
#######################################################
#                                                     #
#                        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   77 (   77),  selected   77 , name T0320TS599_4-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS599_4-D2.T0320_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     228      -       -           -
LGA    N     229      -       -           -
LGA    S     230      -       -           -
LGA    L     231      -       -           -
LGA    P     232      -       -           -
LGA    N     233      -       -           -
LGA    P     234      -       -           -
LGA    H     235      -       -           -
LGA    L     236      -       -           -
LGA    R     237      N     228          3.514
LGA    K     238      N     229          3.241
LGA    D     239      -       -           -
LGA    S     240      -       -           -
LGA    N     241      -       -           -
LGA    N     242      -       -           -
LGA    P     243      -       -           -
LGA    A     244      -       -           -
LGA    L     245      -       -           -
LGA    H     246      S     230          0.638
LGA    F     247      L     231          4.139
LGA    E     248      P     232          2.790
LGA    W     249      N     233          1.973
LGA    E     250      P     234          2.132
LGA    I     251      H     235          3.346
LGA    -       -      L     236           -
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    I     252      D     239          4.711
LGA    H     253      S     240          4.624
LGA    A     254      N     241          4.306
LGA    F     255      N     242          2.959
LGA    G     256      P     243          3.004
LGA    K     257      -       -           -
LGA    D     258      A     244          1.495
LGA    A     259      L     245          2.999
LGA    E     260      -       -           -
LGA    G     261      -       -           -
LGA    E     262      H     246          2.562
LGA    R     263      F     247          2.309
LGA    S     264      E     248          2.954
LGA    S     265      W     249          3.428
LGA    A     266      E     250          2.996
LGA    I     267      I     251          1.638
LGA    N     268      I     252          1.105
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    T     269      S     264          3.876
LGA    S     270      S     265          2.532
LGA    P     271      A     266          3.782
LGA    I     272      I     267          1.135
LGA    S     273      N     268          1.306
LGA    V     274      T     269          3.753
LGA    V     275      S     270          2.265
LGA    D     276      P     271          2.539
LGA    K     277      I     272          2.886
LGA    E     278      S     273          3.263
LGA    R     279      V     274           -
LGA    F     280      V     275           -
LGA    S     281      D     276          4.759
LGA    K     282      K     277           -
LGA    Y     283      E     278           -
LGA    H     284      R     279           -
LGA    D     285      F     280           -
LGA    N     286      S     281           -
LGA    Y     287      K     282           -
LGA    Y     288      Y     283           -
LGA    P     289      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    G     290      P     289           #
LGA    W     291      G     290          4.352
LGA    Y     292      W     291           -
LGA    -       -      Y     292           -
LGA    -       -      L     293           -
LGA    L     293      V     294           #
LGA    V     294      D     295          4.347
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    D     295      L     298          5.368
LGA    D     296      E     299           #
LGA    T     297      R     300           -
LGA    L     298      A     301           -
LGA    E     299      G     302           -
LGA    R     300      R     303           -
LGA    A     301      I     304           -
LGA    G     302      -       -           -
LGA    R     303      -       -           -
LGA    I     304      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   77   73    5.0     36    3.24     8.33     28.131     1.079

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.024733 * X  +   0.831310 * Y  +  -0.555259 * Z  +  13.996779
  Y_new =   0.676241 * X  +  -0.422980 * Y  +  -0.603146 * Z  +  19.154507
  Z_new =  -0.736265 * X  +  -0.360572 * Y  +  -0.572627 * Z  +   7.753078 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.579636    0.561957  [ DEG:  -147.8022     32.1978 ]
  Theta =   0.827534    2.314059  [ DEG:    47.4142    132.5858 ]
  Phi   =   1.534239   -1.607354  [ DEG:    87.9054    -92.0946 ]
 
# 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: T0320TS599_4-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS599_4-D2.T0320_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   77   73   5.0   36   3.24    8.33  28.131
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS599_4-D2
PFRMAT TS                                                                       
TARGET T0320                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM    228  CA  ASN   228      21.459  29.562  -2.412  1.00  0.00              
ATOM    229  CA  ASN   229      24.269  30.824  -0.178  1.00  0.00              
ATOM    230  CA  SER   230      23.749  28.033   2.392  1.00  0.00              
ATOM    231  CA  LEU   231      24.335  25.117   0.180  1.00  0.00              
ATOM    232  CA  PRO   232      21.438  23.151  -1.227  1.00  0.00              
ATOM    233  CA  ASN   233      22.766  19.667  -0.941  1.00  0.00              
ATOM    234  CA  PRO   234      20.123  17.726   0.872  1.00  0.00              
ATOM    235  CA  HIS   235      22.849  15.904   3.116  1.00  0.00              
ATOM    236  CA  LEU   236      24.382  19.086   4.216  1.00  0.00              
ATOM    237  CA  ARG   237      28.335  19.214   4.615  1.00  0.00              
ATOM    238  CA  LYS   238      29.744  21.336   7.125  1.00  0.00              
ATOM    239  CA  ASP   239      33.625  22.011   6.319  1.00  0.00              
ATOM    240  CA  SER   240      35.176  24.228   8.592  1.00  0.00              
ATOM    241  CA  ASN   241      33.579  27.647   9.507  1.00  0.00              
ATOM    242  CA  ASN   242      31.726  26.885  12.806  1.00  0.00              
ATOM    243  CA  PRO   243      32.068  23.066  12.654  1.00  0.00              
ATOM    244  CA  ALA   244      28.441  22.000  12.753  1.00  0.00              
ATOM    245  CA  LEU   245      27.786  18.913  10.703  1.00  0.00              
ATOM    246  CA  HIS   246      24.732  18.829   8.513  1.00  0.00              
ATOM    247  CA  PHE   247      23.152  15.457   7.659  1.00  0.00              
ATOM    248  CA  GLU   248      20.697  15.687   4.909  1.00  0.00              
ATOM    249  CA  TRP   249      18.413  12.427   4.619  1.00  0.00              
ATOM    250  CA  GLU   250      16.928  12.105   1.334  1.00  0.00              
ATOM    251  CA  ILE   251      13.375  10.617   1.107  1.00  0.00              
ATOM    252  CA  ILE   252      12.766   8.694  -2.040  1.00  0.00              
ATOM    253  CA  HIS   253       9.348   9.320  -3.401  1.00  0.00              
ATOM    254  CA  ALA   254       7.183   6.921  -1.394  1.00  0.00              
ATOM    255  CA  PHE   255       8.484   7.975   1.997  1.00  0.00              
ATOM    256  CA  GLY   256       8.267  11.752   1.547  1.00  0.00              
ATOM    257  CA  LYS   257       4.763  11.684   0.301  1.00  0.00              
ATOM    258  CA  ASP   258       2.884   9.837   3.021  1.00  0.00              
ATOM    259  CA  ALA   259       4.700  11.676   5.784  1.00  0.00              
ATOM    260  CA  GLU   260       4.204  15.186   4.490  1.00  0.00              
ATOM    261  CA  GLY   261       0.446  14.850   4.122  1.00  0.00              
ATOM    262  CA  GLU   262       0.165  13.689   7.712  1.00  0.00              
ATOM    263  CA  ARG   263       2.051  16.764   8.931  1.00  0.00              
ATOM    264  CA  SER   264      -0.081  19.130   6.936  1.00  0.00              
ATOM    265  CA  SER   265      -3.221  17.533   8.344  1.00  0.00              
ATOM    266  CA  ALA   266      -2.327  17.824  11.885  1.00  0.00              
ATOM    267  CA  ILE   267      -0.915  21.288  11.409  1.00  0.00              
ATOM    268  CA  ASN   268      -3.609  23.270   9.662  1.00  0.00              
ATOM    269  CA  THR   269      -2.529  23.451   5.980  1.00  0.00              
ATOM    270  CA  SER   270      -1.311  26.929   5.851  1.00  0.00              
ATOM    271  CA  PRO   271       1.221  27.081   8.649  1.00  0.00              
ATOM    272  CA  ILE   272       4.357  27.543   6.519  1.00  0.00              
ATOM    273  CA  SER   273       6.169  30.442   7.820  1.00  0.00              
ATOM    274  CA  VAL   274       8.341  31.814   5.142  1.00  0.00              
ATOM    275  CA  VAL   275      11.750  32.839   5.995  1.00  0.00              
ATOM    276  CA  ASP   276      13.577  35.526   4.015  1.00  0.00              
ATOM    277  CA  LYS   277      16.552  33.964   2.250  1.00  0.00              
ATOM    278  CA  GLU   278      18.876  36.702   3.574  1.00  0.00              
ATOM    279  CA  ARG   279      18.114  36.238   7.073  1.00  0.00              
ATOM    280  CA  PHE   280      18.097  32.537   7.669  1.00  0.00              
ATOM    281  CA  SER   281      21.110  31.640   5.518  1.00  0.00              
ATOM    282  CA  LYS   282      23.225  34.542   6.521  1.00  0.00              
ATOM    283  CA  TYR   283      23.266  33.898  10.303  1.00  0.00              
ATOM    284  CA  HIS   284      24.201  30.280   9.891  1.00  0.00              
ATOM    285  CA  ASP   285      26.617  29.429  12.636  1.00  0.00              
ATOM    286  CA  ASN   286      24.795  26.305  13.850  1.00  0.00              
ATOM    287  CA  TYR   287      21.187  27.224  12.889  1.00  0.00              
ATOM    288  CA  TYR   288      19.996  24.989  10.285  1.00  0.00              
ATOM    289  CA  PRO   289      17.126  22.682  10.434  1.00  0.00              
ATOM    290  CA  GLY   290      18.265  19.519   8.818  1.00  0.00              
ATOM    291  CA  TRP   291      15.441  17.129  10.058  1.00  0.00              
ATOM    292  CA  TYR   292      16.851  13.576  11.036  1.00  0.00              
ATOM    293  CA  LEU   293      14.703  11.261  11.366  1.00  0.00              
ATOM    294  CA  VAL   294      15.808   7.733  13.312  1.00  0.00              
ATOM    295  CA  ASP   295      13.749   5.104  13.363  1.00  0.00              
ATOM    296  CA  ASP   296      13.084   5.101  17.153  1.00  0.00              
ATOM    297  CA  THR   297      12.411   8.890  16.959  1.00  0.00              
ATOM    298  CA  LEU   298       9.911   8.641  14.058  1.00  0.00              
ATOM    299  CA  GLU   299       7.893   5.910  15.922  1.00  0.00              
ATOM    300  CA  ARG   300       7.968   8.083  19.148  1.00  0.00              
ATOM    301  CA  ALA   301       6.686  11.099  17.215  1.00  0.00              
ATOM    302  CA  GLY   302       3.885   9.215  15.453  1.00  0.00              
ATOM    303  CA  ARG   303       1.859   7.770  18.242  1.00  0.00              
ATOM    304  CA  ILE   304       1.145  11.654  19.733  1.00  0.00              
TER                                                                             
END
