
#######################################################
#                                                     #
#                        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_4-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS599_4-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     219      N     219           -
LGA    P     220      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    E     221      R     238           #
LGA    K     222      N     239          0.765
LGA    I     223      V     240          3.957
LGA    R     224      N     241          2.127
LGA    L     225      D     242          3.407
LGA    L     226      R     243          4.755
LGA    K     227      -       -           -
LGA    E     228      P     244          1.428
LGA    F     229      V     245          2.847
LGA    M     230      M     246          3.879
LGA    H     231      -       -           -
LGA    T     232      -       -           -
LGA    M     233      V     247          3.608
LGA    K     234      -       -           -
LGA    N     235      -       -           -
LGA    T     236      -       -           -
LGA    G     237      A     248          1.314
LGA    R     238      K     249          1.026
LGA    N     239      -       -           -
LGA    V     240      -       -           -
LGA    N     241      E     250          1.990
LGA    D     242      G     251          1.847
LGA    R     243      E     252          4.916
LGA    P     244      T     253          5.236
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      Y     254          5.250
LGA    L     268      T     255          2.921
LGA    N     269      G     256          3.139
LGA    V     270      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    K     271      V     270          2.588
LGA    -       -      K     271           -
LGA    G     272      G     272          3.711
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    A     273      I     275           #
LGA    Y     274      I     276           #
LGA    I     275      G     277           #
LGA    I     276      N     278           #
LGA    -       -      I     279           -
LGA    -       -      D     280           -
LGA    G     277      H     281           #
LGA    N     278      L     282          2.265
LGA    I     279      P     283          5.592
LGA    D     280      -       -           -
LGA    H     281      -       -           -
LGA    L     282      P     284          1.592
LGA    P     283      E     285          1.473
LGA    P     284      -       -           -
LGA    E     285      -       -           -
LGA    Q     286      Q     286          2.308
LGA    L     287      L     287          1.595
LGA    K     288      K     288          2.913
LGA    I     289      I     289          2.619
LGA    L     290      L     290          2.769
LGA    K     291      K     291          4.166
LGA    P     292      P     292           #
LGA    G     293      G     293           #
LGA    D     294      D     294          4.152
LGA    K     295      K     295          3.464
LGA    I     296      I     296          3.806
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     33    3.28    33.33     25.228     0.977

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.559399 * X  +  -0.685277 * Y  +  -0.466336 * Z  +  18.965485
  Y_new =  -0.222267 * X  +  -0.666004 * Y  +   0.712065 * Z  +  58.075100
  Z_new =  -0.798543 * X  +  -0.294677 * Y  +  -0.524876 * Z  +  83.777199 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.630023    0.511570  [ DEG:  -150.6892     29.3108 ]
  Theta =   0.924871    2.216722  [ DEG:    52.9912    127.0088 ]
  Phi   =  -0.378204    2.763389  [ DEG:   -21.6695    158.3305 ]
 
# 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_4-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS599_4-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   33   3.28   33.33  25.228
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS599_4-D2
PFRMAT TS                                                                       
TARGET T0386                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM    219  CA  ASN   219      21.642  74.368  64.547  1.00  0.00              
ATOM    220  CA  PRO   220      22.615  70.912  63.255  1.00  0.00              
ATOM    221  CA  GLU   221      24.912  70.045  66.125  1.00  0.00              
ATOM    222  CA  LYS   222      22.327  70.904  68.832  1.00  0.00              
ATOM    223  CA  ILE   223      19.768  68.773  66.953  1.00  0.00              
ATOM    224  CA  ARG   224      21.896  65.662  66.312  1.00  0.00              
ATOM    225  CA  LEU   225      23.023  65.615  69.982  1.00  0.00              
ATOM    226  CA  LEU   226      19.504  66.086  71.337  1.00  0.00              
ATOM    227  CA  LYS   227      18.317  63.224  69.083  1.00  0.00              
ATOM    228  CA  GLU   228      20.974  60.906  70.425  1.00  0.00              
ATOM    229  CA  PHE   229      20.045  61.817  73.966  1.00  0.00              
ATOM    230  CA  MET   230      16.359  61.208  73.337  1.00  0.00              
ATOM    231  CA  HIS   231      17.096  57.768  71.779  1.00  0.00              
ATOM    232  CA  THR   232      19.229  56.924  74.780  1.00  0.00              
ATOM    233  CA  MET   233      16.451  58.043  77.182  1.00  0.00              
ATOM    234  CA  LYS   234      14.125  55.547  75.473  1.00  0.00              
ATOM    235  CA  ASN   235      16.717  52.768  75.818  1.00  0.00              
ATOM    236  CA  THR   236      17.065  53.640  79.540  1.00  0.00              
ATOM    237  CA  GLY   237      13.266  53.242  79.865  1.00  0.00              
ATOM    238  CA  ARG   238      13.581  49.726  78.410  1.00  0.00              
ATOM    239  CA  ASN   239      16.481  48.940  80.759  1.00  0.00              
ATOM    240  CA  VAL   240      14.525  50.184  83.805  1.00  0.00              
ATOM    241  CA  ASN   241      11.852  47.660  82.892  1.00  0.00              
ATOM    242  CA  ASP   242      14.433  44.838  83.051  1.00  0.00              
ATOM    243  CA  ARG   243      16.322  45.000  86.173  1.00  0.00              
ATOM    244  CA  PRO   244      17.281  47.657  88.663  1.00  0.00              
ATOM    245  CA  VAL   245      20.732  49.147  88.969  1.00  0.00              
ATOM    246  CA  MET   246      21.775  50.858  92.157  1.00  0.00              
ATOM    247  CA  VAL   247      24.395  53.603  92.106  1.00  0.00              
ATOM    248  CA  ALA   248      25.437  55.244  95.397  1.00  0.00              
ATOM    249  CA  LYS   249      26.358  58.921  96.095  1.00  0.00              
ATOM    250  CA  GLU   250      30.007  58.063  96.472  1.00  0.00              
ATOM    251  CA  GLY   251      30.387  56.076  93.295  1.00  0.00              
ATOM    252  CA  GLU   252      29.759  52.576  94.592  1.00  0.00              
ATOM    253  CA  THR   253      28.183  50.369  92.141  1.00  0.00              
ATOM    254  CA  TYR   254      25.699  47.758  93.215  1.00  0.00              
ATOM    255  CA  THR   255      23.929  45.597  90.680  1.00  0.00              
ATOM    256  CA  GLY   256      20.679  44.599  92.223  1.00  0.00              
ATOM    257  CA  THR   257      18.567  43.387  89.382  1.00  0.00              
ATOM    258  CA  TYR   258      14.958  44.287  90.228  1.00  0.00              
ATOM    259  CA  ARG   259      12.470  41.841  88.649  1.00  0.00              
ATOM    260  CA  GLY   260       9.211  43.861  89.000  1.00  0.00              
ATOM    261  CA  ALA   261       9.992  46.162  91.900  1.00  0.00              
ATOM    262  CA  GLY   262       9.950  49.686  90.587  1.00  0.00              
ATOM    263  CA  LEU   263       9.860  52.246  93.194  1.00  0.00              
ATOM    264  CA  GLU   264      12.931  51.684  95.300  1.00  0.00              
ATOM    265  CA  GLY   265      15.183  50.837  92.405  1.00  0.00              
ATOM    266  CA  PHE   266      17.746  53.465  91.415  1.00  0.00              
ATOM    267  CA  ALA   267      19.184  53.416  87.942  1.00  0.00              
ATOM    268  CA  LEU   268      22.439  55.308  87.245  1.00  0.00              
ATOM    269  CA  ASN   269      23.669  55.472  83.782  1.00  0.00              
ATOM    270  CA  VAL   270      26.923  57.156  82.955  1.00  0.00              
ATOM    271  CA  LYS   271      27.558  58.487  79.449  1.00  0.00              
ATOM    272  CA  GLY   272      25.446  61.596  78.673  1.00  0.00              
ATOM    273  CA  ALA   273      24.303  61.636  82.322  1.00  0.00              
ATOM    274  CA  TYR   274      21.162  59.749  83.174  1.00  0.00              
ATOM    275  CA  ILE   275      19.823  59.475  86.591  1.00  0.00              
ATOM    276  CA  ILE   276      16.769  57.494  87.165  1.00  0.00              
ATOM    277  CA  GLY   277      15.176  57.525  90.529  1.00  0.00              
ATOM    278  CA  ASN   278      12.011  55.563  91.098  1.00  0.00              
ATOM    279  CA  ILE   279       9.684  58.353  92.066  1.00  0.00              
ATOM    280  CA  ASP   280       7.710  56.936  94.834  1.00  0.00              
ATOM    281  CA  HIS   281      10.462  55.603  97.018  1.00  0.00              
ATOM    282  CA  LEU   282      13.087  58.264  96.966  1.00  0.00              
ATOM    283  CA  PRO   283      13.803  60.108 100.153  1.00  0.00              
ATOM    284  CA  PRO   284      14.656  63.781  99.890  1.00  0.00              
ATOM    285  CA  GLU   285      18.234  63.008 100.898  1.00  0.00              
ATOM    286  CA  GLN   286      18.595  60.471  98.074  1.00  0.00              
ATOM    287  CA  LEU   287      17.047  62.688  95.408  1.00  0.00              
ATOM    288  CA  LYS   288      19.367  65.506  96.490  1.00  0.00              
ATOM    289  CA  ILE   289      22.478  63.301  96.273  1.00  0.00              
ATOM    290  CA  LEU   290      21.721  61.996  92.766  1.00  0.00              
ATOM    291  CA  LYS   291      20.466  64.819  90.623  1.00  0.00              
ATOM    292  CA  PRO   292      19.060  65.033  87.133  1.00  0.00              
ATOM    293  CA  GLY   293      21.871  65.003  84.551  1.00  0.00              
ATOM    294  CA  ASP   294      24.342  63.294  86.900  1.00  0.00              
ATOM    295  CA  LYS   295      26.223  60.263  85.752  1.00  0.00              
ATOM    296  CA  ILE   296      26.673  57.308  88.130  1.00  0.00              
ATOM    297  CA  THR   297      28.289  54.044  86.612  1.00  0.00              
ATOM    298  CA  PHE   298      26.780  50.422  88.156  1.00  0.00              
ATOM    299  CA  THR   299      28.855  47.444  88.353  1.00  0.00              
TER                                                                             
END
