
#######################################################
#                                                     #
#                        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_5-D3
# Molecule2: number of CA atoms  120 (  972),  selected  120 , name T0356_D3.pdb
# PARAMETERS: T0356TS599_5-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      -       -           -
LGA    G     360      P     357           #
LGA    C     361      -       -           -
LGA    S     362      -       -           -
LGA    Y     363      -       -           -
LGA    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      P     358           #
LGA    M     393      E     359          1.860
LGA    Y     394      G     360          1.461
LGA    T     395      C     361           #
LGA    -       -      S     362           -
LGA    -       -      Y     363           -
LGA    K     396      R     364          2.112
LGA    F     397      L     365          3.792
LGA    V     398      A     366          2.684
LGA    I     399      V     367          3.665
LGA    V     400      V     368          2.889
LGA    C     401      T     369          2.761
LGA    D     402      I     370          3.252
LGA    D     403      -       -           -
LGA    D     404      K     371          2.984
LGA    V     405      K     372          3.297
LGA    N     406      Q     373          1.960
LGA    A     407      Y     374          4.751
LGA    R     408      A     375          3.583
LGA    D     409      G     376          1.434
LGA    -       -      H     377           -
LGA    W     410      A     378          2.921
LGA    N     411      K     379          2.600
LGA    D     412      R     380          2.419
LGA    V     413      V     381          2.404
LGA    I     414      M     382          1.067
LGA    W     415      M     383          0.786
LGA    A     416      G     384          1.230
LGA    I     417      V     385          1.929
LGA    T     418      W     386          1.147
LGA    T     419      S     387          1.322
LGA    R     420      F     388          1.797
LGA    M     421      L     389          3.538
LGA    -       -      R     390           -
LGA    -       -      Q     391           -
LGA    D     422      F     392          2.728
LGA    P     423      M     393          2.080
LGA    A     424      Y     394          1.827
LGA    R     425      T     395          1.135
LGA    D     426      K     396          3.048
LGA    -       -      F     397           -
LGA    T     427      V     398          2.915
LGA    V     428      I     399          2.451
LGA    L     429      V     400          2.527
LGA    V     430      C     401          2.260
LGA    E     431      D     402          3.646
LGA    N     432      -       -           -
LGA    T     433      D     403          2.775
LGA    P     434      D     404          1.318
LGA    I     435      V     405          2.902
LGA    D     436      N     406           -
LGA    -       -      A     407           -
LGA    -       -      R     408           -
LGA    Y     437      D     409           #
LGA    L     438      W     410           -
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    S     449      -       -           -
LGA    K     450      -       -           -
LGA    M     451      N     411          3.831
LGA    -       -      D     412           -
LGA    -       -      V     413           -
LGA    G     452      I     414          2.617
LGA    L     453      W     415          3.896
LGA    -       -      A     416           -
LGA    D     454      I     417          5.250
LGA    A     455      T     418          4.594
LGA    T     456      -       -           -
LGA    N     457      T     419          3.941
LGA    K     458      R     420          3.990
LGA    W     459      M     421           #
LGA    P     460      D     422           -
LGA    G     461      P     423           -
LGA    E     462      A     424           -
LGA    T     463      R     425           -
LGA    Q     464      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           -
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    -       -      S     449           -
LGA    -       -      K     450           -
LGA    -       -      M     451           -
LGA    -       -      G     452           -
LGA    -       -      L     453           -
LGA    -       -      D     454           -
LGA    -       -      A     455           -
LGA    -       -      T     456           -
LGA    R     465      N     457          4.077
LGA    E     466      K     458          2.044
LGA    W     467      W     459          2.983
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    2.88     6.00     25.438     1.678

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.058149 * X  +  -0.998013 * Y  +   0.024268 * Z  +  49.019699
  Y_new =   0.997343 * X  +   0.057007 * Y  +  -0.045349 * Z  +  67.594315
  Z_new =   0.043875 * X  +   0.026840 * Y  +   0.998676 * Z  +  84.874405 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.026869   -3.114723  [ DEG:     1.5395   -178.4605 ]
  Theta =  -0.043890   -3.097703  [ DEG:    -2.5147   -177.4853 ]
  Phi   =   1.512558   -1.629034  [ DEG:    86.6632    -93.3368 ]
 
# 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_5-D3                               
REMARK     2: T0356_D3.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_5-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   2.88    6.00  25.438
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_5-D3
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM    348  CA  PHE   348      23.921  59.587  66.123  1.00  0.00              
ATOM    349  CA  PRO   349      23.137  56.551  64.325  1.00  0.00              
ATOM    350  CA  GLU   350      24.682  56.802  61.334  1.00  0.00              
ATOM    351  CA  ILE   351      28.201  57.923  62.609  1.00  0.00              
ATOM    352  CA  VAL   352      30.756  56.532  60.688  1.00  0.00              
ATOM    353  CA  ASP   353      34.209  57.852  62.465  1.00  0.00              
ATOM    354  CA  PHE   354      34.654  59.674  65.878  1.00  0.00              
ATOM    355  CA  TYR   355      37.497  61.174  66.944  1.00  0.00              
ATOM    356  CA  LEU   356      38.990  63.450  69.577  1.00  0.00              
ATOM    357  CA  PRO   357      42.088  64.414  70.395  1.00  0.00              
ATOM    358  CA  PRO   358      42.787  67.680  72.149  1.00  0.00              
ATOM    359  CA  GLU   359      45.727  68.815  70.868  1.00  0.00              
ATOM    360  CA  GLY   360      45.218  67.622  67.510  1.00  0.00              
ATOM    361  CA  CYS   361      41.751  69.395  67.136  1.00  0.00              
ATOM    362  CA  SER   362      43.763  72.566  67.607  1.00  0.00              
ATOM    363  CA  TYR   363      46.169  73.209  65.222  1.00  0.00              
ATOM    364  CA  ARG   364      44.250  71.253  62.030  1.00  0.00              
ATOM    365  CA  LEU   365      40.758  71.857  62.792  1.00  0.00              
ATOM    366  CA  ALA   366      37.550  70.151  64.555  1.00  0.00              
ATOM    367  CA  VAL   367      33.949  70.379  63.075  1.00  0.00              
ATOM    368  CA  VAL   368      31.059  70.136  65.800  1.00  0.00              
ATOM    369  CA  THR   369      27.867  70.682  65.764  1.00  0.00              
ATOM    370  CA  ILE   370      25.000  69.136  67.871  1.00  0.00              
ATOM    371  CA  LYS   371      23.618  71.603  70.328  1.00  0.00              
ATOM    372  CA  LYS   372      20.062  70.183  70.856  1.00  0.00              
ATOM    373  CA  GLN   373      20.775  66.561  69.964  1.00  0.00              
ATOM    374  CA  TYR   374      23.825  65.757  72.337  1.00  0.00              
ATOM    375  CA  ALA   375      23.569  68.178  74.858  1.00  0.00              
ATOM    376  CA  GLY   376      22.486  66.487  78.340  1.00  0.00              
ATOM    377  CA  HIS   377      24.541  63.797  78.349  1.00  0.00              
ATOM    378  CA  ALA   378      27.245  65.572  76.734  1.00  0.00              
ATOM    379  CA  LYS   379      27.637  67.958  79.117  1.00  0.00              
ATOM    380  CA  ARG   380      27.883  65.618  82.381  1.00  0.00              
ATOM    381  CA  VAL   381      30.614  63.970  80.442  1.00  0.00              
ATOM    382  CA  MET   382      32.444  67.182  80.055  1.00  0.00              
ATOM    383  CA  MET   383      32.745  67.824  83.397  1.00  0.00              
ATOM    384  CA  GLY   384      33.852  64.420  84.585  1.00  0.00              
ATOM    385  CA  VAL   385      36.557  64.622  81.917  1.00  0.00              
ATOM    386  CA  TRP   386      37.524  67.910  82.824  1.00  0.00              
ATOM    387  CA  SER   387      37.874  67.621  86.298  1.00  0.00              
ATOM    388  CA  PHE   388      39.923  64.125  85.683  1.00  0.00              
ATOM    389  CA  LEU   389      42.451  65.922  83.436  1.00  0.00              
ATOM    390  CA  ARG   390      46.201  65.318  83.392  1.00  0.00              
ATOM    391  CA  GLN   391      46.683  63.269  80.517  1.00  0.00              
ATOM    392  CA  PHE   392      48.802  61.826  78.153  1.00  0.00              
ATOM    393  CA  MET   393      47.852  61.712  74.420  1.00  0.00              
ATOM    394  CA  TYR   394      49.972  59.133  72.759  1.00  0.00              
ATOM    395  CA  THR   395      50.406  60.835  69.276  1.00  0.00              
ATOM    396  CA  LYS   396      53.918  60.031  68.530  1.00  0.00              
ATOM    397  CA  PHE   397      54.264  62.137  65.713  1.00  0.00              
ATOM    398  CA  VAL   398      53.002  65.316  64.095  1.00  0.00              
ATOM    399  CA  ILE   399      52.053  65.824  60.889  1.00  0.00              
ATOM    400  CA  VAL   400      51.813  69.513  59.962  1.00  0.00              
ATOM    401  CA  CYS   401      50.401  70.870  56.674  1.00  0.00              
ATOM    402  CA  ASP   402      48.968  73.739  55.758  1.00  0.00              
ATOM    403  CA  ASP   403      46.589  75.030  53.709  1.00  0.00              
ATOM    404  CA  ASP   404      47.550  75.352  50.061  1.00  0.00              
ATOM    405  CA  VAL   405      48.976  71.978  49.826  1.00  0.00              
ATOM    406  CA  ASN   406      48.176  69.649  47.122  1.00  0.00              
ATOM    407  CA  ALA   407      48.053  66.085  48.304  1.00  0.00              
ATOM    408  CA  ARG   408      47.896  63.911  45.827  1.00  0.00              
ATOM    409  CA  ASP   409      47.400  60.485  47.104  1.00  0.00              
ATOM    410  CA  TRP   410      47.582  60.418  50.603  1.00  0.00              
ATOM    411  CA  ASN   411      49.977  57.298  50.693  1.00  0.00              
ATOM    412  CA  ASP   412      52.755  59.362  49.429  1.00  0.00              
ATOM    413  CA  VAL   413      52.243  61.858  52.204  1.00  0.00              
ATOM    414  CA  ILE   414      52.481  59.540  54.549  1.00  0.00              
ATOM    415  CA  TRP   415      55.673  57.986  53.231  1.00  0.00              
ATOM    416  CA  ALA   416      57.242  61.427  53.152  1.00  0.00              
ATOM    417  CA  ILE   417      56.532  62.712  56.502  1.00  0.00              
ATOM    418  CA  THR   418      57.720  58.754  57.672  1.00  0.00              
ATOM    419  CA  THR   419      61.242  59.517  56.019  1.00  0.00              
ATOM    420  CA  ARG   420      61.478  62.604  57.754  1.00  0.00              
ATOM    421  CA  MET   421      60.639  61.100  60.972  1.00  0.00              
ATOM    422  CA  ASP   422      61.226  57.921  62.890  1.00  0.00              
ATOM    423  CA  PRO   423      59.116  55.030  61.742  1.00  0.00              
ATOM    424  CA  ALA   424      57.038  54.387  64.870  1.00  0.00              
ATOM    425  CA  ARG   425      56.178  58.027  65.331  1.00  0.00              
ATOM    426  CA  ASP   426      52.925  57.725  64.067  1.00  0.00              
ATOM    427  CA  THR   427      52.499  60.827  61.413  1.00  0.00              
ATOM    428  CA  VAL   428      49.140  62.092  60.455  1.00  0.00              
ATOM    429  CA  LEU   429      49.394  64.341  57.655  1.00  0.00              
ATOM    430  CA  VAL   430      46.840  67.106  57.130  1.00  0.00              
ATOM    431  CA  GLU   431      45.516  67.903  53.647  1.00  0.00              
ATOM    432  CA  ASN   432      44.277  71.304  53.109  1.00  0.00              
ATOM    433  CA  THR   433      43.474  72.009  56.525  1.00  0.00              
ATOM    434  CA  PRO   434      40.627  74.291  57.379  1.00  0.00              
ATOM    435  CA  ILE   435      39.481  73.958  60.646  1.00  0.00              
ATOM    436  CA  ASP   436      36.567  75.762  62.229  1.00  0.00              
ATOM    437  CA  TYR   437      35.287  74.597  65.276  1.00  0.00              
ATOM    438  CA  LEU   438      31.576  74.148  65.766  1.00  0.00              
ATOM    439  CA  ASP   439      30.425  73.939  68.924  1.00  0.00              
ATOM    440  CA  PHE   440      27.120  74.224  69.420  1.00  0.00              
ATOM    441  CA  ALA   441      26.656  72.253  72.852  1.00  0.00              
ATOM    442  CA  SER   442      28.177  74.647  74.729  1.00  0.00              
ATOM    443  CA  PRO   443      29.156  76.106  77.856  1.00  0.00              
ATOM    444  CA  VAL   444      31.414  74.351  80.037  1.00  0.00              
ATOM    445  CA  SER   445      32.013  76.861  82.637  1.00  0.00              
ATOM    446  CA  GLY   446      35.567  75.858  82.580  1.00  0.00              
ATOM    447  CA  LEU   447      36.540  72.989  80.730  1.00  0.00              
ATOM    448  CA  GLY   448      38.001  72.422  77.505  1.00  0.00              
ATOM    449  CA  SER   449      38.347  68.887  76.168  1.00  0.00              
ATOM    450  CA  LYS   450      38.927  69.314  72.593  1.00  0.00              
ATOM    451  CA  MET   451      36.891  66.646  70.515  1.00  0.00              
ATOM    452  CA  GLY   452      36.688  66.006  67.142  1.00  0.00              
ATOM    453  CA  LEU   453      33.493  65.042  65.306  1.00  0.00              
ATOM    454  CA  ASP   454      33.614  62.992  62.803  1.00  0.00              
ATOM    455  CA  ALA   455      30.409  61.128  61.640  1.00  0.00              
ATOM    456  CA  THR   456      28.844  64.238  59.680  1.00  0.00              
ATOM    457  CA  ASN   457      31.046  67.099  60.492  1.00  0.00              
ATOM    458  CA  LYS   458      32.756  66.252  57.108  1.00  0.00              
ATOM    459  CA  TRP   459      30.048  65.929  54.504  1.00  0.00              
ATOM    460  CA  PRO   460      32.371  67.645  51.658  1.00  0.00              
ATOM    461  CA  GLY   461      30.889  70.502  50.683  1.00  0.00              
ATOM    462  CA  GLU   462      32.823  71.335  47.579  1.00  0.00              
ATOM    463  CA  THR   463      33.743  68.401  46.104  1.00  0.00              
ATOM    464  CA  GLN   464      37.145  69.297  44.632  1.00  0.00              
ATOM    465  CA  ARG   465      38.304  69.261  48.240  1.00  0.00              
ATOM    466  CA  GLU   466      39.461  66.140  49.875  1.00  0.00              
ATOM    467  CA  TRP   467      40.986  64.371  47.123  1.00  0.00              
TER                                                                             
END
