
#######################################################
#                                                     #
#                        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   77 (   77),  selected   77 , name T0320TS393_3-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS393_3-D2.T0320_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     228      N     228           -
LGA    N     229      N     229           -
LGA    S     230      S     230           -
LGA    L     231      L     231           -
LGA    P     232      P     232           -
LGA    N     233      N     233           -
LGA    P     234      P     234           -
LGA    H     235      H     235           -
LGA    L     236      L     236           -
LGA    R     237      R     237           -
LGA    K     238      K     238           -
LGA    D     239      D     239           -
LGA    S     240      S     240           -
LGA    N     241      N     241           -
LGA    N     242      N     242           -
LGA    P     243      P     243           -
LGA    A     244      A     244           -
LGA    L     245      -       -           -
LGA    H     246      -       -           -
LGA    F     247      -       -           -
LGA    E     248      -       -           -
LGA    W     249      -       -           -
LGA    E     250      -       -           -
LGA    I     251      -       -           -
LGA    I     252      -       -           -
LGA    H     253      -       -           -
LGA    A     254      -       -           -
LGA    F     255      -       -           -
LGA    G     256      -       -           -
LGA    K     257      -       -           -
LGA    D     258      -       -           -
LGA    A     259      -       -           -
LGA    E     260      L     245           #
LGA    G     261      H     246          4.391
LGA    E     262      F     247          2.883
LGA    R     263      E     248          1.726
LGA    S     264      W     249          2.582
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    S     265      I     252          2.966
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    A     266      S     264          2.817
LGA    I     267      S     265          2.044
LGA    N     268      A     266          1.150
LGA    T     269      I     267          2.179
LGA    S     270      N     268          0.796
LGA    P     271      -       -           -
LGA    I     272      T     269          4.257
LGA    S     273      S     270          0.984
LGA    V     274      -       -           -
LGA    V     275      P     271          4.801
LGA    D     276      I     272          1.679
LGA    K     277      S     273          5.017
LGA    E     278      -       -           -
LGA    R     279      V     274          0.641
LGA    F     280      V     275          4.112
LGA    S     281      D     276           #
LGA    K     282      K     277           #
LGA    Y     283      E     278           #
LGA    H     284      R     279           #
LGA    D     285      F     280          4.022
LGA    -       -      S     281           -
LGA    N     286      K     282          3.570
LGA    Y     287      Y     283          2.136
LGA    Y     288      H     284           #
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    P     289      Y     288           #
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    -       -      Y     292           -
LGA    G     290      L     293           #
LGA    W     291      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    Y     292      T     297           #
LGA    L     293      L     298          1.147
LGA    V     294      E     299           -
LGA    D     295      -       -           -
LGA    D     296      -       -           -
LGA    T     297      -       -           -
LGA    L     298      R     300           #
LGA    E     299      A     301          4.610
LGA    R     300      G     302           -
LGA    A     301      R     303           -
LGA    G     302      -       -           -
LGA    R     303      I     304          4.792
LGA    I     304      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   77   73    5.0     23    3.17    13.04     20.584     0.703

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.346946 * X  +  -0.482081 * Y  +   0.804504 * Z  +  20.638535
  Y_new =  -0.107892 * X  +  -0.872605 * Y  +  -0.476360 * Z  +  22.029594
  Z_new =   0.931659 * X  +   0.078472 * Y  +  -0.354759 * Z  +  23.586758 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.923900   -0.217693  [ DEG:   167.5271    -12.4729 ]
  Theta =  -1.198952   -1.942641  [ DEG:   -68.6949   -111.3051 ]
  Phi   =  -0.301495    2.840097  [ DEG:   -17.2744    162.7256 ]
 
# 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: T0320TS393_3-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS393_3-D2.T0320_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   77   73   5.0   23   3.17   13.04  20.584
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS393_3-D2
PFRMAT TS
TARGET T0320
MODEL 3
PARENT N/A
ATOM    228  CA  ASN   228      12.937  41.967  34.543  1.00 25.00           C
ATOM    229  CA  ASN   229       9.249  41.607  35.334  1.00 25.00           C
ATOM    230  CA  SER   230       7.763  39.512  38.148  1.00 25.00           C
ATOM    231  CA  LEU   231      10.734  37.792  39.685  1.00 25.00           C
ATOM    232  CA  PRO   232       8.231  36.368  42.083  1.00 25.00           C
ATOM    233  CA  ASN   233       7.354  32.801  41.121  1.00 25.00           C
ATOM    234  CA  PRO   234       3.859  32.049  39.698  1.00 25.00           C
ATOM    235  CA  HIS   235       4.647  29.426  37.082  1.00 25.00           C
ATOM    236  CA  LEU   236       1.905  27.766  35.017  1.00 25.00           C
ATOM    237  CA  ARG   237      -1.527  29.089  35.974  1.00 25.00           C
ATOM    238  CA  LYS   238      -4.664  31.161  35.384  1.00 25.00           C
ATOM    239  CA  ASP   239      -6.285  30.787  32.024  1.00 25.00           C
ATOM    240  CA  SER   240      -4.474  29.412  28.968  1.00 25.00           C
ATOM    241  CA  ASN   241      -6.292  31.665  26.430  1.00 25.00           C
ATOM    242  CA  ASN   242      -4.131  33.065  23.689  1.00 25.00           C
ATOM    243  CA  PRO   243      -1.278  32.184  26.015  1.00 25.00           C
ATOM    244  CA  ALA   244      -0.863  28.420  25.706  1.00 25.00           C
ATOM    245  CA  LEU   245       2.589  29.127  24.338  1.00 25.00           C
ATOM    246  CA  HIS   246       6.006  30.615  24.568  1.00 25.00           C
ATOM    247  CA  PHE   247       8.954  29.171  22.707  1.00 25.00           C
ATOM    248  CA  GLU   248       7.773  27.678  19.413  1.00 25.00           C
ATOM    249  CA  TRP   249      11.077  27.340  17.512  1.00 25.00           C
ATOM    250  CA  GLU   250      12.497  24.071  18.955  1.00 25.00           C
ATOM    251  CA  ILE   251      13.696  20.462  18.985  1.00 25.00           C
ATOM    252  CA  ILE   252      12.547  18.411  21.978  1.00 25.00           C
ATOM    253  CA  HIS   253      10.148  19.385  24.800  1.00 25.00           C
ATOM    254  CA  ALA   254       7.705  20.861  22.246  1.00 25.00           C
ATOM    255  CA  PHE   255       7.888  17.644  20.176  1.00 25.00           C
ATOM    256  CA  GLY   256       4.267  16.718  19.500  1.00 25.00           C
ATOM    257  CA  LYS   257       5.083  13.063  20.277  1.00 25.00           C
ATOM    258  CA  ASP   258       2.542  10.656  18.864  1.00 25.00           C
ATOM    259  CA  ALA   259       2.756  10.771  15.079  1.00 25.00           C
ATOM    260  CA  GLU   260       1.283  10.109  11.629  1.00 25.00           C
ATOM    261  CA  GLY   261      -1.691  12.338  12.595  1.00 25.00           C
ATOM    262  CA  GLU   262      -1.944  15.758  11.037  1.00 25.00           C
ATOM    263  CA  ARG   263      -3.593  17.484   8.083  1.00 25.00           C
ATOM    264  CA  SER   264      -4.765  20.505  10.145  1.00 25.00           C
ATOM    265  CA  SER   265      -7.497  22.836   8.891  1.00 25.00           C
ATOM    266  CA  ALA   266      -6.056  24.493   5.757  1.00 25.00           C
ATOM    267  CA  ILE   267      -3.170  25.737   3.612  1.00 25.00           C
ATOM    268  CA  ASN   268       0.173  27.511   4.105  1.00 25.00           C
ATOM    269  CA  THR   269       2.546  28.308   6.913  1.00 25.00           C
ATOM    270  CA  SER   270       5.219  29.433   9.341  1.00 25.00           C
ATOM    271  CA  PRO   271       8.304  28.325  11.330  1.00 25.00           C
ATOM    272  CA  ILE   272      11.980  28.186  10.665  1.00 25.00           C
ATOM    273  CA  SER   273      12.353  31.488   8.829  1.00 25.00           C
ATOM    274  CA  VAL   274      16.005  32.350   9.369  1.00 25.00           C
ATOM    275  CA  VAL   275      17.955  34.492   6.887  1.00 25.00           C
ATOM    276  CA  ASP   276      17.315  32.949   3.484  1.00 25.00           C
ATOM    277  CA  LYS   277      15.561  35.989   2.030  1.00 25.00           C
ATOM    278  CA  GLU   278      17.786  35.659  -1.007  1.00 25.00           C
ATOM    279  CA  ARG   279      21.428  34.693  -0.743  1.00 25.00           C
ATOM    280  CA  PHE   280      24.121  34.217  -3.341  1.00 25.00           C
ATOM    281  CA  SER   281      22.344  32.006  -5.901  1.00 25.00           C
ATOM    282  CA  LYS   282      25.695  30.182  -5.988  1.00 25.00           C
ATOM    283  CA  TYR   283      26.815  27.076  -7.908  1.00 25.00           C
ATOM    284  CA  HIS   284      25.005  23.749  -8.452  1.00 25.00           C
ATOM    285  CA  ASP   285      23.983  23.477  -4.785  1.00 25.00           C
ATOM    286  CA  ASN   286      24.678  20.204  -2.927  1.00 25.00           C
ATOM    287  CA  TYR   287      21.023  20.111  -1.742  1.00 25.00           C
ATOM    288  CA  TYR   288      19.254  19.743   1.612  1.00 25.00           C
ATOM    289  CA  PRO   289      17.065  17.027   3.111  1.00 25.00           C
ATOM    290  CA  GLY   290      18.336  14.893   6.020  1.00 25.00           C
ATOM    291  CA  TRP   291      19.103  15.028   9.718  1.00 25.00           C
ATOM    292  CA  TYR   292      19.161  11.700  11.553  1.00 25.00           C
ATOM    293  CA  LEU   293      17.999   8.098  11.121  1.00 25.00           C
ATOM    294  CA  VAL   294      17.676   5.896   8.019  1.00 25.00           C
ATOM    295  CA  ASP   295      18.125   2.147   8.150  1.00 25.00           C
ATOM    296  CA  ASP   296      21.612   0.991   8.942  1.00 25.00           C
ATOM    297  CA  THR   297      23.603   3.863  10.353  1.00 25.00           C
ATOM    298  CA  LEU   298      25.815   4.884   7.399  1.00 25.00           C
ATOM    299  CA  GLU   299      24.993   8.572   8.027  1.00 25.00           C
ATOM    300  CA  ARG   300      25.873   8.162  11.731  1.00 25.00           C
ATOM    301  CA  ALA   301      29.648   7.956  11.804  1.00 25.00           C
ATOM    302  CA  GLY   302      29.977   8.111   8.038  1.00 25.00           C
ATOM    303  CA  ARG   303      32.353  11.091   8.441  1.00 25.00           C
ATOM    304  CA  ILE   304      32.828  12.416  11.933  1.00 25.00           C
TER
END
