
#######################################################
#                                                     #
#                        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_3-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS599_3-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    -       -      P     135           -
LGA    -       -      F     136           -
LGA    -       -      R     137           -
LGA    -       -      S     138           -
LGA    -       -      L     139           -
LGA    -       -      A     140           -
LGA    -       -      G     141           -
LGA    -       -      A     142           -
LGA    -       -      L     143           -
LGA    -       -      R     144           -
LGA    -       -      M     145           -
LGA    -       -      A     146           -
LGA    -       -      G     147           -
LGA    -       -      G     148           -
LGA    -       -      Y     149           -
LGA    -       -      A     150           -
LGA    -       -      K     151           -
LGA    -       -      V     152           -
LGA    -       -      I     153           -
LGA    -       -      I     154           -
LGA    -       -      P     155           -
LGA    -       -      F     156           -
LGA    D     134      S     157          2.925
LGA    P     135      -       -           -
LGA    F     136      E     158          3.347
LGA    R     137      F     159          2.926
LGA    S     138      G     160          3.698
LGA    L     139      W     161          3.486
LGA    A     140      A     162          2.015
LGA    G     141      D     163          1.807
LGA    A     142      F     164          2.554
LGA    L     143      L     165          2.439
LGA    R     144      R     166          1.255
LGA    M     145      R     167          0.776
LGA    A     146      R     168          1.986
LGA    G     147      I     169          4.089
LGA    G     148      D     170          1.804
LGA    Y     149      R     171          1.030
LGA    A     150      -       -           -
LGA    K     151      -       -           -
LGA    V     152      -       -           -
LGA    I     153      -       -           -
LGA    I     154      -       -           -
LGA    P     155      -       -           -
LGA    F     156      -       -           -
LGA    S     157      -       -           -
LGA    E     158      -       -           -
LGA    F     159      -       -           -
LGA    G     160      -       -           -
LGA    W     161      -       -           -
LGA    A     162      -       -           -
LGA    D     163      -       -           -
LGA    F     164      -       -           -
LGA    L     165      -       -           -
LGA    R     166      -       -           -
LGA    R     167      -       -           -
LGA    R     168      -       -           -
LGA    I     169      D     172           #
LGA    D     170      L     173           -
LGA    R     171      L     174           -
LGA    D     172      -       -           -
LGA    L     173      S     175           #
LGA    L     174      D     176          2.224
LGA    S     175      -       -           -
LGA    D     176      S     177          1.611
LGA    S     177      -       -           -
LGA    F     178      F     178          2.685
LGA    D     179      D     179          2.186
LGA    D     180      D     180          1.339
LGA    A     181      A     181          1.622
LGA    L     182      L     182          2.072
LGA    A     183      A     183          2.167
LGA    E     184      E     184          1.467
LGA    A     185      A     185          1.299
LGA    M     186      M     186          2.622
LGA    K     187      K     187          2.971
LGA    L     188      L     188          1.845
LGA    A     189      A     189          1.848
LGA    K     190      K     190          3.378
LGA    S     191      S     191          3.508
LGA    R     192      R     192          1.719
LGA    -       -      E     193           -
LGA    -       -      A     194           -
LGA    E     193      R     195          3.070
LGA    -       -      H     196           -
LGA    -       -      L     197           -
LGA    -       -      P     198           -
LGA    -       -      G     199           -
LGA    -       -      W     200           -
LGA    -       -      C     201           -
LGA    A     194      G     202          3.385
LGA    R     195      V     203          2.180
LGA    H     196      E     204          2.694
LGA    L     197      -       -           -
LGA    P     198      -       -           -
LGA    G     199      -       -           -
LGA    W     200      -       -           -
LGA    C     201      -       -           -
LGA    G     202      -       -           -
LGA    V     203      -       -           -
LGA    E     204      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   71   71    5.0     36    2.47    50.00     36.990     1.400

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.027684 * X  +  -0.143490 * Y  +   0.989264 * Z  +   1.507070
  Y_new =   0.692961 * X  +   0.710501 * Y  +   0.122448 * Z  +  50.616352
  Z_new =  -0.720444 * X  +   0.688911 * Y  +   0.079764 * Z  +   7.962697 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.455527   -1.686066  [ DEG:    83.3956    -96.6044 ]
  Theta =   0.804442    2.337151  [ DEG:    46.0911    133.9089 ]
  Phi   =   1.610725   -1.530868  [ DEG:    92.2878    -87.7122 ]
 
# 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_3-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_3-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   36   2.47   50.00  36.990
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_3-D2
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM    134  CA  ASP   134      20.016  48.658   4.062  1.00  0.00              
ATOM    135  CA  PRO   135      20.800  51.853   2.381  1.00  0.00              
ATOM    136  CA  PHE   136      17.597  52.472   0.512  1.00  0.00              
ATOM    137  CA  ARG   137      15.155  51.848   3.341  1.00  0.00              
ATOM    138  CA  SER   138      16.979  54.084   5.699  1.00  0.00              
ATOM    139  CA  LEU   139      17.213  57.050   3.334  1.00  0.00              
ATOM    140  CA  ALA   140      13.463  56.837   2.654  1.00  0.00              
ATOM    141  CA  GLY   141      12.737  56.740   6.388  1.00  0.00              
ATOM    142  CA  ALA   142      14.919  59.744   7.157  1.00  0.00              
ATOM    143  CA  LEU   143      13.287  61.715   4.391  1.00  0.00              
ATOM    144  CA  ARG   144       9.853  60.867   5.469  1.00  0.00              
ATOM    145  CA  MET   145      10.470  61.788   9.119  1.00  0.00              
ATOM    146  CA  ALA   146      12.027  65.125   8.231  1.00  0.00              
ATOM    147  CA  GLY   147       9.301  66.262   5.880  1.00  0.00              
ATOM    148  CA  GLY   148      11.010  66.298   2.617  1.00  0.00              
ATOM    149  CA  TYR   149       8.037  65.569   0.380  1.00  0.00              
ATOM    150  CA  ALA   150       5.857  63.024   2.087  1.00  0.00              
ATOM    151  CA  LYS   151       2.489  64.650   1.606  1.00  0.00              
ATOM    152  CA  VAL   152       0.403  62.569   3.935  1.00  0.00              
ATOM    153  CA  ILE   153      -1.406  64.874   6.350  1.00  0.00              
ATOM    154  CA  ILE   154      -4.873  63.742   6.114  1.00  0.00              
ATOM    155  CA  PRO   155      -7.222  61.667   8.076  1.00  0.00              
ATOM    156  CA  PHE   156      -8.180  58.576   6.176  1.00  0.00              
ATOM    157  CA  SER   157     -11.734  59.410   5.467  1.00  0.00              
ATOM    158  CA  GLU   158     -10.898  62.666   3.909  1.00  0.00              
ATOM    159  CA  PHE   159      -7.909  61.799   1.932  1.00  0.00              
ATOM    160  CA  GLY   160      -5.667  59.739  -0.181  1.00  0.00              
ATOM    161  CA  TRP   161      -2.138  60.711   0.759  1.00  0.00              
ATOM    162  CA  ALA   162      -0.489  60.780  -2.641  1.00  0.00              
ATOM    163  CA  ASP   163      -3.321  62.540  -4.422  1.00  0.00              
ATOM    164  CA  PHE   164      -3.808  65.170  -1.799  1.00  0.00              
ATOM    165  CA  LEU   165      -0.171  66.177  -1.436  1.00  0.00              
ATOM    166  CA  ARG   166       0.434  66.349  -5.136  1.00  0.00              
ATOM    167  CA  ARG   167      -2.613  68.460  -5.720  1.00  0.00              
ATOM    168  CA  ARG   168      -1.689  70.977  -2.950  1.00  0.00              
ATOM    169  CA  ILE   169       1.861  71.312  -4.099  1.00  0.00              
ATOM    170  CA  ASP   170       1.947  71.932  -7.835  1.00  0.00              
ATOM    171  CA  ARG   171       3.628  69.097  -9.666  1.00  0.00              
ATOM    172  CA  ASP   172       6.753  71.057 -10.718  1.00  0.00              
ATOM    173  CA  LEU   173       7.345  71.963  -7.061  1.00  0.00              
ATOM    174  CA  LEU   174       6.931  68.351  -6.046  1.00  0.00              
ATOM    175  CA  SER   175       9.345  67.023  -8.606  1.00  0.00              
ATOM    176  CA  ASP   176      12.068  69.540  -7.632  1.00  0.00              
ATOM    177  CA  SER   177      11.681  68.764  -3.972  1.00  0.00              
ATOM    178  CA  PHE   178      11.985  65.065  -4.364  1.00  0.00              
ATOM    179  CA  ASP   179      15.320  65.090  -6.023  1.00  0.00              
ATOM    180  CA  ASP   180      16.794  67.308  -3.388  1.00  0.00              
ATOM    181  CA  ALA   181      15.439  65.148  -0.578  1.00  0.00              
ATOM    182  CA  LEU   182      16.893  61.979  -2.058  1.00  0.00              
ATOM    183  CA  ALA   183      20.291  63.553  -2.457  1.00  0.00              
ATOM    184  CA  GLU   184      20.168  64.708   1.152  1.00  0.00              
ATOM    185  CA  ALA   185      19.165  61.325   2.272  1.00  0.00              
ATOM    186  CA  MET   186      21.982  59.652   0.413  1.00  0.00              
ATOM    187  CA  LYS   187      24.449  61.919   2.016  1.00  0.00              
ATOM    188  CA  LEU   188      23.069  61.167   5.406  1.00  0.00              
ATOM    189  CA  ALA   189      23.115  57.472   4.833  1.00  0.00              
ATOM    190  CA  LYS   190      26.738  57.415   3.917  1.00  0.00              
ATOM    191  CA  SER   191      27.903  59.699   6.673  1.00  0.00              
ATOM    192  CA  ARG   192      27.393  59.822  10.375  1.00  0.00              
ATOM    193  CA  GLU   193      28.250  56.326  11.572  1.00  0.00              
ATOM    194  CA  ALA   194      31.302  56.125   9.344  1.00  0.00              
ATOM    195  CA  ARG   195      32.823  59.351  10.656  1.00  0.00              
ATOM    196  CA  HIS   196      32.594  58.438  14.319  1.00  0.00              
ATOM    197  CA  LEU   197      34.205  55.030  13.989  1.00  0.00              
ATOM    198  CA  PRO   198      37.688  54.798  15.384  1.00  0.00              
ATOM    199  CA  GLY   199      40.260  54.590  12.644  1.00  0.00              
ATOM    200  CA  TRP   200      37.916  55.603   9.815  1.00  0.00              
ATOM    201  CA  CYS   201      39.176  59.125   9.485  1.00  0.00              
ATOM    202  CA  GLY   202      42.914  58.236   9.594  1.00  0.00              
ATOM    203  CA  VAL   203      43.260  55.550   7.251  1.00  0.00              
ATOM    204  CA  GLU   204      45.649  54.156  10.418  1.00  0.00              
TER                                                                             
END
