
#######################################################
#                                                     #
#                        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   71 (   71),  selected   71 , name T0347TS599_4-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS599_4-D2.T0347_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D     134           -
LGA    D     134      P     135          2.395
LGA    P     135      F     136          2.430
LGA    F     136      R     137          2.828
LGA    R     137      S     138          2.498
LGA    S     138      L     139          2.271
LGA    L     139      A     140          2.191
LGA    A     140      G     141          1.264
LGA    G     141      A     142          2.360
LGA    A     142      L     143          3.118
LGA    L     143      R     144          2.458
LGA    R     144      M     145          1.684
LGA    M     145      A     146          3.689
LGA    -       -      G     147           -
LGA    -       -      G     148           -
LGA    A     146      Y     149          1.808
LGA    G     147      A     150          3.720
LGA    G     148      K     151          2.766
LGA    Y     149      V     152           -
LGA    A     150      I     153           -
LGA    K     151      I     154           -
LGA    V     152      P     155           -
LGA    I     153      F     156           -
LGA    I     154      S     157           -
LGA    P     155      E     158           -
LGA    F     156      F     159           -
LGA    S     157      G     160           -
LGA    E     158      W     161           -
LGA    F     159      A     162           -
LGA    G     160      D     163           -
LGA    W     161      F     164           -
LGA    A     162      L     165           -
LGA    D     163      R     166           -
LGA    F     164      R     167           -
LGA    L     165      R     168           -
LGA    R     166      I     169           -
LGA    R     167      D     170           -
LGA    R     168      R     171           -
LGA    I     169      D     172           -
LGA    D     170      L     173           -
LGA    R     171      L     174           -
LGA    D     172      -       -           -
LGA    L     173      -       -           -
LGA    L     174      -       -           -
LGA    S     175      -       -           -
LGA    D     176      -       -           -
LGA    S     177      S     175          4.419
LGA    F     178      -       -           -
LGA    D     179      D     176          5.707
LGA    D     180      S     177          1.686
LGA    A     181      F     178          1.634
LGA    L     182      D     179          1.183
LGA    A     183      D     180          1.000
LGA    E     184      A     181          1.298
LGA    A     185      L     182          1.568
LGA    M     186      A     183          1.151
LGA    K     187      E     184          1.284
LGA    L     188      A     185          1.984
LGA    A     189      M     186          1.745
LGA    K     190      K     187          1.427
LGA    S     191      L     188          2.618
LGA    -       -      A     189           -
LGA    -       -      K     190           -
LGA    R     192      S     191          2.196
LGA    E     193      R     192          5.205
LGA    A     194      E     193          5.753
LGA    R     195      A     194          4.405
LGA    H     196      R     195          1.694
LGA    -       -      H     196           -
LGA    L     197      L     197          2.718
LGA    P     198      P     198          2.766
LGA    G     199      G     199          1.210
LGA    W     200      W     200          2.452
LGA    C     201      C     201          2.562
LGA    G     202      G     202           -
LGA    V     203      V     203           -
LGA    E     204      E     204           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   71   71    5.0     39    2.77    20.51     36.556     1.359

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.776893 * X  +   0.583008 * Y  +   0.237781 * Z  +  21.409061
  Y_new =  -0.502482 * X  +   0.801657 * Y  +  -0.323817 * Z  +  57.038437
  Z_new =  -0.379407 * X  +   0.132090 * Y  +   0.915753 * Z  + -17.506899 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.143254   -2.998338  [ DEG:     8.2079   -171.7921 ]
  Theta =   0.389155    2.752438  [ DEG:    22.2969    157.7031 ]
  Phi   =  -0.574111    2.567481  [ DEG:   -32.8942    147.1058 ]
 
# 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: T0347TS599_4-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_4-D2.T0347_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   71   71   5.0   39   2.77   20.51  36.556
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_4-D2
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM    134  CA  ASP   134       7.578  59.187  -0.512  1.00  0.00              
ATOM    135  CA  PRO   135       8.670  55.800   0.203  1.00  0.00              
ATOM    136  CA  PHE   136       9.698  54.876  -3.191  1.00  0.00              
ATOM    137  CA  ARG   137      11.977  57.871  -3.807  1.00  0.00              
ATOM    138  CA  SER   138      13.688  57.420  -0.502  1.00  0.00              
ATOM    139  CA  LEU   139      14.345  53.806  -0.968  1.00  0.00              
ATOM    140  CA  ALA   140      15.833  54.019  -4.463  1.00  0.00              
ATOM    141  CA  GLY   141      18.235  56.771  -3.418  1.00  0.00              
ATOM    142  CA  ALA   142      19.388  55.071  -0.247  1.00  0.00              
ATOM    143  CA  LEU   143      20.105  51.802  -1.929  1.00  0.00              
ATOM    144  CA  ARG   144      22.117  53.343  -4.790  1.00  0.00              
ATOM    145  CA  MET   145      24.336  55.466  -2.504  1.00  0.00              
ATOM    146  CA  ALA   146      25.127  52.535  -0.265  1.00  0.00              
ATOM    147  CA  GLY   147      25.956  50.039  -2.991  1.00  0.00              
ATOM    148  CA  GLY   148      23.058  47.626  -2.568  1.00  0.00              
ATOM    149  CA  TYR   149      22.311  46.850  -6.197  1.00  0.00              
ATOM    150  CA  ALA   150      23.047  49.871  -8.361  1.00  0.00              
ATOM    151  CA  LYS   151      22.475  48.356 -11.731  1.00  0.00              
ATOM    152  CA  VAL   152      24.196  50.752 -14.035  1.00  0.00              
ATOM    153  CA  ILE   153      21.797  52.020 -16.698  1.00  0.00              
ATOM    154  CA  ILE   154      20.145  49.419 -18.906  1.00  0.00              
ATOM    155  CA  PRO   155      21.775  47.900 -21.924  1.00  0.00              
ATOM    156  CA  PHE   156      20.448  49.386 -25.144  1.00  0.00              
ATOM    157  CA  SER   157      18.628  46.280 -26.442  1.00  0.00              
ATOM    158  CA  GLU   158      16.398  45.929 -23.382  1.00  0.00              
ATOM    159  CA  PHE   159      15.340  49.491 -22.785  1.00  0.00              
ATOM    160  CA  GLY   160      12.049  51.068 -22.040  1.00  0.00              
ATOM    161  CA  TRP   161      11.682  53.106 -18.956  1.00  0.00              
ATOM    162  CA  ALA   162      11.977  56.774 -19.817  1.00  0.00              
ATOM    163  CA  ASP   163       9.390  56.769 -22.607  1.00  0.00              
ATOM    164  CA  PHE   164       6.862  54.779 -20.655  1.00  0.00              
ATOM    165  CA  LEU   165       7.006  56.859 -17.538  1.00  0.00              
ATOM    166  CA  ARG   166       7.052  60.169 -19.354  1.00  0.00              
ATOM    167  CA  ARG   167       4.163  59.305 -21.592  1.00  0.00              
ATOM    168  CA  ARG   168       1.894  58.148 -18.803  1.00  0.00              
ATOM    169  CA  ILE   169       2.805  60.909 -16.406  1.00  0.00              
ATOM    170  CA  ASP   170       2.439  64.219 -18.137  1.00  0.00              
ATOM    171  CA  ARG   171       5.640  66.148 -18.628  1.00  0.00              
ATOM    172  CA  ASP   172       5.046  68.932 -16.101  1.00  0.00              
ATOM    173  CA  LEU   173       4.315  66.301 -13.441  1.00  0.00              
ATOM    174  CA  LEU   174       7.475  64.311 -14.279  1.00  0.00              
ATOM    175  CA  SER   175       9.709  67.383 -14.106  1.00  0.00              
ATOM    176  CA  ASP   176       8.193  68.203 -10.717  1.00  0.00              
ATOM    177  CA  SER   177       8.701  64.683  -9.376  1.00  0.00              
ATOM    178  CA  PHE   178      12.354  64.416 -10.430  1.00  0.00              
ATOM    179  CA  ASP   179      13.470  67.710  -8.996  1.00  0.00              
ATOM    180  CA  ASP   180      11.880  67.069  -5.672  1.00  0.00              
ATOM    181  CA  ALA   181      13.472  63.593  -5.304  1.00  0.00              
ATOM    182  CA  LEU   182      16.870  64.911  -6.143  1.00  0.00              
ATOM    183  CA  ALA   183      16.684  67.773  -3.627  1.00  0.00              
ATOM    184  CA  GLU   184      15.569  65.493  -0.861  1.00  0.00              
ATOM    185  CA  ALA   185      18.332  62.961  -1.668  1.00  0.00              
ATOM    186  CA  MET   186      20.948  65.658  -1.444  1.00  0.00              
ATOM    187  CA  LYS   187      19.668  66.899   1.884  1.00  0.00              
ATOM    188  CA  LEU   188      19.662  63.325   3.217  1.00  0.00              
ATOM    189  CA  ALA   189      23.178  62.691   1.945  1.00  0.00              
ATOM    190  CA  LYS   190      24.665  65.829   3.588  1.00  0.00              
ATOM    191  CA  SER   191      22.971  64.947   6.832  1.00  0.00              
ATOM    192  CA  ARG   192      24.576  63.167   9.606  1.00  0.00              
ATOM    193  CA  GLU   193      21.894  60.598  10.291  1.00  0.00              
ATOM    194  CA  ALA   194      22.106  58.961   6.892  1.00  0.00              
ATOM    195  CA  ARG   195      25.822  58.498   7.102  1.00  0.00              
ATOM    196  CA  HIS   196      25.709  56.594  10.336  1.00  0.00              
ATOM    197  CA  LEU   197      23.196  54.069   9.011  1.00  0.00              
ATOM    198  CA  PRO   198      24.290  50.499   9.229  1.00  0.00              
ATOM    199  CA  GLY   199      25.427  49.064   5.929  1.00  0.00              
ATOM    200  CA  TRP   200      26.272  52.317   4.254  1.00  0.00              
ATOM    201  CA  CYS   201      30.061  52.026   4.599  1.00  0.00              
ATOM    202  CA  GLY   202      30.537  48.318   4.027  1.00  0.00              
ATOM    203  CA  VAL   203      31.490  47.667   8.068  1.00  0.00              
ATOM    204  CA  GLU   204      31.819  49.688  11.095  1.00  0.00              
TER                                                                             
END
