
#######################################################
#                                                     #
#                        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_3-D3
# Molecule2: number of CA atoms  120 (  972),  selected  120 , name T0356_D3.pdb
# PARAMETERS: T0356TS599_3-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      -       -           -
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      D     353          4.929
LGA    Y     363      F     354          2.601
LGA    R     364      Y     355          1.767
LGA    L     365      L     356          1.268
LGA    A     366      P     357          1.524
LGA    V     367      P     358          2.595
LGA    V     368      E     359          2.997
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      G     360           #
LGA    K     396      C     361          3.644
LGA    -       -      S     362           -
LGA    -       -      Y     363           -
LGA    F     397      R     364          2.681
LGA    V     398      L     365          0.813
LGA    I     399      A     366          0.583
LGA    V     400      V     367          0.973
LGA    C     401      V     368          0.620
LGA    D     402      T     369          1.055
LGA    D     403      I     370          3.793
LGA    D     404      -       -           -
LGA    V     405      K     371          0.449
LGA    N     406      K     372          0.803
LGA    A     407      Q     373          3.712
LGA    R     408      Y     374          1.460
LGA    D     409      A     375          0.966
LGA    W     410      G     376          1.514
LGA    N     411      -       -           -
LGA    D     412      H     377          2.790
LGA    V     413      A     378          2.249
LGA    I     414      K     379          0.842
LGA    W     415      R     380          2.194
LGA    A     416      V     381          1.819
LGA    I     417      M     382          1.710
LGA    T     418      M     383          1.499
LGA    T     419      G     384          1.061
LGA    R     420      V     385          3.060
LGA    M     421      W     386          3.306
LGA    D     422      S     387          3.402
LGA    -       -      F     388           -
LGA    -       -      L     389           -
LGA    -       -      R     390           -
LGA    -       -      Q     391           -
LGA    -       -      F     392           -
LGA    P     423      M     393          4.574
LGA    A     424      Y     394          2.872
LGA    R     425      T     395          1.199
LGA    D     426      K     396          3.079
LGA    -       -      F     397           -
LGA    T     427      V     398          2.543
LGA    V     428      I     399          2.125
LGA    L     429      V     400          1.376
LGA    V     430      C     401          1.509
LGA    E     431      D     402          3.041
LGA    N     432      D     403          3.579
LGA    T     433      D     404          3.532
LGA    P     434      V     405          0.901
LGA    I     435      N     406          1.808
LGA    -       -      A     407           -
LGA    D     436      R     408           #
LGA    Y     437      D     409          5.352
LGA    -       -      W     410           -
LGA    L     438      N     411          4.845
LGA    D     439      D     412           -
LGA    F     440      V     413           -
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      I     414           #
LGA    K     450      W     415           -
LGA    M     451      A     416           -
LGA    G     452      I     417           -
LGA    L     453      T     418           -
LGA    D     454      T     419           -
LGA    A     455      R     420           -
LGA    T     456      M     421           -
LGA    N     457      D     422           -
LGA    K     458      P     423           -
LGA    W     459      A     424           -
LGA    P     460      R     425           -
LGA    G     461      D     426           -
LGA    E     462      T     427           -
LGA    T     463      V     428           -
LGA    Q     464      L     429           -
LGA    R     465      V     430           -
LGA    E     466      E     431           -
LGA    W     467      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    -       -      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     47    2.60     4.26     25.942     1.740

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.491930 * X  +  -0.459278 * Y  +   0.739641 * Z  +  42.072880
  Y_new =  -0.481909 * X  +   0.563894 * Y  +   0.670662 * Z  +  52.291763
  Z_new =  -0.725099 * X  +  -0.686358 * Y  +   0.056066 * Z  +  84.438095 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.489291    1.652302  [ DEG:   -85.3301     94.6699 ]
  Theta =   0.811179    2.330414  [ DEG:    46.4771    133.5229 ]
  Phi   =  -0.775108    2.366484  [ DEG:   -44.4104    135.5896 ]
 
# 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_3-D3                               
REMARK     2: T0356_D3.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_3-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   47   2.60    4.26  25.942
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_3-D3
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    348  CA  PHE   348      50.369  73.972  92.203  1.00  0.00              
ATOM    349  CA  PRO   349      52.646  76.064  94.041  1.00  0.00              
ATOM    350  CA  GLU   350      56.015  74.552  92.775  1.00  0.00              
ATOM    351  CA  ILE   351      55.378  75.160  89.121  1.00  0.00              
ATOM    352  CA  VAL   352      58.491  76.530  87.874  1.00  0.00              
ATOM    353  CA  ASP   353      57.564  77.543  84.610  1.00  0.00              
ATOM    354  CA  PHE   354      55.308  76.615  81.398  1.00  0.00              
ATOM    355  CA  TYR   355      55.809  77.556  78.336  1.00  0.00              
ATOM    356  CA  LEU   356      53.128  77.127  75.489  1.00  0.00              
ATOM    357  CA  PRO   357      54.308  77.566  72.345  1.00  0.00              
ATOM    358  CA  PRO   358      51.905  78.365  69.615  1.00  0.00              
ATOM    359  CA  GLU   359      54.000  76.590  67.046  1.00  0.00              
ATOM    360  CA  GLY   360      55.350  73.458  68.602  1.00  0.00              
ATOM    361  CA  CYS   361      51.953  73.292  68.718  1.00  0.00              
ATOM    362  CA  SER   362      50.948  74.288  65.242  1.00  0.00              
ATOM    363  CA  TYR   363      51.554  71.041  63.258  1.00  0.00              
ATOM    364  CA  ARG   364      50.805  68.919  66.158  1.00  0.00              
ATOM    365  CA  LEU   365      53.084  66.914  68.337  1.00  0.00              
ATOM    366  CA  ALA   366      51.271  64.334  70.667  1.00  0.00              
ATOM    367  CA  VAL   367      53.251  62.500  73.305  1.00  0.00              
ATOM    368  CA  VAL   368      51.199  60.247  75.562  1.00  0.00              
ATOM    369  CA  THR   369      52.695  58.393  77.955  1.00  0.00              
ATOM    370  CA  ILE   370      50.449  56.900  80.349  1.00  0.00              
ATOM    371  CA  LYS   371      50.562  54.185  82.707  1.00  0.00              
ATOM    372  CA  LYS   372      48.956  55.811  85.664  1.00  0.00              
ATOM    373  CA  GLN   373      46.675  57.546  83.863  1.00  0.00              
ATOM    374  CA  TYR   374      45.502  54.354  82.117  1.00  0.00              
ATOM    375  CA  ALA   375      45.434  51.695  84.011  1.00  0.00              
ATOM    376  CA  GLY   376      44.677  48.404  82.090  1.00  0.00              
ATOM    377  CA  HIS   377      46.408  49.213  78.859  1.00  0.00              
ATOM    378  CA  ALA   378      49.271  50.829  80.665  1.00  0.00              
ATOM    379  CA  LYS   379      50.079  48.048  83.053  1.00  0.00              
ATOM    380  CA  ARG   380      50.073  45.692  79.895  1.00  0.00              
ATOM    381  CA  VAL   381      52.093  48.394  77.568  1.00  0.00              
ATOM    382  CA  MET   382      54.522  48.314  80.537  1.00  0.00              
ATOM    383  CA  MET   383      55.056  44.592  80.752  1.00  0.00              
ATOM    384  CA  GLY   384      55.278  43.291  77.509  1.00  0.00              
ATOM    385  CA  VAL   385      57.786  45.610  75.914  1.00  0.00              
ATOM    386  CA  TRP   386      60.134  45.468  78.742  1.00  0.00              
ATOM    387  CA  SER   387      60.238  41.670  79.135  1.00  0.00              
ATOM    388  CA  PHE   388      60.823  40.541  75.768  1.00  0.00              
ATOM    389  CA  LEU   389      64.127  42.776  75.685  1.00  0.00              
ATOM    390  CA  ARG   390      65.156  45.381  77.887  1.00  0.00              
ATOM    391  CA  GLN   391      64.147  48.104  76.050  1.00  0.00              
ATOM    392  CA  PHE   392      61.103  49.924  76.676  1.00  0.00              
ATOM    393  CA  MET   393      58.977  53.052  76.231  1.00  0.00              
ATOM    394  CA  TYR   394      56.137  54.592  77.060  1.00  0.00              
ATOM    395  CA  THR   395      55.992  56.970  74.244  1.00  0.00              
ATOM    396  CA  LYS   396      52.699  57.107  72.463  1.00  0.00              
ATOM    397  CA  PHE   397      52.714  60.120  70.156  1.00  0.00              
ATOM    398  CA  VAL   398      50.555  60.540  67.132  1.00  0.00              
ATOM    399  CA  ILE   399      52.142  63.222  64.521  1.00  0.00              
ATOM    400  CA  VAL   400      49.739  65.494  62.313  1.00  0.00              
ATOM    401  CA  CYS   401      50.680  66.967  59.988  1.00  0.00              
ATOM    402  CA  ASP   402      49.113  70.341  58.420  1.00  0.00              
ATOM    403  CA  ASP   403      50.991  73.082  56.774  1.00  0.00              
ATOM    404  CA  ASP   404      48.021  74.027  54.759  1.00  0.00              
ATOM    405  CA  VAL   405      47.806  72.510  51.848  1.00  0.00              
ATOM    406  CA  ASN   406      46.387  70.634  49.013  1.00  0.00              
ATOM    407  CA  ALA   407      47.286  67.533  47.792  1.00  0.00              
ATOM    408  CA  ARG   408      45.561  66.654  45.158  1.00  0.00              
ATOM    409  CA  ASP   409      45.227  63.412  44.611  1.00  0.00              
ATOM    410  CA  TRP   410      45.251  60.996  47.578  1.00  0.00              
ATOM    411  CA  ASN   411      47.981  59.179  46.317  1.00  0.00              
ATOM    412  CA  ASP   412      49.703  62.028  46.793  1.00  0.00              
ATOM    413  CA  VAL   413      48.899  63.160  49.779  1.00  0.00              
ATOM    414  CA  ILE   414      49.052  59.884  51.532  1.00  0.00              
ATOM    415  CA  TRP   415      52.943  59.434  50.337  1.00  0.00              
ATOM    416  CA  ALA   416      53.457  62.799  51.853  1.00  0.00              
ATOM    417  CA  ILE   417      52.775  62.044  55.226  1.00  0.00              
ATOM    418  CA  THR   418      54.833  59.244  54.945  1.00  0.00              
ATOM    419  CA  THR   419      57.814  61.134  53.605  1.00  0.00              
ATOM    420  CA  ARG   420      58.026  63.777  56.273  1.00  0.00              
ATOM    421  CA  MET   421      58.079  61.175  59.195  1.00  0.00              
ATOM    422  CA  ASP   422      59.422  57.863  59.546  1.00  0.00              
ATOM    423  CA  PRO   423      56.777  55.319  59.846  1.00  0.00              
ATOM    424  CA  ALA   424      56.724  54.542  63.308  1.00  0.00              
ATOM    425  CA  ARG   425      56.306  57.879  64.918  1.00  0.00              
ATOM    426  CA  ASP   426      52.740  57.563  63.305  1.00  0.00              
ATOM    427  CA  THR   427      52.091  60.289  60.622  1.00  0.00              
ATOM    428  CA  VAL   428      48.590  61.647  59.878  1.00  0.00              
ATOM    429  CA  LEU   429      48.176  64.130  57.229  1.00  0.00              
ATOM    430  CA  VAL   430      45.673  66.554  56.825  1.00  0.00              
ATOM    431  CA  GLU   431      44.360  68.198  53.803  1.00  0.00              
ATOM    432  CA  ASN   432      43.294  71.834  54.594  1.00  0.00              
ATOM    433  CA  THR   433      44.220  72.558  57.802  1.00  0.00              
ATOM    434  CA  PRO   434      41.425  73.155  60.517  1.00  0.00              
ATOM    435  CA  ILE   435      43.330  74.857  63.315  1.00  0.00              
ATOM    436  CA  ASP   436      41.209  75.033  66.603  1.00  0.00              
ATOM    437  CA  TYR   437      40.157  75.649  69.890  1.00  0.00              
ATOM    438  CA  LEU   438      39.517  72.722  72.006  1.00  0.00              
ATOM    439  CA  ASP   439      39.695  72.140  75.426  1.00  0.00              
ATOM    440  CA  PHE   440      41.745  70.369  77.888  1.00  0.00              
ATOM    441  CA  ALA   441      39.102  69.883  80.629  1.00  0.00              
ATOM    442  CA  SER   442      36.617  67.598  79.127  1.00  0.00              
ATOM    443  CA  PRO   443      38.374  64.643  77.769  1.00  0.00              
ATOM    444  CA  VAL   444      38.080  61.640  80.028  1.00  0.00              
ATOM    445  CA  SER   445      40.263  59.429  77.868  1.00  0.00              
ATOM    446  CA  GLY   446      38.655  56.587  77.055  1.00  0.00              
ATOM    447  CA  LEU   447      39.021  54.700  73.777  1.00  0.00              
ATOM    448  CA  GLY   448      42.117  54.730  72.514  1.00  0.00              
ATOM    449  CA  SER   449      43.142  57.761  70.808  1.00  0.00              
ATOM    450  CA  LYS   450      46.478  59.533  70.376  1.00  0.00              
ATOM    451  CA  MET   451      47.707  62.519  72.075  1.00  0.00              
ATOM    452  CA  GLY   452      50.358  64.753  70.893  1.00  0.00              
ATOM    453  CA  LEU   453      50.770  67.849  73.007  1.00  0.00              
ATOM    454  CA  ASP   454      53.750  69.904  71.856  1.00  0.00              
ATOM    455  CA  ALA   455      54.046  73.247  73.411  1.00  0.00              
ATOM    456  CA  THR   456      51.389  72.622  75.602  1.00  0.00              
ATOM    457  CA  ASN   457      53.020  70.486  78.515  1.00  0.00              
ATOM    458  CA  LYS   458      55.412  72.537  79.677  1.00  0.00              
ATOM    459  CA  TRP   459      55.778  72.489  83.584  1.00  0.00              
ATOM    460  CA  PRO   460      59.495  72.464  84.364  1.00  0.00              
ATOM    461  CA  GLY   461      60.478  70.920  87.534  1.00  0.00              
ATOM    462  CA  GLU   462      62.446  67.749  86.467  1.00  0.00              
ATOM    463  CA  THR   463      60.024  66.788  83.644  1.00  0.00              
ATOM    464  CA  GLN   464      62.609  66.078  80.672  1.00  0.00              
ATOM    465  CA  ARG   465      59.995  63.236  79.855  1.00  0.00              
ATOM    466  CA  GLU   466      62.334  60.341  79.373  1.00  0.00              
ATOM    467  CA  TRP   467      60.117  57.450  79.274  1.00  0.00              
TER                                                                             
END
