
#######################################################
#                                                     #
#                        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_5-D2
# Molecule2: number of CA atoms   74 (  581),  selected   74 , name T0289_D2.pdb
# PARAMETERS: T0289TS599_5-D2.T0289_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      I     224           -
LGA    -       -      M     225           -
LGA    -       -      E     226           -
LGA    -       -      K     227           -
LGA    I     224      V     228          2.881
LGA    M     225      D     229          1.992
LGA    E     226      Y     230           -
LGA    K     227      -       -           -
LGA    V     228      -       -           -
LGA    D     229      -       -           -
LGA    Y     230      -       -           -
LGA    P     231      P     231           #
LGA    R     232      R     232          3.446
LGA    N     233      N     233          1.549
LGA    E     234      E     234          3.683
LGA    S     235      S     235          2.756
LGA    G     236      G     236          1.258
LGA    D     237      D     237          1.367
LGA    V     238      V     238          2.533
LGA    A     239      A     239          3.150
LGA    A     240      A     240          3.457
LGA    V     241      V     241          2.214
LGA    I     242      I     242          2.346
LGA    H     243      H     243          2.398
LGA    P     244      P     244          2.377
LGA    N     245      N     245          3.598
LGA    L     246      L     246          4.422
LGA    Q     247      Q     247          4.661
LGA    D     248      -       -           -
LGA    Q     249      D     248          2.559
LGA    D     250      Q     249          2.678
LGA    W     251      -       -           -
LGA    K     252      D     250          3.822
LGA    P     253      W     251          2.520
LGA    L     254      K     252           #
LGA    H     255      P     253          2.767
LGA    P     256      L     254          1.209
LGA    G     257      H     255          3.663
LGA    D     258      P     256           -
LGA    -       -      G     257           -
LGA    -       -      D     258           -
LGA    P     259      P     259          1.729
LGA    V     260      V     260          1.008
LGA    F     261      F     261          1.863
LGA    V     262      V     262          5.218
LGA    S     263      S     263          4.371
LGA    L     264      L     264           -
LGA    D     265      -       -           -
LGA    G     266      D     265           #
LGA    K     267      G     266           -
LGA    V     268      K     267          3.270
LGA    I     269      V     268          5.098
LGA    P     270      I     269          1.491
LGA    L     271      P     270          1.734
LGA    G     272      L     271          2.676
LGA    G     273      G     272          3.825
LGA    -       -      G     273           -
LGA    -       -      D     274           -
LGA    -       -      C     275           -
LGA    D     274      T     276          2.726
LGA    C     275      V     277          2.165
LGA    T     276      Y     278          2.148
LGA    V     277      P     279          3.591
LGA    Y     278      V     280          3.718
LGA    P     279      F     281          3.458
LGA    V     280      V     282          3.668
LGA    F     281      N     283           #
LGA    V     282      E     284          2.519
LGA    N     283      A     285          3.689
LGA    E     284      A     286          6.139
LGA    A     285      -       -           -
LGA    A     286      -       -           -
LGA    Y     287      -       -           -
LGA    Y     288      -       -           -
LGA    E     289      -       -           -
LGA    K     290      -       -           -
LGA    K     291      -       -           -
LGA    E     292      -       -           -
LGA    A     293      Y     287           #
LGA    F     294      Y     288           -
LGA    -       -      E     289           -
LGA    -       -      K     290           -
LGA    -       -      K     291           -
LGA    -       -      E     292           -
LGA    -       -      A     293           -
LGA    A     295      F     294           #
LGA    K     296      A     295           -
LGA    T     297      K     296           -
LGA    -       -      T     297           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   74   74    5.0     46    3.15    50.00     36.375     1.415

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.794916 * X  +   0.592018 * Y  +  -0.132754 * Z  +  10.156831
  Y_new =   0.207737 * X  +  -0.059999 * Y  +   0.976343 * Z  +  30.972317
  Z_new =   0.570048 * X  +  -0.803688 * Y  +  -0.170678 * Z  +  30.228828 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.780056    1.361536  [ DEG:  -101.9897     78.0103 ]
  Theta =  -0.606564   -2.535029  [ DEG:   -34.7535   -145.2465 ]
  Phi   =   0.255616   -2.885977  [ DEG:    14.6457   -165.3543 ]
 
# 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_5-D2                               
REMARK     2: T0289_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS599_5-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   46   3.15   50.00  36.375
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS599_5-D2
PFRMAT TS                                                                       
TARGET T0289                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM    224  CA  ILE   224      24.420  37.116  28.921  1.00  0.00              
ATOM    225  CA  MET   225      20.723  37.506  29.499  1.00  0.00              
ATOM    226  CA  GLU   226      20.241  33.710  29.151  1.00  0.00              
ATOM    227  CA  LYS   227      22.751  33.024  31.879  1.00  0.00              
ATOM    228  CA  VAL   228      22.141  35.400  34.582  1.00  0.00              
ATOM    229  CA  ASP   229      18.784  35.379  36.272  1.00  0.00              
ATOM    230  CA  TYR   230      17.963  39.027  36.652  1.00  0.00              
ATOM    231  CA  PRO   231      15.248  40.192  39.001  1.00  0.00              
ATOM    232  CA  ARG   232      13.200  42.547  36.752  1.00  0.00              
ATOM    233  CA  ASN   233      12.668  46.037  38.032  1.00  0.00              
ATOM    234  CA  GLU   234       9.258  47.713  38.282  1.00  0.00              
ATOM    235  CA  SER   235       9.299  48.914  34.652  1.00  0.00              
ATOM    236  CA  GLY   236      10.281  45.517  33.373  1.00  0.00              
ATOM    237  CA  ASP   237      13.527  46.343  31.769  1.00  0.00              
ATOM    238  CA  VAL   238      16.679  44.564  32.404  1.00  0.00              
ATOM    239  CA  ALA   239      19.670  46.658  32.480  1.00  0.00              
ATOM    240  CA  ALA   240      22.989  45.153  31.572  1.00  0.00              
ATOM    241  CA  VAL   241      26.028  47.062  32.197  1.00  0.00              
ATOM    242  CA  ILE   242      29.181  46.273  30.392  1.00  0.00              
ATOM    243  CA  HIS   243      32.352  46.877  32.350  1.00  0.00              
ATOM    244  CA  PRO   244      34.420  49.830  31.058  1.00  0.00              
ATOM    245  CA  ASN   245      37.747  47.924  31.023  1.00  0.00              
ATOM    246  CA  LEU   246      36.644  45.608  28.243  1.00  0.00              
ATOM    247  CA  GLN   247      35.778  48.592  26.024  1.00  0.00              
ATOM    248  CA  ASP   248      37.690  47.193  23.105  1.00  0.00              
ATOM    249  CA  GLN   249      34.939  46.892  20.561  1.00  0.00              
ATOM    250  CA  ASP   250      34.452  43.078  20.874  1.00  0.00              
ATOM    251  CA  TRP   251      30.728  42.909  21.254  1.00  0.00              
ATOM    252  CA  LYS   252      30.046  39.806  19.090  1.00  0.00              
ATOM    253  CA  PRO   253      32.632  37.683  20.861  1.00  0.00              
ATOM    254  CA  LEU   254      32.199  37.989  24.665  1.00  0.00              
ATOM    255  CA  HIS   255      35.360  36.525  26.043  1.00  0.00              
ATOM    256  CA  PRO   256      35.994  34.390  29.060  1.00  0.00              
ATOM    257  CA  GLY   257      36.957  36.732  31.895  1.00  0.00              
ATOM    258  CA  ASP   258      34.884  39.665  30.737  1.00  0.00              
ATOM    259  CA  PRO   259      33.035  41.633  33.384  1.00  0.00              
ATOM    260  CA  VAL   260      29.328  41.954  33.003  1.00  0.00              
ATOM    261  CA  PHE   261      27.315  43.796  35.464  1.00  0.00              
ATOM    262  CA  VAL   262      23.829  42.972  36.002  1.00  0.00              
ATOM    263  CA  SER   263      21.585  45.450  37.644  1.00  0.00              
ATOM    264  CA  LEU   264      18.505  44.268  39.390  1.00  0.00              
ATOM    265  CA  ASP   265      16.623  46.987  41.295  1.00  0.00              
ATOM    266  CA  GLY   266      19.894  48.667  42.455  1.00  0.00              
ATOM    267  CA  LYS   267      21.643  45.510  43.536  1.00  0.00              
ATOM    268  CA  VAL   268      24.700  44.691  41.526  1.00  0.00              
ATOM    269  CA  ILE   269      25.304  41.198  40.342  1.00  0.00              
ATOM    270  CA  PRO   270      28.523  40.410  38.593  1.00  0.00              
ATOM    271  CA  LEU   271      28.656  37.582  36.068  1.00  0.00              
ATOM    272  CA  GLY   272      32.013  36.370  34.660  1.00  0.00              
ATOM    273  CA  GLY   273      31.460  32.717  33.856  1.00  0.00              
ATOM    274  CA  ASP   274      34.103  31.466  31.420  1.00  0.00              
ATOM    275  CA  CYS   275      32.011  30.081  28.666  1.00  0.00              
ATOM    276  CA  THR   276      32.665  32.304  25.600  1.00  0.00              
ATOM    277  CA  VAL   277      29.060  33.069  24.578  1.00  0.00              
ATOM    278  CA  TYR   278      27.989  36.566  23.913  1.00  0.00              
ATOM    279  CA  PRO   279      25.909  37.160  21.037  1.00  0.00              
ATOM    280  CA  VAL   280      24.990  40.748  20.541  1.00  0.00              
ATOM    281  CA  PHE   281      22.097  41.754  18.569  1.00  0.00              
ATOM    282  CA  VAL   282      21.927  45.393  17.651  1.00  0.00              
ATOM    283  CA  ASN   283      18.886  46.903  16.099  1.00  0.00              
ATOM    284  CA  GLU   284      19.632  49.576  13.459  1.00  0.00              
ATOM    285  CA  ALA   285      17.957  48.554  10.243  1.00  0.00              
ATOM    286  CA  ALA   286      20.893  47.158   8.163  1.00  0.00              
ATOM    287  CA  TYR   287      22.012  45.005  11.058  1.00  0.00              
ATOM    288  CA  TYR   288      18.412  43.653  11.537  1.00  0.00              
ATOM    289  CA  GLU   289      17.428  43.218   7.858  1.00  0.00              
ATOM    290  CA  LYS   290      20.504  41.564   6.298  1.00  0.00              
ATOM    291  CA  LYS   291      20.917  39.354   9.394  1.00  0.00              
ATOM    292  CA  GLU   292      24.050  40.986  10.836  1.00  0.00              
ATOM    293  CA  ALA   293      24.431  41.384  14.547  1.00  0.00              
ATOM    294  CA  PHE   294      26.420  44.271  15.917  1.00  0.00              
ATOM    295  CA  ALA   295      26.798  44.986  19.593  1.00  0.00              
ATOM    296  CA  LYS   296      28.126  48.344  20.864  1.00  0.00              
ATOM    297  CA  THR   297      26.195  49.982  23.641  1.00  0.00              
TER                                                                             
END
