
#######################################################
#                                                     #
#                        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  120 (  120),  selected  120 , name T0356TS599_1-D3
# Molecule2: number of CA atoms  120 (  972),  selected  120 , name T0356_D3.pdb
# PARAMETERS: T0356TS599_1-D3.T0356_D3.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    F     348      -       -           -
LGA    P     349      -       -           -
LGA    E     350      -       -           -
LGA    I     351      -       -           -
LGA    V     352      -       -           -
LGA    D     353      -       -           -
LGA    F     354      -       -           -
LGA    Y     355      -       -           -
LGA    L     356      -       -           -
LGA    P     357      -       -           -
LGA    P     358      -       -           -
LGA    E     359      -       -           -
LGA    G     360      -       -           -
LGA    C     361      -       -           -
LGA    S     362      -       -           -
LGA    Y     363      F     348          4.695
LGA    R     364      P     349           -
LGA    -       -      E     350           -
LGA    L     365      I     351           #
LGA    A     366      V     352           -
LGA    -       -      D     353           -
LGA    -       -      F     354           -
LGA    V     367      Y     355          3.522
LGA    V     368      L     356          4.731
LGA    T     369      P     357           #
LGA    I     370      P     358           #
LGA    K     371      E     359           -
LGA    K     372      G     360           -
LGA    Q     373      C     361           -
LGA    Y     374      S     362           -
LGA    A     375      Y     363           -
LGA    G     376      R     364           -
LGA    -       -      L     365           -
LGA    -       -      A     366           -
LGA    -       -      V     367           -
LGA    -       -      V     368           -
LGA    -       -      T     369           -
LGA    -       -      I     370           -
LGA    -       -      K     371           -
LGA    -       -      K     372           -
LGA    -       -      Q     373           -
LGA    -       -      Y     374           -
LGA    -       -      A     375           -
LGA    -       -      G     376           -
LGA    -       -      H     377           -
LGA    -       -      A     378           -
LGA    -       -      K     379           -
LGA    -       -      R     380           -
LGA    -       -      V     381           -
LGA    -       -      M     382           -
LGA    -       -      M     383           -
LGA    -       -      G     384           -
LGA    -       -      V     385           -
LGA    -       -      W     386           -
LGA    -       -      S     387           -
LGA    -       -      F     388           -
LGA    -       -      L     389           -
LGA    -       -      R     390           -
LGA    -       -      Q     391           -
LGA    -       -      F     392           -
LGA    -       -      M     393           -
LGA    -       -      Y     394           -
LGA    -       -      T     395           -
LGA    -       -      K     396           -
LGA    -       -      F     397           -
LGA    -       -      V     398           -
LGA    -       -      I     399           -
LGA    -       -      V     400           -
LGA    -       -      C     401           -
LGA    -       -      D     402           -
LGA    -       -      D     403           -
LGA    -       -      D     404           -
LGA    -       -      V     405           -
LGA    -       -      N     406           -
LGA    -       -      A     407           -
LGA    H     377      R     408          4.520
LGA    A     378      -       -           -
LGA    K     379      -       -           -
LGA    R     380      D     409          3.436
LGA    V     381      W     410          3.519
LGA    M     382      N     411          2.369
LGA    M     383      D     412          3.111
LGA    G     384      V     413          2.952
LGA    V     385      I     414          1.977
LGA    W     386      W     415          3.510
LGA    S     387      -       -           -
LGA    F     388      A     416          2.744
LGA    L     389      I     417          4.265
LGA    R     390      T     418           #
LGA    Q     391      T     419          4.269
LGA    F     392      R     420           #
LGA    M     393      M     421          3.119
LGA    Y     394      D     422          2.231
LGA    T     395      P     423          3.677
LGA    -       -      A     424           -
LGA    K     396      R     425          2.617
LGA    F     397      D     426          4.278
LGA    V     398      T     427          4.724
LGA    I     399      V     428          4.619
LGA    V     400      L     429          4.840
LGA    C     401      V     430          4.436
LGA    D     402      -       -           -
LGA    D     403      -       -           -
LGA    D     404      -       -           -
LGA    V     405      -       -           -
LGA    N     406      -       -           -
LGA    A     407      -       -           -
LGA    R     408      -       -           -
LGA    D     409      -       -           -
LGA    W     410      -       -           -
LGA    N     411      -       -           -
LGA    D     412      -       -           -
LGA    V     413      -       -           -
LGA    I     414      -       -           -
LGA    W     415      -       -           -
LGA    A     416      -       -           -
LGA    I     417      -       -           -
LGA    T     418      -       -           -
LGA    T     419      -       -           -
LGA    R     420      -       -           -
LGA    M     421      -       -           -
LGA    D     422      -       -           -
LGA    P     423      -       -           -
LGA    A     424      -       -           -
LGA    R     425      -       -           -
LGA    D     426      -       -           -
LGA    T     427      -       -           -
LGA    V     428      -       -           -
LGA    L     429      -       -           -
LGA    V     430      -       -           -
LGA    E     431      -       -           -
LGA    N     432      -       -           -
LGA    T     433      -       -           -
LGA    P     434      -       -           -
LGA    I     435      E     431          4.283
LGA    D     436      N     432          3.887
LGA    Y     437      T     433          1.641
LGA    L     438      P     434          1.394
LGA    D     439      I     435          1.548
LGA    F     440      D     436          2.214
LGA    A     441      Y     437           #
LGA    S     442      L     438          2.290
LGA    -       -      D     439           -
LGA    -       -      F     440           -
LGA    -       -      A     441           -
LGA    -       -      S     442           -
LGA    -       -      P     443           -
LGA    -       -      V     444           -
LGA    P     443      S     445          4.102
LGA    V     444      G     446          3.066
LGA    S     445      L     447          4.267
LGA    G     446      -       -           -
LGA    L     447      -       -           -
LGA    G     448      G     448          1.482
LGA    S     449      S     449          3.417
LGA    K     450      K     450          4.830
LGA    M     451      M     451          5.076
LGA    G     452      G     452          5.051
LGA    L     453      -       -           -
LGA    D     454      -       -           -
LGA    A     455      -       -           -
LGA    T     456      L     453           #
LGA    N     457      D     454          2.003
LGA    K     458      A     455          4.799
LGA    W     459      T     456          2.323
LGA    P     460      N     457          3.404
LGA    G     461      K     458           #
LGA    E     462      W     459           -
LGA    -       -      P     460           -
LGA    -       -      G     461           -
LGA    -       -      E     462           -
LGA    -       -      T     463           -
LGA    -       -      Q     464           -
LGA    -       -      R     465           -
LGA    -       -      E     466           -
LGA    T     463      W     467           #
LGA    Q     464      -       -           -
LGA    R     465      -       -           -
LGA    E     466      -       -           -
LGA    W     467      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  120  120    5.0     42    3.63    16.67     19.876     1.126

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.511367 * X  +   0.019928 * Y  +  -0.859131 * Z  +  71.606163
  Y_new =   0.203420 * X  +   0.968512 * Y  +   0.143544 * Z  +  72.777534
  Z_new =   0.834939 * X  +  -0.248168 * Y  +   0.491212 * Z  +  62.406815 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.467812    2.673781  [ DEG:   -26.8036    153.1964 ]
  Theta =  -0.988023   -2.153570  [ DEG:   -56.6095   -123.3905 ]
  Phi   =   0.378605   -2.762988  [ DEG:    21.6925   -158.3075 ]
 
# 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: T0356TS599_1-D3                               
REMARK     2: T0356_D3.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_1-D3.T0356_D3.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  120  120   5.0   42   3.63   16.67  19.876
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_1-D3
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    348  CA  PHE   348      70.396  68.265  75.132  1.00  0.00              
ATOM    349  CA  PRO   349      73.897  68.555  76.670  1.00  0.00              
ATOM    350  CA  GLU   350      75.306  65.109  76.228  1.00  0.00              
ATOM    351  CA  ILE   351      75.041  64.593  72.766  1.00  0.00              
ATOM    352  CA  VAL   352      77.612  63.245  70.586  1.00  0.00              
ATOM    353  CA  ASP   353      77.561  64.105  67.103  1.00  0.00              
ATOM    354  CA  PHE   354      74.497  66.007  65.435  1.00  0.00              
ATOM    355  CA  TYR   355      74.532  66.054  61.544  1.00  0.00              
ATOM    356  CA  LEU   356      71.394  67.540  59.876  1.00  0.00              
ATOM    357  CA  PRO   357      71.170  68.212  56.519  1.00  0.00              
ATOM    358  CA  PRO   358      69.251  71.788  56.301  1.00  0.00              
ATOM    359  CA  GLU   359      66.600  70.450  53.844  1.00  0.00              
ATOM    360  CA  GLY   360      65.314  67.879  55.646  1.00  0.00              
ATOM    361  CA  CYS   361      64.907  68.670  59.068  1.00  0.00              
ATOM    362  CA  SER   362      62.399  71.189  58.177  1.00  0.00              
ATOM    363  CA  TYR   363      60.086  69.210  55.814  1.00  0.00              
ATOM    364  CA  ARG   364      59.357  67.085  58.745  1.00  0.00              
ATOM    365  CA  LEU   365      58.485  69.383  61.860  1.00  0.00              
ATOM    366  CA  ALA   366      57.447  67.632  65.069  1.00  0.00              
ATOM    367  CA  VAL   367      55.262  69.982  67.379  1.00  0.00              
ATOM    368  CA  VAL   368      54.725  68.954  70.906  1.00  0.00              
ATOM    369  CA  THR   369      51.528  70.412  72.936  1.00  0.00              
ATOM    370  CA  ILE   370      51.526  70.850  76.269  1.00  0.00              
ATOM    371  CA  LYS   371      48.215  72.127  77.671  1.00  0.00              
ATOM    372  CA  LYS   372      49.231  74.922  79.538  1.00  0.00              
ATOM    373  CA  GLN   373      51.397  76.451  77.706  1.00  0.00              
ATOM    374  CA  TYR   374      49.762  76.287  74.383  1.00  0.00              
ATOM    375  CA  ALA   375      46.235  77.145  75.136  1.00  0.00              
ATOM    376  CA  GLY   376      45.896  78.465  71.817  1.00  0.00              
ATOM    377  CA  HIS   377      46.763  75.696  69.536  1.00  0.00              
ATOM    378  CA  ALA   378      45.205  73.398  72.132  1.00  0.00              
ATOM    379  CA  LYS   379      41.668  74.830  71.361  1.00  0.00              
ATOM    380  CA  ARG   380      42.785  74.734  67.715  1.00  0.00              
ATOM    381  CA  VAL   381      42.775  71.181  67.959  1.00  0.00              
ATOM    382  CA  MET   382      39.946  70.345  70.066  1.00  0.00              
ATOM    383  CA  MET   383      37.908  72.060  67.216  1.00  0.00              
ATOM    384  CA  GLY   384      39.635  69.716  64.534  1.00  0.00              
ATOM    385  CA  VAL   385      38.221  66.805  66.394  1.00  0.00              
ATOM    386  CA  TRP   386      34.662  68.132  66.451  1.00  0.00              
ATOM    387  CA  SER   387      34.333  69.211  63.318  1.00  0.00              
ATOM    388  CA  PHE   388      35.938  66.542  61.820  1.00  0.00              
ATOM    389  CA  LEU   389      35.652  63.465  64.020  1.00  0.00              
ATOM    390  CA  ARG   390      32.244  62.716  65.158  1.00  0.00              
ATOM    391  CA  GLN   391      30.975  63.954  61.812  1.00  0.00              
ATOM    392  CA  PHE   392      30.913  61.573  58.582  1.00  0.00              
ATOM    393  CA  MET   393      34.366  61.913  57.221  1.00  0.00              
ATOM    394  CA  TYR   394      35.397  59.429  54.826  1.00  0.00              
ATOM    395  CA  THR   395      38.306  57.283  54.911  1.00  0.00              
ATOM    396  CA  LYS   396      38.273  56.560  51.036  1.00  0.00              
ATOM    397  CA  PHE   397      41.137  54.256  50.206  1.00  0.00              
ATOM    398  CA  VAL   398      42.410  51.257  52.905  1.00  0.00              
ATOM    399  CA  ILE   399      45.208  49.731  52.818  1.00  0.00              
ATOM    400  CA  VAL   400      45.918  46.711  54.689  1.00  0.00              
ATOM    401  CA  CYS   401      49.222  45.631  55.200  1.00  0.00              
ATOM    402  CA  ASP   402      50.072  42.509  56.972  1.00  0.00              
ATOM    403  CA  ASP   403      53.434  40.147  57.140  1.00  0.00              
ATOM    404  CA  ASP   404      51.845  37.512  56.913  1.00  0.00              
ATOM    405  CA  VAL   405      49.852  37.454  53.990  1.00  0.00              
ATOM    406  CA  ASN   406      48.754  34.291  51.469  1.00  0.00              
ATOM    407  CA  ALA   407      49.902  35.956  48.156  1.00  0.00              
ATOM    408  CA  ARG   408      47.519  33.833  45.851  1.00  0.00              
ATOM    409  CA  ASP   409      44.740  34.855  47.882  1.00  0.00              
ATOM    410  CA  TRP   410      43.830  38.368  47.832  1.00  0.00              
ATOM    411  CA  ASN   411      40.067  38.316  47.454  1.00  0.00              
ATOM    412  CA  ASP   412      39.865  36.452  50.711  1.00  0.00              
ATOM    413  CA  VAL   413      42.138  38.442  52.644  1.00  0.00              
ATOM    414  CA  ILE   414      40.211  41.844  51.323  1.00  0.00              
ATOM    415  CA  TRP   415      37.052  40.024  52.752  1.00  0.00              
ATOM    416  CA  ALA   416      38.636  40.159  55.684  1.00  0.00              
ATOM    417  CA  ILE   417      39.184  43.899  55.486  1.00  0.00              
ATOM    418  CA  THR   418      35.601  44.058  54.683  1.00  0.00              
ATOM    419  CA  THR   419      34.451  42.438  57.985  1.00  0.00              
ATOM    420  CA  ARG   420      36.392  44.382  59.840  1.00  0.00              
ATOM    421  CA  MET   421      35.162  48.052  59.223  1.00  0.00              
ATOM    422  CA  ASP   422      32.454  50.004  57.926  1.00  0.00              
ATOM    423  CA  PRO   423      31.036  49.110  54.447  1.00  0.00              
ATOM    424  CA  ALA   424      32.206  51.732  52.279  1.00  0.00              
ATOM    425  CA  ARG   425      35.679  52.268  53.121  1.00  0.00              
ATOM    426  CA  ASP   426      37.788  51.102  50.530  1.00  0.00              
ATOM    427  CA  THR   427      39.527  47.803  51.591  1.00  0.00              
ATOM    428  CA  VAL   428      42.542  46.418  50.045  1.00  0.00              
ATOM    429  CA  LEU   429      45.008  43.488  51.028  1.00  0.00              
ATOM    430  CA  VAL   430      47.995  43.462  50.219  1.00  0.00              
ATOM    431  CA  GLU   431      49.580  39.762  49.382  1.00  0.00              
ATOM    432  CA  ASN   432      53.128  39.416  50.120  1.00  0.00              
ATOM    433  CA  THR   433      53.498  43.217  51.208  1.00  0.00              
ATOM    434  CA  PRO   434      56.519  43.701  53.482  1.00  0.00              
ATOM    435  CA  ILE   435      56.082  45.767  55.839  1.00  0.00              
ATOM    436  CA  ASP   436      58.054  47.877  57.910  1.00  0.00              
ATOM    437  CA  TYR   437      58.271  49.418  61.113  1.00  0.00              
ATOM    438  CA  LEU   438      60.488  49.701  63.831  1.00  0.00              
ATOM    439  CA  ASP   439      59.444  51.361  66.748  1.00  0.00              
ATOM    440  CA  PHE   440      61.642  52.607  69.267  1.00  0.00              
ATOM    441  CA  ALA   441      59.584  53.283  71.860  1.00  0.00              
ATOM    442  CA  SER   442      58.962  49.681  72.533  1.00  0.00              
ATOM    443  CA  PRO   443      60.893  47.040  71.266  1.00  0.00              
ATOM    444  CA  VAL   444      58.505  45.237  69.080  1.00  0.00              
ATOM    445  CA  SER   445      61.761  44.370  67.210  1.00  0.00              
ATOM    446  CA  GLY   446      59.959  43.756  64.096  1.00  0.00              
ATOM    447  CA  LEU   447      56.601  42.653  63.426  1.00  0.00              
ATOM    448  CA  GLY   448      54.141  45.576  63.508  1.00  0.00              
ATOM    449  CA  SER   449      51.057  45.269  61.689  1.00  0.00              
ATOM    450  CA  LYS   450      51.406  47.666  59.225  1.00  0.00              
ATOM    451  CA  MET   451      48.528  49.232  58.098  1.00  0.00              
ATOM    452  CA  GLY   452      48.100  52.576  55.425  1.00  0.00              
ATOM    453  CA  LEU   453      45.308  54.372  55.942  1.00  0.00              
ATOM    454  CA  ASP   454      44.236  55.929  52.682  1.00  0.00              
ATOM    455  CA  ALA   455      41.622  58.590  51.603  1.00  0.00              
ATOM    456  CA  THR   456      39.223  59.080  55.046  1.00  0.00              
ATOM    457  CA  ASN   457      42.932  59.868  56.587  1.00  0.00              
ATOM    458  CA  LYS   458      44.610  61.656  53.763  1.00  0.00              
ATOM    459  CA  TRP   459      41.419  63.594  53.715  1.00  0.00              
ATOM    460  CA  PRO   460      42.432  66.739  51.506  1.00  0.00              
ATOM    461  CA  GLY   461      42.862  70.298  51.149  1.00  0.00              
ATOM    462  CA  GLU   462      40.364  71.542  49.625  1.00  0.00              
ATOM    463  CA  THR   463      37.384  71.610  52.159  1.00  0.00              
ATOM    464  CA  GLN   464      35.652  74.517  53.407  1.00  0.00              
ATOM    465  CA  ARG   465      36.668  74.651  56.984  1.00  0.00              
ATOM    466  CA  GLU   466      33.756  75.096  58.942  1.00  0.00              
ATOM    467  CA  TRP   467      33.004  73.506  61.814  1.00  0.00              
TER                                                                             
END
