ILE   289      19.667  64.471  98.491  1.00  0.00              
ATOM    290  CA  LEU   290      22.090  62.806  96.135  1.00  0.00              
ATOM    291  CA  LYS   291      25.398  64.183  95.229  1.00  0.00              
ATOM    292  CA  PRO   292      27.221  66.717  93.076  1.00  0.00              
ATOM    293  CA  GLY   293      27.189  65.382  89.472  1.00  0.00              
ATOM    294  CA  ASP   294      24.001  63.388  90.001  1.00  0.00              
ATOM    295  CA  LYS   295      21.353  63.640  87.339  1.00  0.00              
ATOM    296  CA  ILE   296      17.785  64.429  88.225  1.00  0.00              
ATOM    297  CA  THR   297      14.989  64.497  85.458  1.00  0.00              
ATOM    298  CA  PHE   298      12.055  66.737  85.922  1.00  0.00              
ATOM    299  CA  THR   299       8.720  66.209  83.964  1.00  0.00              
TER                                                                             
END
