
#######################################################
#                                                     #
#                        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_1-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS599_1-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    D     134      F     156          2.388
LGA    P     135      S     157          3.165
LGA    F     136      E     158          3.584
LGA    R     137      F     159          2.589
LGA    S     138      G     160          1.978
LGA    L     139      W     161          2.250
LGA    A     140      A     162          1.766
LGA    G     141      D     163          1.587
LGA    A     142      F     164          2.020
LGA    L     143      L     165          1.858
LGA    R     144      R     166          2.197
LGA    M     145      R     167          3.287
LGA    A     146      -       -           -
LGA    G     147      R     168          1.028
LGA    G     148      I     169          3.420
LGA    Y     149      D     170          4.892
LGA    A     150      R     171           #
LGA    K     151      D     172          3.633
LGA    -       -      L     173           -
LGA    -       -      L     174           -
LGA    V     152      S     175          0.895
LGA    I     153      D     176          1.866
LGA    I     154      S     177          3.527
LGA    P     155      F     178           -
LGA    F     156      -       -           -
LGA    S     157      -       -           -
LGA    E     158      -       -           -
LGA    F     159      -       -           -
LGA    G     160      D     179          2.872
LGA    W     161      D     180          1.990
LGA    A     162      A     181          4.322
LGA    D     163      -       -           -
LGA    F     164      -       -           -
LGA    L     165      L     182           #
LGA    -       -      A     183           -
LGA    R     166      E     184          2.935
LGA    R     167      A     185           -
LGA    R     168      M     186           -
LGA    I     169      -       -           -
LGA    D     170      -       -           -
LGA    R     171      K     187          5.183
LGA    D     172      -       -           -
LGA    L     173      L     188          6.254
LGA    L     174      A     189          5.883
LGA    -       -      K     190           -
LGA    S     175      S     191          1.426
LGA    D     176      R     192          1.785
LGA    S     177      E     193          2.341
LGA    F     178      A     194          2.935
LGA    D     179      R     195          3.266
LGA    D     180      H     196          2.774
LGA    A     181      L     197          2.118
LGA    L     182      P     198          3.021
LGA    -       -      G     199           -
LGA    A     183      W     200          4.730
LGA    E     184      C     201           -
LGA    A     185      G     202           -
LGA    M     186      V     203           -
LGA    K     187      E     204           -
LGA    L     188      -       -           -
LGA    A     189      -       -           -
LGA    K     190      -       -           -
LGA    S     191      -       -           -
LGA    R     192      -       -           -
LGA    E     193      -       -           -
LGA    A     194      -       -           -
LGA    R     195      -       -           -
LGA    H     196      -       -           -
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     35    3.18    17.14     32.049     1.068

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.666710 * X  +  -0.742933 * Y  +  -0.059567 * Z  +  19.740129
  Y_new =   0.064975 * X  +  -0.021681 * Y  +   0.997651 * Z  +  50.111202
  Z_new =  -0.742480 * X  +  -0.669014 * Y  +   0.033817 * Z  +  -6.283666 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.520292    1.621301  [ DEG:   -87.1063     92.8937 ]
  Theta =   0.836765    2.304828  [ DEG:    47.9431    132.0569 ]
  Phi   =   0.097149   -3.044444  [ DEG:     5.5662   -174.4338 ]
 
# 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_1-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_1-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   35   3.18   17.14  32.049
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_1-D2
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM    134  CA  ASP   134      12.104  44.087   3.810  1.00  0.00              
ATOM    135  CA  PRO   135      14.780  46.431   2.578  1.00  0.00              
ATOM    136  CA  PHE   136      12.340  49.144   1.639  1.00  0.00              
ATOM    137  CA  ARG   137      10.564  49.332   4.948  1.00  0.00              
ATOM    138  CA  SER   138      13.771  49.651   6.909  1.00  0.00              
ATOM    139  CA  LEU   139      15.106  52.320   4.608  1.00  0.00              
ATOM    140  CA  ALA   140      11.920  54.362   4.701  1.00  0.00              
ATOM    141  CA  GLY   141      11.953  54.437   8.488  1.00  0.00              
ATOM    142  CA  ALA   142      15.502  55.541   8.713  1.00  0.00              
ATOM    143  CA  LEU   143      15.156  58.288   6.149  1.00  0.00              
ATOM    144  CA  ARG   144      12.076  59.731   7.587  1.00  0.00              
ATOM    145  CA  MET   145      13.514  60.114  11.052  1.00  0.00              
ATOM    146  CA  ALA   146      16.547  61.874   9.625  1.00  0.00              
ATOM    147  CA  GLY   147      14.612  64.234   7.420  1.00  0.00              
ATOM    148  CA  GLY   148      15.497  62.939   4.005  1.00  0.00              
ATOM    149  CA  TYR   149      12.144  63.126   2.286  1.00  0.00              
ATOM    150  CA  ALA   150      12.603  64.611  -1.176  1.00  0.00              
ATOM    151  CA  LYS   151       9.109  65.855  -1.795  1.00  0.00              
ATOM    152  CA  VAL   152       8.459  65.572  -5.491  1.00  0.00              
ATOM    153  CA  ILE   153       7.186  68.958  -6.642  1.00  0.00              
ATOM    154  CA  ILE   154      10.215  70.626  -8.119  1.00  0.00              
ATOM    155  CA  PRO   155      10.739  71.146 -11.839  1.00  0.00              
ATOM    156  CA  PHE   156      13.838  69.159 -12.669  1.00  0.00              
ATOM    157  CA  SER   157      16.155  71.994 -13.524  1.00  0.00              
ATOM    158  CA  GLU   158      15.425  74.010 -10.423  1.00  0.00              
ATOM    159  CA  PHE   159      15.376  71.345  -7.814  1.00  0.00              
ATOM    160  CA  GLY   160      17.471  68.242  -7.611  1.00  0.00              
ATOM    161  CA  TRP   161      16.349  66.241  -4.642  1.00  0.00              
ATOM    162  CA  ALA   162      19.711  65.247  -3.302  1.00  0.00              
ATOM    163  CA  ASP   163      21.035  68.710  -3.446  1.00  0.00              
ATOM    164  CA  PHE   164      17.929  70.338  -2.042  1.00  0.00              
ATOM    165  CA  LEU   165      17.684  67.932   0.855  1.00  0.00              
ATOM    166  CA  ARG   166      21.354  68.293   1.687  1.00  0.00              
ATOM    167  CA  ARG   167      21.091  72.081   1.668  1.00  0.00              
ATOM    168  CA  ARG   168      18.096  72.150   3.955  1.00  0.00              
ATOM    169  CA  ILE   169      19.625  69.671   6.377  1.00  0.00              
ATOM    170  CA  ASP   170      23.122  70.860   7.186  1.00  0.00              
ATOM    171  CA  ARG   171      25.781  68.513   5.990  1.00  0.00              
ATOM    172  CA  ASP   172      27.212  67.257   9.222  1.00  0.00              
ATOM    173  CA  LEU   173      23.707  66.303  10.492  1.00  0.00              
ATOM    174  CA  LEU   174      22.943  64.518   7.258  1.00  0.00              
ATOM    175  CA  SER   175      26.075  62.473   7.191  1.00  0.00              
ATOM    176  CA  ASP   176      25.681  61.295  10.777  1.00  0.00              
ATOM    177  CA  SER   177      22.101  60.284  10.214  1.00  0.00              
ATOM    178  CA  PHE   178      22.695  58.291   7.052  1.00  0.00              
ATOM    179  CA  ASP   179      25.502  56.196   8.441  1.00  0.00              
ATOM    180  CA  ASP   180      23.420  55.168  11.379  1.00  0.00              
ATOM    181  CA  ALA   181      20.720  54.021   9.151  1.00  0.00              
ATOM    182  CA  LEU   182      22.809  51.916   7.082  1.00  0.00              
ATOM    183  CA  ALA   183      24.273  50.205  10.035  1.00  0.00              
ATOM    184  CA  GLU   184      20.781  49.509  11.296  1.00  0.00              
ATOM    185  CA  ALA   185      19.796  48.024   7.987  1.00  0.00              
ATOM    186  CA  MET   186      22.795  45.724   7.874  1.00  0.00              
ATOM    187  CA  LYS   187      22.101  44.564  11.434  1.00  0.00              
ATOM    188  CA  LEU   188      18.563  43.819  10.606  1.00  0.00              
ATOM    189  CA  ALA   189      19.313  42.047   7.333  1.00  0.00              
ATOM    190  CA  LYS   190      21.946  39.770   8.868  1.00  0.00              
ATOM    191  CA  SER   191      19.869  38.666  11.778  1.00  0.00              
ATOM    192  CA  ARG   192      17.171  36.606  12.944  1.00  0.00              
ATOM    193  CA  GLU   193      14.165  37.040  10.748  1.00  0.00              
ATOM    194  CA  ALA   194      16.211  36.464   7.617  1.00  0.00              
ATOM    195  CA  ARG   195      17.355  33.019   8.719  1.00  0.00              
ATOM    196  CA  HIS   196      13.873  31.640   9.185  1.00  0.00              
ATOM    197  CA  LEU   197      12.587  32.700   5.714  1.00  0.00              
ATOM    198  CA  PRO   198      11.843  29.790   3.470  1.00  0.00              
ATOM    199  CA  GLY   199      14.355  29.205   0.712  1.00  0.00              
ATOM    200  CA  TRP   200      16.858  31.842   1.823  1.00  0.00              
ATOM    201  CA  CYS   201      19.355  29.557   3.450  1.00  0.00              
ATOM    202  CA  GLY   202      19.565  27.000   0.683  1.00  0.00              
ATOM    203  CA  VAL   203      20.051  29.023  -2.293  1.00  0.00              
ATOM    204  CA  GLU   204      20.249  25.159  -3.434  1.00  0.00              
TER                                                                             
END
