
#######################################################
#                                                     #
#                        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   74 (   74),  selected   74 , name T0289TS599_4-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS599_4-D2.T0289_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I     224      I     224           -
LGA    M     225      M     225           -
LGA    -       -      E     226           -
LGA    -       -      K     227           -
LGA    -       -      V     228           -
LGA    -       -      D     229           -
LGA    -       -      Y     230           -
LGA    -       -      P     231           -
LGA    -       -      R     232           -
LGA    -       -      N     233           -
LGA    -       -      E     234           -
LGA    -       -      S     235           -
LGA    -       -      G     236           -
LGA    -       -      D     237           -
LGA    -       -      V     238           -
LGA    -       -      A     239           -
LGA    -       -      A     240           -
LGA    -       -      V     241           -
LGA    -       -      I     242           -
LGA    -       -      H     243           -
LGA    E     226      P     244           #
LGA    K     227      N     245          1.324
LGA    V     228      L     246          2.078
LGA    D     229      Q     247          1.495
LGA    Y     230      D     248          3.640
LGA    P     231      -       -           -
LGA    R     232      -       -           -
LGA    N     233      -       -           -
LGA    E     234      -       -           -
LGA    S     235      -       -           -
LGA    G     236      -       -           -
LGA    D     237      -       -           -
LGA    V     238      -       -           -
LGA    A     239      -       -           -
LGA    A     240      Q     249           #
LGA    V     241      D     250           -
LGA    I     242      W     251           -
LGA    H     243      -       -           -
LGA    P     244      -       -           -
LGA    N     245      -       -           -
LGA    L     246      -       -           -
LGA    Q     247      -       -           -
LGA    D     248      -       -           -
LGA    Q     249      -       -           -
LGA    D     250      -       -           -
LGA    W     251      K     252           #
LGA    K     252      P     253           #
LGA    P     253      L     254          1.694
LGA    L     254      H     255          3.440
LGA    H     255      P     256          4.882
LGA    P     256      -       -           -
LGA    G     257      -       -           -
LGA    D     258      -       -           -
LGA    P     259      G     257           #
LGA    -       -      D     258           -
LGA    -       -      P     259           -
LGA    V     260      V     260          4.410
LGA    F     261      F     261          3.263
LGA    V     262      V     262          3.818
LGA    S     263      S     263          2.888
LGA    L     264      L     264          3.586
LGA    D     265      D     265          3.393
LGA    G     266      G     266          0.536
LGA    K     267      K     267          2.666
LGA    V     268      V     268          2.014
LGA    I     269      I     269          0.397
LGA    P     270      P     270          1.023
LGA    L     271      L     271          2.868
LGA    G     272      G     272          2.932
LGA    G     273      G     273          2.260
LGA    -       -      D     274           -
LGA    D     274      C     275          1.367
LGA    C     275      T     276          1.305
LGA    T     276      V     277          1.061
LGA    V     277      Y     278          2.868
LGA    Y     278      P     279          1.770
LGA    P     279      V     280          4.177
LGA    V     280      F     281          4.468
LGA    F     281      V     282          2.700
LGA    -       -      N     283           -
LGA    V     282      E     284          3.673
LGA    N     283      A     285          2.938
LGA    E     284      A     286           #
LGA    A     285      Y     287           -
LGA    A     286      -       -           -
LGA    Y     287      Y     288          5.436
LGA    Y     288      E     289           -
LGA    E     289      K     290           -
LGA    K     290      K     291           -
LGA    K     291      -       -           -
LGA    E     292      -       -           -
LGA    A     293      E     292           #
LGA    F     294      A     293          3.536
LGA    A     295      F     294          1.934
LGA    K     296      A     295          2.954
LGA    T     297      K     296          3.004
LGA    -       -      T     297           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   74   74    5.0     36    2.97    41.67     30.701     1.171

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.741875 * X  +  -0.021432 * Y  +  -0.670196 * Z  +  51.919937
  Y_new =  -0.136238 * X  +  -0.983460 * Y  +  -0.119358 * Z  +  39.374241
  Z_new =  -0.656553 * X  +   0.179855 * Y  +  -0.732524 * Z  +  19.101063 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.900828   -0.240765  [ DEG:   166.2052    -13.7948 ]
  Theta =   0.716239    2.425353  [ DEG:    41.0375    138.9625 ]
  Phi   =  -0.181616    2.959976  [ DEG:   -10.4058    169.5942 ]
 
# 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: T0289TS599_4-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS599_4-D2.T0289_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   74   74   5.0   36   2.97   41.67  30.701
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS599_4-D2
PFRMAT TS                                                                       
TARGET T0289                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM    224  CA  ILE   224      39.392  45.414  25.238  1.00  0.00              
ATOM    225  CA  MET   225      37.958  42.020  25.887  1.00  0.00              
ATOM    226  CA  GLU   226      38.080  42.556  29.813  1.00  0.00              
ATOM    227  CA  LYS   227      36.024  45.703  29.164  1.00  0.00              
ATOM    228  CA  VAL   228      32.935  44.818  26.717  1.00  0.00              
ATOM    229  CA  ASP   229      32.089  47.123  24.696  1.00  0.00              
ATOM    230  CA  TYR   230      30.164  46.904  21.187  1.00  0.00              
ATOM    231  CA  PRO   231      31.039  48.586  18.813  1.00  0.00              
ATOM    232  CA  ARG   232      29.981  47.406  15.157  1.00  0.00              
ATOM    233  CA  ASN   233      29.787  49.591  12.292  1.00  0.00              
ATOM    234  CA  GLU   234      27.127  49.211  10.029  1.00  0.00              
ATOM    235  CA  SER   235      29.005  46.951   7.614  1.00  0.00              
ATOM    236  CA  GLY   236      30.244  44.606  10.097  1.00  0.00              
ATOM    237  CA  ASP   237      33.768  45.941  10.374  1.00  0.00              
ATOM    238  CA  VAL   238      35.130  46.069  13.740  1.00  0.00              
ATOM    239  CA  ALA   239      38.498  44.827  14.166  1.00  0.00              
ATOM    240  CA  ALA   240      39.977  45.079  17.433  1.00  0.00              
ATOM    241  CA  VAL   241      43.574  46.065  17.227  1.00  0.00              
ATOM    242  CA  ILE   242      46.003  45.086  19.910  1.00  0.00              
ATOM    243  CA  HIS   243      48.965  47.325  20.765  1.00  0.00              
ATOM    244  CA  PRO   244      51.768  45.349  20.144  1.00  0.00              
ATOM    245  CA  ASN   245      53.243  45.236  23.719  1.00  0.00              
ATOM    246  CA  LEU   246      50.274  44.995  25.350  1.00  0.00              
ATOM    247  CA  GLN   247      50.082  41.535  26.707  1.00  0.00              
ATOM    248  CA  ASP   248      49.093  41.442  30.581  1.00  0.00              
ATOM    249  CA  GLN   249      46.496  38.338  30.170  1.00  0.00              
ATOM    250  CA  ASP   250      43.362  40.301  31.359  1.00  0.00              
ATOM    251  CA  TRP   251      41.100  38.811  29.377  1.00  0.00              
ATOM    252  CA  LYS   252      38.563  37.909  31.578  1.00  0.00              
ATOM    253  CA  PRO   253      36.310  34.668  30.269  1.00  0.00              
ATOM    254  CA  LEU   254      32.892  34.704  30.990  1.00  0.00              
ATOM    255  CA  HIS   255      31.744  30.753  31.012  1.00  0.00              
ATOM    256  CA  PRO   256      29.008  28.673  29.754  1.00  0.00              
ATOM    257  CA  GLY   257      26.008  29.296  32.076  1.00  0.00              
ATOM    258  CA  ASP   258      26.986  32.246  33.618  1.00  0.00              
ATOM    259  CA  PRO   259      25.055  35.284  33.696  1.00  0.00              
ATOM    260  CA  VAL   260      26.007  38.445  32.511  1.00  0.00              
ATOM    261  CA  PHE   261      24.569  41.675  33.195  1.00  0.00              
ATOM    262  CA  VAL   262      25.969  44.657  32.929  1.00  0.00              
ATOM    263  CA  SER   263      24.804  47.782  34.704  1.00  0.00              
ATOM    264  CA  LEU   264      25.846  51.153  35.078  1.00  0.00              
ATOM    265  CA  ASP   265      25.598  52.540  38.097  1.00  0.00              
ATOM    266  CA  GLY   266      27.865  50.573  40.043  1.00  0.00              
ATOM    267  CA  LYS   267      25.995  46.770  38.911  1.00  0.00              
ATOM    268  CA  VAL   268      27.952  45.097  37.539  1.00  0.00              
ATOM    269  CA  ILE   269      27.208  40.863  37.698  1.00  0.00              
ATOM    270  CA  PRO   270      29.177  39.023  36.520  1.00  0.00              
ATOM    271  CA  LEU   271      28.834  34.742  36.658  1.00  0.00              
ATOM    272  CA  GLY   272      31.505  32.449  36.621  1.00  0.00              
ATOM    273  CA  GLY   273      30.748  29.159  34.901  1.00  0.00              
ATOM    274  CA  ASP   274      33.570  27.232  33.110  1.00  0.00              
ATOM    275  CA  CYS   275      35.272  28.621  30.145  1.00  0.00              
ATOM    276  CA  THR   276      33.196  30.413  27.376  1.00  0.00              
ATOM    277  CA  VAL   277      32.917  33.600  26.704  1.00  0.00              
ATOM    278  CA  TYR   278      30.069  35.359  25.211  1.00  0.00              
ATOM    279  CA  PRO   279      30.031  39.327  24.037  1.00  0.00              
ATOM    280  CA  VAL   280      27.073  40.695  23.992  1.00  0.00              
ATOM    281  CA  PHE   281      26.512  44.484  22.164  1.00  0.00              
ATOM    282  CA  VAL   282      23.852  46.056  22.892  1.00  0.00              
ATOM    283  CA  ASN   283      22.799  49.164  20.476  1.00  0.00              
ATOM    284  CA  GLU   284      19.831  51.036  21.545  1.00  0.00              
ATOM    285  CA  ALA   285      19.756  53.445  24.116  1.00  0.00              
ATOM    286  CA  ALA   286      17.495  52.474  26.382  1.00  0.00              
ATOM    287  CA  TYR   287      18.150  48.944  26.370  1.00  0.00              
ATOM    288  CA  TYR   288      22.008  49.323  26.738  1.00  0.00              
ATOM    289  CA  GLU   289      21.863  51.866  29.452  1.00  0.00              
ATOM    290  CA  LYS   290      19.432  50.732  31.899  1.00  0.00              
ATOM    291  CA  LYS   291      20.167  47.347  32.245  1.00  0.00              
ATOM    292  CA  GLU   292      22.538  45.914  29.628  1.00  0.00              
ATOM    293  CA  ALA   293      22.335  42.227  28.889  1.00  0.00              
ATOM    294  CA  PHE   294      25.320  39.959  27.581  1.00  0.00              
ATOM    295  CA  ALA   295      25.023  37.505  25.459  1.00  0.00              
ATOM    296  CA  LYS   296      27.647  34.980  24.701  1.00  0.00              
ATOM    297  CA  THR   297      27.210  33.147  21.781  1.00  0.00              
TER                                                                             
END
