
#######################################################
#                                                     #
#                        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_2-D3
# Molecule2: number of CA atoms  120 (  972),  selected  120 , name T0356_D3.pdb
# PARAMETERS: T0356TS599_2-D3.T0356_D3.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    F     348      F     348           -
LGA    P     349      P     349           -
LGA    E     350      E     350           -
LGA    I     351      I     351           -
LGA    V     352      V     352           -
LGA    D     353      D     353           -
LGA    F     354      F     354           -
LGA    Y     355      Y     355           -
LGA    L     356      L     356           -
LGA    P     357      -       -           -
LGA    P     358      -       -           -
LGA    E     359      P     357           #
LGA    G     360      P     358          2.719
LGA    C     361      E     359          3.368
LGA    S     362      G     360           #
LGA    -       -      C     361           -
LGA    Y     363      S     362          2.242
LGA    R     364      Y     363          2.331
LGA    -       -      R     364           -
LGA    L     365      L     365          2.247
LGA    A     366      A     366          1.333
LGA    V     367      V     367          1.458
LGA    V     368      V     368          1.029
LGA    T     369      T     369          1.253
LGA    I     370      I     370          2.324
LGA    K     371      K     371          1.462
LGA    K     372      K     372          1.810
LGA    Q     373      Q     373          2.823
LGA    Y     374      Y     374           #
LGA    -       -      A     375           -
LGA    A     375      G     376           #
LGA    G     376      H     377          4.367
LGA    H     377      -       -           -
LGA    A     378      A     378          4.241
LGA    K     379      K     379          3.101
LGA    R     380      R     380          2.126
LGA    V     381      V     381          1.505
LGA    M     382      M     382          0.440
LGA    M     383      M     383          0.838
LGA    G     384      G     384          2.628
LGA    V     385      V     385          2.914
LGA    -       -      W     386           -
LGA    W     386      S     387           #
LGA    S     387      F     388           -
LGA    -       -      L     389           -
LGA    -       -      R     390           -
LGA    -       -      Q     391           -
LGA    F     388      F     392           #
LGA    L     389      M     393          3.109
LGA    R     390      Y     394          4.774
LGA    Q     391      -       -           -
LGA    F     392      -       -           -
LGA    M     393      -       -           -
LGA    Y     394      -       -           -
LGA    T     395      T     395          4.479
LGA    K     396      K     396           #
LGA    F     397      F     397          2.304
LGA    V     398      V     398          1.516
LGA    I     399      I     399          1.357
LGA    V     400      V     400          1.256
LGA    C     401      C     401          1.732
LGA    D     402      -       -           -
LGA    D     403      D     402          4.954
LGA    D     404      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    V     405      I     417           #
LGA    -       -      T     418           -
LGA    -       -      T     419           -
LGA    N     406      R     420          5.958
LGA    A     407      -       -           -
LGA    R     408      M     421           #
LGA    D     409      D     422          3.170
LGA    W     410      P     423          2.240
LGA    N     411      A     424          2.175
LGA    D     412      R     425          1.522
LGA    V     413      D     426          0.954
LGA    I     414      T     427          1.500
LGA    W     415      -       -           -
LGA    A     416      -       -           -
LGA    I     417      V     428          2.224
LGA    T     418      L     429          2.349
LGA    T     419      -       -           -
LGA    R     420      -       -           -
LGA    M     421      V     430          3.883
LGA    D     422      E     431          4.228
LGA    P     423      N     432           #
LGA    -       -      T     433           -
LGA    -       -      P     434           -
LGA    -       -      I     435           -
LGA    -       -      D     436           -
LGA    -       -      Y     437           -
LGA    -       -      L     438           -
LGA    -       -      D     439           -
LGA    -       -      F     440           -
LGA    -       -      A     441           -
LGA    -       -      S     442           -
LGA    -       -      P     443           -
LGA    -       -      V     444           -
LGA    -       -      S     445           -
LGA    -       -      G     446           -
LGA    -       -      L     447           -
LGA    -       -      G     448           -
LGA    A     424      S     449          0.768
LGA    R     425      K     450          1.325
LGA    D     426      M     451          3.011
LGA    T     427      G     452          2.158
LGA    V     428      L     453          2.469
LGA    L     429      D     454          2.360
LGA    V     430      A     455          1.734
LGA    E     431      T     456          4.516
LGA    N     432      N     457           #
LGA    T     433      K     458           -
LGA    P     434      W     459           -
LGA    I     435      P     460           -
LGA    D     436      G     461           -
LGA    Y     437      E     462           -
LGA    L     438      T     463           -
LGA    D     439      Q     464           -
LGA    F     440      R     465           -
LGA    A     441      E     466           -
LGA    S     442      W     467           -
LGA    P     443      -       -           -
LGA    V     444      -       -           -
LGA    S     445      -       -           -
LGA    G     446      -       -           -
LGA    L     447      -       -           -
LGA    G     448      -       -           -
LGA    S     449      -       -           -
LGA    K     450      -       -           -
LGA    M     451      -       -           -
LGA    G     452      -       -           -
LGA    L     453      -       -           -
LGA    D     454      -       -           -
LGA    A     455      -       -           -
LGA    T     456      -       -           -
LGA    N     457      -       -           -
LGA    K     458      -       -           -
LGA    W     459      -       -           -
LGA    P     460      -       -           -
LGA    G     461      -       -           -
LGA    E     462      -       -           -
LGA    T     463      -       -           -
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     50    2.74    50.00     26.846     1.760

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.495590 * X  +   0.868329 * Y  +  -0.019885 * Z  +  60.525314
  Y_new =   0.417774 * X  +  -0.218244 * Y  +   0.881950 * Z  +  77.588951
  Z_new =   0.761482 * X  +  -0.445393 * Y  +  -0.470924 * Z  +  60.664436 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.384050    0.757543  [ DEG:  -136.5960     43.4040 ]
  Theta =  -0.865597   -2.275996  [ DEG:   -49.5950   -130.4050 ]
  Phi   =   0.700405   -2.441187  [ DEG:    40.1303   -139.8697 ]
 
# 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_2-D3                               
REMARK     2: T0356_D3.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_2-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   50   2.74   50.00  26.846
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_2-D3
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM    348  CA  PHE   348      36.975  55.301  75.220  1.00  0.00              
ATOM    349  CA  PRO   349      33.760  54.643  76.978  1.00  0.00              
ATOM    350  CA  GLU   350      35.470  52.830  80.184  1.00  0.00              
ATOM    351  CA  ILE   351      38.000  55.074  80.689  1.00  0.00              
ATOM    352  CA  VAL   352      38.344  56.965  84.073  1.00  0.00              
ATOM    353  CA  ASP   353      41.628  59.324  83.877  1.00  0.00              
ATOM    354  CA  PHE   354      44.100  59.641  81.326  1.00  0.00              
ATOM    355  CA  TYR   355      47.012  62.390  81.825  1.00  0.00              
ATOM    356  CA  LEU   356      49.009  63.873  79.329  1.00  0.00              
ATOM    357  CA  PRO   357      52.102  65.955  79.867  1.00  0.00              
ATOM    358  CA  PRO   358      52.531  68.502  77.284  1.00  0.00              
ATOM    359  CA  GLU   359      55.598  67.643  75.838  1.00  0.00              
ATOM    360  CA  GLY   360      54.536  63.989  75.705  1.00  0.00              
ATOM    361  CA  CYS   361      51.605  64.498  73.687  1.00  0.00              
ATOM    362  CA  SER   362      53.553  66.247  70.801  1.00  0.00              
ATOM    363  CA  TYR   363      56.321  63.670  70.579  1.00  0.00              
ATOM    364  CA  ARG   364      54.122  60.805  70.250  1.00  0.00              
ATOM    365  CA  LEU   365      51.291  62.252  68.029  1.00  0.00              
ATOM    366  CA  ALA   366      52.486  64.076  64.760  1.00  0.00              
ATOM    367  CA  VAL   367      50.184  66.373  62.560  1.00  0.00              
ATOM    368  CA  VAL   368      50.775  66.547  59.292  1.00  0.00              
ATOM    369  CA  THR   369      48.568  69.297  57.051  1.00  0.00              
ATOM    370  CA  ILE   370      48.229  68.687  53.847  1.00  0.00              
ATOM    371  CA  LYS   371      47.216  71.495  51.942  1.00  0.00              
ATOM    372  CA  LYS   372      45.398  71.219  48.697  1.00  0.00              
ATOM    373  CA  GLN   373      47.110  73.185  46.785  1.00  0.00              
ATOM    374  CA  TYR   374      50.145  70.928  47.214  1.00  0.00              
ATOM    375  CA  ALA   375      48.851  67.971  47.210  1.00  0.00              
ATOM    376  CA  GLY   376      51.981  65.863  45.960  1.00  0.00              
ATOM    377  CA  HIS   377      54.019  67.072  48.739  1.00  0.00              
ATOM    378  CA  ALA   378      51.085  65.801  51.048  1.00  0.00              
ATOM    379  CA  LYS   379      51.070  62.562  50.398  1.00  0.00              
ATOM    380  CA  ARG   380      55.041  62.064  50.803  1.00  0.00              
ATOM    381  CA  VAL   381      54.679  63.383  53.939  1.00  0.00              
ATOM    382  CA  MET   382      52.478  60.806  55.201  1.00  0.00              
ATOM    383  CA  MET   383      54.614  58.090  53.916  1.00  0.00              
ATOM    384  CA  GLY   384      58.000  59.285  55.235  1.00  0.00              
ATOM    385  CA  VAL   385      56.144  58.865  58.682  1.00  0.00              
ATOM    386  CA  TRP   386      54.999  56.120  58.487  1.00  0.00              
ATOM    387  CA  SER   387      57.913  54.805  57.835  1.00  0.00              
ATOM    388  CA  PHE   388      60.579  55.491  60.371  1.00  0.00              
ATOM    389  CA  LEU   389      58.240  54.584  63.413  1.00  0.00              
ATOM    390  CA  ARG   390      56.860  51.171  63.227  1.00  0.00              
ATOM    391  CA  GLN   391      56.506  49.456  66.727  1.00  0.00              
ATOM    392  CA  PHE   392      57.947  52.389  68.847  1.00  0.00              
ATOM    393  CA  MET   393      57.154  52.553  72.449  1.00  0.00              
ATOM    394  CA  TYR   394      55.080  55.876  72.180  1.00  0.00              
ATOM    395  CA  THR   395      53.435  55.483  68.997  1.00  0.00              
ATOM    396  CA  LYS   396      54.324  58.654  67.648  1.00  0.00              
ATOM    397  CA  PHE   397      51.434  58.496  65.094  1.00  0.00              
ATOM    398  CA  VAL   398      50.648  60.474  62.526  1.00  0.00              
ATOM    399  CA  ILE   399      47.912  62.313  61.271  1.00  0.00              
ATOM    400  CA  VAL   400      47.055  63.308  58.172  1.00  0.00              
ATOM    401  CA  CYS   401      44.914  65.761  57.276  1.00  0.00              
ATOM    402  CA  ASP   402      43.931  66.606  53.480  1.00  0.00              
ATOM    403  CA  ASP   403      40.947  68.326  52.521  1.00  0.00              
ATOM    404  CA  ASP   404      39.973  66.232  49.649  1.00  0.00              
ATOM    405  CA  VAL   405      38.966  63.079  51.356  1.00  0.00              
ATOM    406  CA  ASN   406      35.904  61.962  50.271  1.00  0.00              
ATOM    407  CA  ALA   407      34.120  60.350  53.290  1.00  0.00              
ATOM    408  CA  ARG   408      32.173  57.636  51.503  1.00  0.00              
ATOM    409  CA  ASP   409      33.049  55.757  54.844  1.00  0.00              
ATOM    410  CA  TRP   410      35.861  56.055  56.787  1.00  0.00              
ATOM    411  CA  ASN   411      36.778  52.532  56.674  1.00  0.00              
ATOM    412  CA  ASP   412      37.525  53.764  52.973  1.00  0.00              
ATOM    413  CA  VAL   413      40.348  56.243  53.964  1.00  0.00              
ATOM    414  CA  ILE   414      41.960  53.830  56.336  1.00  0.00              
ATOM    415  CA  TRP   415      42.501  51.333  53.181  1.00  0.00              
ATOM    416  CA  ALA   416      43.960  53.324  51.360  1.00  0.00              
ATOM    417  CA  ILE   417      46.703  54.974  53.460  1.00  0.00              
ATOM    418  CA  THR   418      47.242  51.518  54.987  1.00  0.00              
ATOM    419  CA  THR   419      47.508  50.493  51.237  1.00  0.00              
ATOM    420  CA  ARG   420      50.709  52.989  50.748  1.00  0.00              
ATOM    421  CA  MET   421      52.492  51.833  53.763  1.00  0.00              
ATOM    422  CA  ASP   422      53.916  49.961  56.640  1.00  0.00              
ATOM    423  CA  PRO   423      51.515  48.114  58.368  1.00  0.00              
ATOM    424  CA  ALA   424      52.317  48.948  61.635  1.00  0.00              
ATOM    425  CA  ARG   425      52.739  52.793  61.225  1.00  0.00              
ATOM    426  CA  ASP   426      49.632  54.761  63.103  1.00  0.00              
ATOM    427  CA  THR   427      48.269  57.022  60.468  1.00  0.00              
ATOM    428  CA  VAL   428      44.944  58.384  60.654  1.00  0.00              
ATOM    429  CA  LEU   429      43.369  60.102  57.823  1.00  0.00              
ATOM    430  CA  VAL   430      41.009  62.670  58.179  1.00  0.00              
ATOM    431  CA  GLU   431      38.325  63.661  55.545  1.00  0.00              
ATOM    432  CA  ASN   432      36.001  66.254  57.001  1.00  0.00              
ATOM    433  CA  THR   433      37.908  67.483  59.598  1.00  0.00              
ATOM    434  CA  PRO   434      38.273  71.488  59.585  1.00  0.00              
ATOM    435  CA  ILE   435      39.973  72.823  62.892  1.00  0.00              
ATOM    436  CA  ASP   436      39.274  75.968  63.513  1.00  0.00              
ATOM    437  CA  TYR   437      41.329  78.047  65.896  1.00  0.00              
ATOM    438  CA  LEU   438      39.058  79.326  68.490  1.00  0.00              
ATOM    439  CA  ASP   439      40.828  81.445  71.411  1.00  0.00              
ATOM    440  CA  PHE   440      39.162  81.269  74.396  1.00  0.00              
ATOM    441  CA  ALA   441      38.826  84.875  75.492  1.00  0.00              
ATOM    442  CA  SER   442      40.462  84.581  78.647  1.00  0.00              
ATOM    443  CA  PRO   443      43.698  86.683  78.560  1.00  0.00              
ATOM    444  CA  VAL   444      45.855  86.104  81.356  1.00  0.00              
ATOM    445  CA  SER   445      44.805  88.874  83.727  1.00  0.00              
ATOM    446  CA  GLY   446      47.573  90.318  85.054  1.00  0.00              
ATOM    447  CA  LEU   447      50.483  90.524  82.449  1.00  0.00              
ATOM    448  CA  GLY   448      53.088  92.747  83.573  1.00  0.00              
ATOM    449  CA  SER   449      56.140  92.767  81.941  1.00  0.00              
ATOM    450  CA  LYS   450      59.344  93.300  82.583  1.00  0.00              
ATOM    451  CA  MET   451      61.098  94.676  79.998  1.00  0.00              
ATOM    452  CA  GLY   452      65.014  94.710  79.727  1.00  0.00              
ATOM    453  CA  LEU   453      66.753  96.481  77.572  1.00  0.00              
ATOM    454  CA  ASP   454      69.947  95.486  75.513  1.00  0.00              
ATOM    455  CA  ALA   455      71.807  97.283  73.477  1.00  0.00              
ATOM    456  CA  THR   456      72.889 100.475  74.992  1.00  0.00              
ATOM    457  CA  ASN   457      73.431  98.689  78.498  1.00  0.00              
ATOM    458  CA  LYS   458      76.276  96.243  77.981  1.00  0.00              
ATOM    459  CA  TRP   459      74.725  93.172  78.945  1.00  0.00              
ATOM    460  CA  PRO   460      76.688  90.527  80.175  1.00  0.00              
ATOM    461  CA  GLY   461      78.387  89.504  76.748  1.00  0.00              
ATOM    462  CA  GLU   462      80.552  86.340  77.320  1.00  0.00              
ATOM    463  CA  THR   463      81.459  87.280  80.763  1.00  0.00              
ATOM    464  CA  GLN   464      79.184  88.111  83.185  1.00  0.00              
ATOM    465  CA  ARG   465      76.377  85.690  83.069  1.00  0.00              
ATOM    466  CA  GLU   466      73.703  88.051  83.827  1.00  0.00              
ATOM    467  CA  TRP   467      70.959  88.720  81.362  1.00  0.00              
TER                                                                             
END
