
#######################################################
#                                                     #
#                        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_5-D2
# Molecule2: number of CA atoms   71 (  561),  selected   71 , name T0347_D2.pdb
# PARAMETERS: T0347TS599_5-D2.T0347_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    D     134      D     134          3.208
LGA    P     135      P     135          0.542
LGA    F     136      F     136          1.841
LGA    R     137      R     137          2.337
LGA    S     138      S     138          1.507
LGA    L     139      L     139          0.391
LGA    A     140      A     140          1.084
LGA    G     141      G     141          2.069
LGA    A     142      A     142          2.066
LGA    L     143      L     143          1.072
LGA    R     144      R     144          1.290
LGA    M     145      M     145          2.031
LGA    A     146      A     146          1.873
LGA    G     147      G     147          1.665
LGA    G     148      G     148          2.207
LGA    Y     149      Y     149          3.000
LGA    A     150      -       -           -
LGA    K     151      A     150          3.353
LGA    V     152      K     151          3.542
LGA    I     153      V     152          0.275
LGA    I     154      I     153          2.165
LGA    P     155      I     154           #
LGA    F     156      P     155          3.351
LGA    S     157      -       -           -
LGA    E     158      -       -           -
LGA    F     159      -       -           -
LGA    G     160      F     156          3.957
LGA    W     161      S     157          4.741
LGA    A     162      E     158          5.406
LGA    D     163      F     159          5.010
LGA    F     164      G     160          4.193
LGA    L     165      -       -           -
LGA    R     166      W     161          2.586
LGA    R     167      A     162           -
LGA    R     168      D     163           -
LGA    I     169      -       -           -
LGA    D     170      -       -           -
LGA    R     171      F     164          2.333
LGA    D     172      -       -           -
LGA    L     173      L     165          4.344
LGA    L     174      R     166          4.735
LGA    S     175      R     167          3.515
LGA    D     176      R     168          3.620
LGA    S     177      I     169          4.178
LGA    F     178      D     170          5.703
LGA    D     179      R     171          2.391
LGA    -       -      D     172           -
LGA    D     180      L     173          1.943
LGA    A     181      L     174          1.114
LGA    L     182      S     175          2.663
LGA    A     183      D     176          3.193
LGA    E     184      S     177          3.278
LGA    A     185      F     178           #
LGA    M     186      D     179           -
LGA    K     187      D     180           -
LGA    L     188      A     181           -
LGA    A     189      L     182           -
LGA    K     190      A     183           -
LGA    S     191      E     184           -
LGA    R     192      A     185           -
LGA    E     193      M     186           -
LGA    A     194      K     187           -
LGA    R     195      L     188           -
LGA    H     196      A     189           -
LGA    L     197      K     190           -
LGA    P     198      S     191           -
LGA    G     199      R     192           -
LGA    W     200      E     193           -
LGA    C     201      A     194           -
LGA    G     202      R     195           -
LGA    V     203      H     196           -
LGA    E     204      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     40    3.07    45.00     36.492     1.263

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.905753 * X  +  -0.381742 * Y  +  -0.184079 * Z  +  -8.806118
  Y_new =  -0.396616 * X  +  -0.916582 * Y  +  -0.050725 * Z  +  71.351509
  Z_new =  -0.149360 * X  +   0.118953 * Y  +  -0.981602 * Z  +  -9.607473 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.020998   -0.120594  [ DEG:   173.0905     -6.9095 ]
  Theta =   0.149921    2.991672  [ DEG:     8.5898    171.4102 ]
  Phi   =  -0.412734    2.728859  [ DEG:   -23.6479    156.3521 ]
 
# 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_5-D2                               
REMARK     2: T0347_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_5-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   40   3.07   45.00  36.492
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_5-D2
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM    134  CA  ASP   134       5.728  55.497  -4.254  1.00  0.00              
ATOM    135  CA  PRO   135       7.603  58.266  -2.440  1.00  0.00              
ATOM    136  CA  PHE   136       9.651  55.896  -0.312  1.00  0.00              
ATOM    137  CA  ARG   137      10.843  53.662  -3.160  1.00  0.00              
ATOM    138  CA  SER   138      11.926  56.553  -5.239  1.00  0.00              
ATOM    139  CA  LEU   139      13.967  58.259  -2.573  1.00  0.00              
ATOM    140  CA  ALA   140      15.903  55.214  -1.606  1.00  0.00              
ATOM    141  CA  GLY   141      16.820  54.559  -5.219  1.00  0.00              
ATOM    142  CA  ALA   142      18.048  58.090  -5.897  1.00  0.00              
ATOM    143  CA  LEU   143      20.205  57.949  -2.782  1.00  0.00              
ATOM    144  CA  ARG   144      21.654  54.547  -3.531  1.00  0.00              
ATOM    145  CA  MET   145      22.677  55.379  -7.114  1.00  0.00              
ATOM    146  CA  ALA   146      24.382  58.583  -5.996  1.00  0.00              
ATOM    147  CA  GLY   147      26.266  56.960  -3.142  1.00  0.00              
ATOM    148  CA  GLY   148      24.595  58.690  -0.241  1.00  0.00              
ATOM    149  CA  TYR   149      24.581  55.915   2.281  1.00  0.00              
ATOM    150  CA  ALA   150      24.637  52.484   0.706  1.00  0.00              
ATOM    151  CA  LYS   151      24.406  50.243   3.642  1.00  0.00              
ATOM    152  CA  VAL   152      21.779  47.863   2.608  1.00  0.00              
ATOM    153  CA  ILE   153      23.342  44.385   2.863  1.00  0.00              
ATOM    154  CA  ILE   154      20.389  42.380   4.025  1.00  0.00              
ATOM    155  CA  PRO   155      18.509  40.520   1.353  1.00  0.00              
ATOM    156  CA  PHE   156      14.852  41.498   1.661  1.00  0.00              
ATOM    157  CA  SER   157      13.737  38.230   3.152  1.00  0.00              
ATOM    158  CA  GLU   158      16.437  37.879   5.763  1.00  0.00              
ATOM    159  CA  PHE   159      16.011  41.346   7.109  1.00  0.00              
ATOM    160  CA  GLY   160      12.595  42.921   6.526  1.00  0.00              
ATOM    161  CA  TRP   161      13.112  45.358   3.752  1.00  0.00              
ATOM    162  CA  ALA   162      11.711  48.536   5.121  1.00  0.00              
ATOM    163  CA  ASP   163      13.468  48.235   8.405  1.00  0.00              
ATOM    164  CA  PHE   164      16.836  47.466   6.924  1.00  0.00              
ATOM    165  CA  LEU   165      16.817  50.326   4.469  1.00  0.00              
ATOM    166  CA  ARG   166      15.938  52.763   7.104  1.00  0.00              
ATOM    167  CA  ARG   167      18.716  51.654   9.450  1.00  0.00              
ATOM    168  CA  ARG   168      21.289  51.885   6.902  1.00  0.00              
ATOM    169  CA  ILE   169      20.219  55.367   5.872  1.00  0.00              
ATOM    170  CA  ASP   170      19.820  57.483   9.028  1.00  0.00              
ATOM    171  CA  ARG   171      16.319  58.391   9.900  1.00  0.00              
ATOM    172  CA  ASP   172      16.772  62.126   9.589  1.00  0.00              
ATOM    173  CA  LEU   173      18.341  61.761   6.133  1.00  0.00              
ATOM    174  CA  LEU   174      15.429  59.653   4.921  1.00  0.00              
ATOM    175  CA  SER   175      12.864  62.085   6.168  1.00  0.00              
ATOM    176  CA  ASP   176      14.545  65.031   4.527  1.00  0.00              
ATOM    177  CA  SER   177      14.813  63.248   1.231  1.00  0.00              
ATOM    178  CA  PHE   178      11.171  62.263   1.169  1.00  0.00              
ATOM    179  CA  ASP   179       9.741  65.725   1.730  1.00  0.00              
ATOM    180  CA  ASP   180      11.913  67.156  -0.940  1.00  0.00              
ATOM    181  CA  ALA   181      10.945  64.490  -3.470  1.00  0.00              
ATOM    182  CA  LEU   182       7.187  64.871  -2.851  1.00  0.00              
ATOM    183  CA  ALA   183       7.535  68.648  -3.240  1.00  0.00              
ATOM    184  CA  GLU   184       9.151  68.098  -6.513  1.00  0.00              
ATOM    185  CA  ALA   185       6.636  65.752  -7.645  1.00  0.00              
ATOM    186  CA  MET   186       3.878  68.198  -6.900  1.00  0.00              
ATOM    187  CA  LYS   187       5.680  70.890  -8.777  1.00  0.00              
ATOM    188  CA  LEU   188       6.054  68.716 -11.839  1.00  0.00              
ATOM    189  CA  ALA   189       2.464  67.594 -11.657  1.00  0.00              
ATOM    190  CA  LYS   190       1.209  71.163 -11.522  1.00  0.00              
ATOM    191  CA  SER   191       3.334  72.286 -14.427  1.00  0.00              
ATOM    192  CA  ARG   192       3.914  71.030 -17.903  1.00  0.00              
ATOM    193  CA  GLU   193       0.518  70.576 -19.478  1.00  0.00              
ATOM    194  CA  ALA   194      -0.764  73.838 -17.986  1.00  0.00              
ATOM    195  CA  ARG   195       2.031  75.939 -19.483  1.00  0.00              
ATOM    196  CA  HIS   196       1.627  74.701 -23.033  1.00  0.00              
ATOM    197  CA  LEU   197      -2.105  75.233 -23.276  1.00  0.00              
ATOM    198  CA  PRO   198      -3.148  78.129 -25.416  1.00  0.00              
ATOM    199  CA  GLY   199      -4.384  81.036 -23.311  1.00  0.00              
ATOM    200  CA  TRP   200      -3.047  79.731 -19.972  1.00  0.00              
ATOM    201  CA  CYS   201      -0.105  82.080 -19.769  1.00  0.00              
ATOM    202  CA  GLY   202      -2.106  85.192 -20.446  1.00  0.00              
ATOM    203  CA  VAL   203      -4.689  84.952 -17.606  1.00  0.00              
ATOM    204  CA  GLU   204      -2.344  87.828 -15.922  1.00  0.00              
TER                                                                             
END
