
#######################################################
#                                                     #
#                        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   95 (   95),  selected   95 , name T0295TS168_1-D2
# Molecule2: number of CA atoms   95 (  803),  selected   95 , name T0295_D2.pdb
# PARAMETERS: T0295TS168_1-D2.T0295_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T     181      T     181           #
LGA    N     182      -       -           -
LGA    F     183      -       -           -
LGA    D     184      -       -           -
LGA    E     185      -       -           -
LGA    W     186      N     182           #
LGA    D     187      -       -           -
LGA    N     188      -       -           -
LGA    L     189      -       -           -
LGA    L     190      F     183          3.271
LGA    R     191      D     184           #
LGA    I     192      E     185           #
LGA    C     193      W     186          4.611
LGA    F     194      D     187          3.398
LGA    S     195      N     188           #
LGA    R     196      L     189           #
LGA    -       -      L     190           -
LGA    K     197      R     191          1.268
LGA    R     198      I     192           #
LGA    K     199      C     193           -
LGA    -       -      F     194           -
LGA    T     200      S     195           #
LGA    L     201      -       -           -
LGA    H     202      -       -           -
LGA    A     203      -       -           -
LGA    I     204      -       -           -
LGA    F     205      R     196           #
LGA    K     206      K     197           -
LGA    R     207      R     198           -
LGA    -       -      K     199           -
LGA    -       -      T     200           -
LGA    -       -      L     201           -
LGA    -       -      H     202           -
LGA    -       -      A     203           -
LGA    -       -      I     204           -
LGA    -       -      F     205           -
LGA    -       -      K     206           -
LGA    -       -      R     207           -
LGA    N     208      N     208           #
LGA    A     209      A     209          1.722
LGA    V     210      V     210          2.168
LGA    L     211      L     211          1.451
LGA    N     212      N     212          1.046
LGA    M     213      M     213          1.195
LGA    L     214      L     214          0.870
LGA    E     215      E     215          1.061
LGA    H     216      H     216          0.833
LGA    N     217      N     217          1.124
LGA    Y     218      Y     218          1.566
LGA    K     219      K     219          1.516
LGA    N     220      N     220          1.314
LGA    W     221      W     221          2.181
LGA    C     222      C     222          2.548
LGA    T     223      T     223          2.164
LGA    L     224      L     224          3.504
LGA    N     225      N     225          3.551
LGA    K     226      K     226          1.265
LGA    Q     227      Q     227          4.150
LGA    V     228      V     228          5.026
LGA    P     229      P     229           -
LGA    V     230      -       -           -
LGA    N     231      -       -           -
LGA    F     232      -       -           -
LGA    P     233      -       -           -
LGA    F     234      -       -           -
LGA    K     235      V     230          5.056
LGA    -       -      N     231           -
LGA    K     236      F     232          4.718
LGA    Y     237      P     233           -
LGA    -       -      F     234           -
LGA    -       -      K     235           -
LGA    C     238      K     236           #
LGA    L     239      Y     237          1.009
LGA    D     240      C     238          5.248
LGA    V     241      L     239          2.211
LGA    L     242      -       -           -
LGA    E     243      -       -           -
LGA    H     244      D     240           #
LGA    -       -      V     241           -
LGA    L     245      L     242          3.873
LGA    D     246      E     243          3.087
LGA    -       -      H     244           -
LGA    -       -      L     245           -
LGA    -       -      D     246           -
LGA    M     247      M     247          1.702
LGA    C     248      C     248          2.548
LGA    E     249      E     249          2.759
LGA    K     250      K     250          1.074
LGA    R     251      R     251          3.107
LGA    S     252      S     252          3.485
LGA    I     253      I     253          3.742
LGA    N     254      N     254          2.644
LGA    L     255      L     255          1.156
LGA    D     256      D     256          3.967
LGA    E     257      E     257          4.053
LGA    N     258      N     258          3.720
LGA    D     259      D     259          3.200
LGA    F     260      F     260          1.586
LGA    L     261      L     261          1.648
LGA    K     262      K     262          1.623
LGA    L     263      L     263          1.356
LGA    L     264      L     264          1.209
LGA    L     265      L     265          0.922
LGA    E     266      E     266          2.155
LGA    F     267      F     267          3.431
LGA    N     268      N     268          3.339
LGA    K     269      K     269          2.788
LGA    K     270      K     270           #
LGA    G     271      G     271          4.659
LGA    I     272      I     272          1.920
LGA    H     273      H     273          0.842
LGA    F     274      F     274          4.236
LGA    F     275      F     275           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   95   95    5.0     58    2.84    82.76     41.037     1.972

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.313047 * X  +  -0.945320 * Y  +   0.091500 * Z  +  11.166166
  Y_new =   0.210226 * X  +   0.162924 * Y  +   0.963982 * Z  +   1.109788
  Z_new =  -0.926179 * X  +  -0.282536 * Y  +   0.249733 * Z  +   9.035138 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.846949    2.294644  [ DEG:   -48.5266    131.4734 ]
  Theta =   1.184149    1.957444  [ DEG:    67.8467    112.1533 ]
  Phi   =   0.591373   -2.550219  [ DEG:    33.8832   -146.1168 ]
 
# 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: T0295TS168_1-D2                               
REMARK     2: T0295_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0295TS168_1-D2.T0295_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   95   95   5.0   58   2.84   82.76  41.037
REMARK  ---------------------------------------------------------- 
MOLECULE T0295TS168_1-D2
PFRMAT TS
TARGET T0295
MODEL 1
PARENT N/A
ATOM    181  CA  THR   181      20.363  12.126  18.256  1.00 25.00           C
ATOM    182  CA  ASN   182      17.505  12.017  20.763  1.00 25.00           C
ATOM    183  CA  PHE   183      14.617  10.898  18.552  1.00 25.00           C
ATOM    184  CA  ASP   184      11.952  13.648  18.533  1.00 25.00           C
ATOM    185  CA  GLU   185      14.533  16.174  17.256  1.00 25.00           C
ATOM    186  CA  TRP   186      15.577  13.744  14.487  1.00 25.00           C
ATOM    187  CA  ASP   187      11.909  13.260  13.495  1.00 25.00           C
ATOM    188  CA  ASN   188      11.415  17.055  13.378  1.00 25.00           C
ATOM    189  CA  LEU   189      14.529  17.418  11.180  1.00 25.00           C
ATOM    190  CA  LEU   190      13.219  14.694   8.829  1.00 25.00           C
ATOM    191  CA  ARG   191       9.835  16.473   8.613  1.00 25.00           C
ATOM    192  CA  ILE   192      11.596  19.777   7.807  1.00 25.00           C
ATOM    193  CA  CYS   193      13.644  18.047   5.072  1.00 25.00           C
ATOM    194  CA  PHE   194      10.447  16.542   3.597  1.00 25.00           C
ATOM    195  CA  SER   195       8.785  19.992   3.613  1.00 25.00           C
ATOM    196  CA  ARG   196      11.835  21.497   1.852  1.00 25.00           C
ATOM    197  CA  LYS   197      11.712  18.720  -0.784  1.00 25.00           C
ATOM    198  CA  ARG   198       7.981  19.378  -1.338  1.00 25.00           C
ATOM    199  CA  LYS   199       8.675  23.123  -1.741  1.00 25.00           C
ATOM    200  CA  THR   200      11.442  22.362  -4.278  1.00 25.00           C
ATOM    201  CA  LEU   201       9.062  20.078  -6.224  1.00 25.00           C
ATOM    202  CA  HIS   202       6.397  22.829  -6.243  1.00 25.00           C
ATOM    203  CA  ALA   203       8.978  25.355  -7.520  1.00 25.00           C
ATOM    204  CA  ILE   204      10.022  22.923 -10.290  1.00 25.00           C
ATOM    205  CA  PHE   205       6.354  22.440 -11.281  1.00 25.00           C
ATOM    206  CA  LYS   206       5.860  26.235 -11.398  1.00 25.00           C
ATOM    207  CA  ARG   207       8.975  26.598 -13.597  1.00 25.00           C
ATOM    208  CA  ASN   208      11.855  27.588 -11.327  1.00 25.00           C
ATOM    209  CA  ALA   209      13.561  28.387  -7.999  1.00 25.00           C
ATOM    210  CA  VAL   210      15.573  27.272  -5.008  1.00 25.00           C
ATOM    211  CA  LEU   211      18.715  28.672  -6.691  1.00 25.00           C
ATOM    212  CA  ASN   212      17.973  32.140  -5.247  1.00 25.00           C
ATOM    213  CA  MET   213      17.522  30.619  -1.762  1.00 25.00           C
ATOM    214  CA  LEU   214      20.853  28.764  -2.113  1.00 25.00           C
ATOM    215  CA  GLU   215      22.580  32.013  -3.173  1.00 25.00           C
ATOM    216  CA  HIS   216      21.081  33.825  -0.149  1.00 25.00           C
ATOM    217  CA  ASN   217      22.307  31.029   2.163  1.00 25.00           C
ATOM    218  CA  TYR   218      25.812  31.273   0.639  1.00 25.00           C
ATOM    219  CA  LYS   219      25.801  35.068   1.159  1.00 25.00           C
ATOM    220  CA  ASN   220      24.732  34.589   4.806  1.00 25.00           C
ATOM    221  CA  TRP   221      27.548  32.045   5.324  1.00 25.00           C
ATOM    222  CA  CYS   222      30.071  34.491   3.800  1.00 25.00           C
ATOM    223  CA  THR   223      28.812  37.270   6.115  1.00 25.00           C
ATOM    224  CA  LEU   224      27.575  36.779   9.667  1.00 25.00           C
ATOM    225  CA  ASN   225      30.769  34.880  10.503  1.00 25.00           C
ATOM    226  CA  LYS   226      33.425  34.134   7.832  1.00 25.00           C
ATOM    227  CA  GLN   227      37.184  34.186   7.605  1.00 25.00           C
ATOM    228  CA  VAL   228      37.278  30.842   5.804  1.00 25.00           C
ATOM    229  CA  PRO   229      40.838  31.714   4.655  1.00 25.00           C
ATOM    230  CA  VAL   230      42.732  30.265   1.692  1.00 25.00           C
ATOM    231  CA  ASN   231      43.001  27.116  -0.468  1.00 25.00           C
ATOM    232  CA  PHE   232      39.640  28.158  -1.917  1.00 25.00           C
ATOM    233  CA  PRO   233      40.058  25.651  -4.765  1.00 25.00           C
ATOM    234  CA  PHE   234      36.557  24.495  -4.017  1.00 25.00           C
ATOM    235  CA  LYS   235      33.596  26.894  -3.645  1.00 25.00           C
ATOM    236  CA  LYS   236      33.793  27.754  -7.371  1.00 25.00           C
ATOM    237  CA  TYR   237      33.843  24.028  -8.254  1.00 25.00           C
ATOM    238  CA  CYS   238      30.786  23.434  -6.026  1.00 25.00           C
ATOM    239  CA  LEU   239      28.955  26.339  -7.722  1.00 25.00           C
ATOM    240  CA  ASP   240      29.804  24.896 -11.166  1.00 25.00           C
ATOM    241  CA  VAL   241      28.497  21.464 -10.078  1.00 25.00           C
ATOM    242  CA  LEU   242      25.258  23.070  -8.816  1.00 25.00           C
ATOM    243  CA  GLU   243      24.847  24.916 -12.147  1.00 25.00           C
ATOM    244  CA  HIS   244      25.386  21.641 -14.057  1.00 25.00           C
ATOM    245  CA  LEU   245      24.654  18.366 -12.312  1.00 25.00           C
ATOM    246  CA  ASP   246      27.020  15.349 -12.331  1.00 25.00           C
ATOM    247  CA  MET   247      23.875  13.455 -11.619  1.00 25.00           C
ATOM    248  CA  CYS   248      22.507  14.428 -15.024  1.00 25.00           C
ATOM    249  CA  GLU   249      19.921  12.211 -16.690  1.00 25.00           C
ATOM    250  CA  LYS   250      20.076  10.246 -13.424  1.00 25.00           C
ATOM    251  CA  ARG   251      16.791   8.364 -13.615  1.00 25.00           C
ATOM    252  CA  SER   252      14.561   8.630 -10.551  1.00 25.00           C
ATOM    253  CA  ILE   253      13.939   4.905 -10.638  1.00 25.00           C
ATOM    254  CA  ASN   254      17.114   3.535  -9.117  1.00 25.00           C
ATOM    255  CA  LEU   255      18.653   6.809  -8.045  1.00 25.00           C
ATOM    256  CA  ASP   256      21.101   4.543  -6.182  1.00 25.00           C
ATOM    257  CA  GLU   257      21.824   6.539  -3.011  1.00 25.00           C
ATOM    258  CA  ASN   258      25.615   7.080  -2.899  1.00 25.00           C
ATOM    259  CA  ASP   259      25.228  10.359  -4.841  1.00 25.00           C
ATOM    260  CA  PHE   260      22.506  11.510  -2.404  1.00 25.00           C
ATOM    261  CA  LEU   261      24.771  10.662   0.565  1.00 25.00           C
ATOM    262  CA  LYS   262      27.640  12.637  -1.027  1.00 25.00           C
ATOM    263  CA  LEU   263      25.312  15.629  -1.570  1.00 25.00           C
ATOM    264  CA  LEU   264      24.185  15.446   2.086  1.00 25.00           C
ATOM    265  CA  LEU   265      27.838  15.348   3.233  1.00 25.00           C
ATOM    266  CA  GLU   266      28.630  18.396   1.053  1.00 25.00           C
ATOM    267  CA  PHE   267      25.635  20.266   2.537  1.00 25.00           C
ATOM    268  CA  ASN   268      26.816  19.400   6.076  1.00 25.00           C
ATOM    269  CA  LYS   269      30.334  20.661   5.236  1.00 25.00           C
ATOM    270  CA  LYS   270      29.213  24.045   6.606  1.00 25.00           C
ATOM    271  CA  GLY   271      25.677  25.499   6.460  1.00 25.00           C
ATOM    272  CA  ILE   272      25.247  25.340   2.670  1.00 25.00           C
ATOM    273  CA  HIS   273      21.975  23.536   3.504  1.00 25.00           C
ATOM    274  CA  PHE   274      20.854  20.336   5.313  1.00 25.00           C
ATOM    275  CA  PHE   275      22.181  18.379   8.349  1.00 25.00           C
TER
END
