
#######################################################
#                                                     #
#                        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_2-D2
# Molecule2: number of CA atoms   95 (  803),  selected   95 , name T0295_D2.pdb
# PARAMETERS: T0295TS168_2-D2.T0295_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T     181      -       -           -
LGA    N     182      -       -           -
LGA    F     183      -       -           -
LGA    D     184      -       -           -
LGA    E     185      -       -           -
LGA    W     186      -       -           -
LGA    D     187      -       -           -
LGA    N     188      -       -           -
LGA    L     189      T     181           #
LGA    L     190      N     182          2.596
LGA    R     191      F     183          2.698
LGA    I     192      D     184          2.659
LGA    C     193      E     185          2.213
LGA    F     194      W     186          2.589
LGA    S     195      D     187          2.435
LGA    R     196      N     188          2.043
LGA    K     197      L     189          2.316
LGA    R     198      L     190          3.092
LGA    K     199      R     191          2.974
LGA    T     200      I     192          3.001
LGA    L     201      C     193          3.662
LGA    H     202      F     194           #
LGA    A     203      S     195           #
LGA    I     204      -       -           -
LGA    F     205      -       -           -
LGA    K     206      R     196           #
LGA    -       -      K     197           -
LGA    -       -      R     198           -
LGA    -       -      K     199           -
LGA    -       -      T     200           -
LGA    -       -      L     201           -
LGA    -       -      H     202           -
LGA    -       -      A     203           -
LGA    R     207      I     204           #
LGA    N     208      -       -           -
LGA    A     209      -       -           -
LGA    V     210      F     205           #
LGA    -       -      K     206           -
LGA    -       -      R     207           -
LGA    -       -      N     208           -
LGA    -       -      A     209           -
LGA    -       -      V     210           -
LGA    L     211      L     211          2.532
LGA    N     212      N     212          1.996
LGA    M     213      M     213          2.080
LGA    L     214      L     214          1.801
LGA    E     215      E     215          1.702
LGA    H     216      H     216          1.431
LGA    N     217      N     217          1.359
LGA    Y     218      Y     218          1.479
LGA    K     219      K     219          1.488
LGA    N     220      N     220          1.422
LGA    W     221      W     221          1.725
LGA    C     222      C     222          2.025
LGA    T     223      T     223          1.839
LGA    L     224      L     224          2.963
LGA    -       -      N     225           -
LGA    N     225      K     226          1.565
LGA    K     226      Q     227          2.341
LGA    Q     227      V     228          3.405
LGA    V     228      P     229           #
LGA    P     229      -       -           -
LGA    V     230      -       -           -
LGA    N     231      -       -           -
LGA    F     232      V     230           #
LGA    P     233      N     231          5.423
LGA    F     234      F     232          5.270
LGA    K     235      P     233          3.468
LGA    K     236      F     234           #
LGA    Y     237      K     235           #
LGA    C     238      K     236          3.166
LGA    L     239      Y     237          4.600
LGA    -       -      C     238           -
LGA    -       -      L     239           -
LGA    D     240      D     240          1.927
LGA    V     241      V     241           #
LGA    L     242      -       -           -
LGA    E     243      -       -           -
LGA    H     244      L     242          4.180
LGA    L     245      E     243          2.436
LGA    D     246      H     244           #
LGA    -       -      L     245           -
LGA    -       -      D     246           -
LGA    M     247      M     247          2.305
LGA    -       -      C     248           -
LGA    C     248      E     249          1.487
LGA    E     249      K     250          3.585
LGA    K     250      R     251           #
LGA    -       -      S     252           -
LGA    R     251      I     253          5.525
LGA    S     252      N     254          3.174
LGA    I     253      L     255           #
LGA    N     254      -       -           -
LGA    L     255      D     256          4.335
LGA    D     256      E     257           -
LGA    E     257      N     258          1.827
LGA    N     258      -       -           -
LGA    D     259      D     259          2.635
LGA    F     260      F     260          3.080
LGA    L     261      L     261          3.741
LGA    K     262      K     262          2.425
LGA    L     263      L     263          1.155
LGA    L     264      L     264          2.670
LGA    L     265      L     265          2.446
LGA    E     266      E     266          0.969
LGA    F     267      F     267          1.891
LGA    N     268      N     268          2.124
LGA    K     269      K     269          1.417
LGA    K     270      K     270          3.506
LGA    G     271      G     271          1.337
LGA    I     272      I     272          1.313
LGA    H     273      H     273          1.643
LGA    F     274      F     274          6.368
LGA    F     275      F     275           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   95   95    5.0     60    2.86    55.00     41.966     2.028

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.053577 * X  +  -0.954934 * Y  +   0.291942 * Z  +  14.735841
  Y_new =   0.031347 * X  +   0.290610 * Y  +   0.956328 * Z  +   0.377580
  Z_new =  -0.998072 * X  +   0.060389 * Y  +   0.014365 * Z  +  13.027678 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.337265   -1.804327  [ DEG:    76.6196   -103.3804 ]
  Theta =   1.508682    1.632910  [ DEG:    86.4411     93.5589 ]
  Phi   =   2.612207   -0.529385  [ DEG:   149.6685    -30.3315 ]
 
# 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_2-D2                               
REMARK     2: T0295_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0295TS168_2-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   60   2.86   55.00  41.966
REMARK  ---------------------------------------------------------- 
MOLECULE T0295TS168_2-D2
PFRMAT TS
TARGET T0295
MODEL 2
PARENT N/A
ATOM    181  CA  THR   181      26.240  10.310  19.262  1.00 25.00           C
ATOM    182  CA  ASN   182      23.981  13.283  18.641  1.00 25.00           C
ATOM    183  CA  PHE   183      20.689  11.396  18.410  1.00 25.00           C
ATOM    184  CA  ASP   184      16.881  11.337  18.008  1.00 25.00           C
ATOM    185  CA  GLU   185      16.840  15.145  17.599  1.00 25.00           C
ATOM    186  CA  TRP   186      19.598  14.914  14.951  1.00 25.00           C
ATOM    187  CA  ASP   187      17.615  12.219  13.086  1.00 25.00           C
ATOM    188  CA  ASN   188      14.482  14.419  13.189  1.00 25.00           C
ATOM    189  CA  LEU   189      16.487  17.382  11.824  1.00 25.00           C
ATOM    190  CA  LEU   190      17.859  15.186   9.002  1.00 25.00           C
ATOM    191  CA  ARG   191      14.311  14.018   8.154  1.00 25.00           C
ATOM    192  CA  ILE   192      13.107  17.653   8.077  1.00 25.00           C
ATOM    193  CA  CYS   193      16.007  18.591   5.759  1.00 25.00           C
ATOM    194  CA  PHE   194      15.140  15.664   3.448  1.00 25.00           C
ATOM    195  CA  SER   195      11.475  16.774   3.376  1.00 25.00           C
ATOM    196  CA  ARG   196      12.551  20.349   2.519  1.00 25.00           C
ATOM    197  CA  LYS   197      14.776  19.030  -0.304  1.00 25.00           C
ATOM    198  CA  ARG   198      11.863  16.946  -1.660  1.00 25.00           C
ATOM    199  CA  LYS   199       9.584  20.022  -1.560  1.00 25.00           C
ATOM    200  CA  THR   200      12.224  22.070  -3.431  1.00 25.00           C
ATOM    201  CA  LEU   201      12.521  19.316  -6.076  1.00 25.00           C
ATOM    202  CA  HIS   202       8.713  19.257  -6.478  1.00 25.00           C
ATOM    203  CA  ALA   203       8.673  23.064  -6.888  1.00 25.00           C
ATOM    204  CA  ILE   204      11.429  22.834  -9.536  1.00 25.00           C
ATOM    205  CA  PHE   205       9.447  20.138 -11.400  1.00 25.00           C
ATOM    206  CA  LYS   206       6.313  22.338 -11.298  1.00 25.00           C
ATOM    207  CA  ARG   207       8.319  25.301 -12.662  1.00 25.00           C
ATOM    208  CA  ASN   208       9.967  27.762 -10.312  1.00 25.00           C
ATOM    209  CA  ALA   209      11.128  27.916  -6.766  1.00 25.00           C
ATOM    210  CA  VAL   210      14.530  29.224  -5.789  1.00 25.00           C
ATOM    211  CA  LEU   211      17.913  30.005  -7.406  1.00 25.00           C
ATOM    212  CA  ASN   212      17.858  33.518  -5.882  1.00 25.00           C
ATOM    213  CA  MET   213      17.059  32.039  -2.441  1.00 25.00           C
ATOM    214  CA  LEU   214      19.958  29.563  -2.805  1.00 25.00           C
ATOM    215  CA  GLU   215      22.315  32.425  -3.765  1.00 25.00           C
ATOM    216  CA  HIS   216      21.162  34.431  -0.714  1.00 25.00           C
ATOM    217  CA  ASN   217      21.771  31.396   1.542  1.00 25.00           C
ATOM    218  CA  TYR   218      25.277  30.967   0.061  1.00 25.00           C
ATOM    219  CA  LYS   219      26.015  34.675   0.675  1.00 25.00           C
ATOM    220  CA  ASN   220      24.817  34.339   4.297  1.00 25.00           C
ATOM    221  CA  TRP   221      27.060  31.272   4.779  1.00 25.00           C
ATOM    222  CA  CYS   222      30.044  33.197   3.344  1.00 25.00           C
ATOM    223  CA  THR   223      29.331  36.119   5.714  1.00 25.00           C
ATOM    224  CA  LEU   224      29.677  33.564   8.512  1.00 25.00           C
ATOM    225  CA  ASN   225      32.721  35.225  10.128  1.00 25.00           C
ATOM    226  CA  LYS   226      34.711  34.206   6.998  1.00 25.00           C
ATOM    227  CA  GLN   227      36.843  36.137   4.511  1.00 25.00           C
ATOM    228  CA  VAL   228      37.860  33.440   2.026  1.00 25.00           C
ATOM    229  CA  PRO   229      41.654  33.256   2.082  1.00 25.00           C
ATOM    230  CA  VAL   230      42.354  31.996  -1.461  1.00 25.00           C
ATOM    231  CA  ASN   231      42.169  28.779  -3.426  1.00 25.00           C
ATOM    232  CA  PHE   232      39.186  27.182  -5.140  1.00 25.00           C
ATOM    233  CA  PRO   233      36.003  29.205  -5.669  1.00 25.00           C
ATOM    234  CA  PHE   234      32.282  29.156  -4.720  1.00 25.00           C
ATOM    235  CA  LYS   235      31.658  30.138  -8.368  1.00 25.00           C
ATOM    236  CA  LYS   236      33.115  26.797  -9.543  1.00 25.00           C
ATOM    237  CA  TYR   237      30.859  24.920  -7.083  1.00 25.00           C
ATOM    238  CA  CYS   238      27.814  26.859  -8.357  1.00 25.00           C
ATOM    239  CA  LEU   239      28.753  26.008 -11.971  1.00 25.00           C
ATOM    240  CA  ASP   240      29.101  22.310 -11.036  1.00 25.00           C
ATOM    241  CA  VAL   241      25.667  22.391  -9.343  1.00 25.00           C
ATOM    242  CA  LEU   242      24.139  24.006 -12.462  1.00 25.00           C
ATOM    243  CA  GLU   243      25.731  21.310 -14.667  1.00 25.00           C
ATOM    244  CA  HIS   244      24.332  18.577 -12.378  1.00 25.00           C
ATOM    245  CA  LEU   245      27.361  16.726 -11.116  1.00 25.00           C
ATOM    246  CA  ASP   246      26.525  13.657 -13.194  1.00 25.00           C
ATOM    247  CA  MET   247      23.090  13.347 -11.504  1.00 25.00           C
ATOM    248  CA  CYS   248      21.782  11.937 -14.784  1.00 25.00           C
ATOM    249  CA  GLU   249      20.414   8.477 -15.687  1.00 25.00           C
ATOM    250  CA  LYS   250      20.895   5.733 -13.097  1.00 25.00           C
ATOM    251  CA  ARG   251      17.891   5.478 -10.755  1.00 25.00           C
ATOM    252  CA  SER   252      16.116   3.186  -8.359  1.00 25.00           C
ATOM    253  CA  ILE   253      18.424   0.278  -9.087  1.00 25.00           C
ATOM    254  CA  ASN   254      20.143  -0.100  -5.681  1.00 25.00           C
ATOM    255  CA  LEU   255      21.803   3.142  -4.833  1.00 25.00           C
ATOM    256  CA  ASP   256      24.042   1.534  -2.221  1.00 25.00           C
ATOM    257  CA  GLU   257      24.043   4.685  -0.110  1.00 25.00           C
ATOM    258  CA  ASN   258      27.421   5.755  -1.564  1.00 25.00           C
ATOM    259  CA  ASP   259      25.683   8.391  -3.730  1.00 25.00           C
ATOM    260  CA  PHE   260      23.797   9.702  -0.665  1.00 25.00           C
ATOM    261  CA  LEU   261      27.080   9.907   1.297  1.00 25.00           C
ATOM    262  CA  LYS   262      28.715  11.821  -1.589  1.00 25.00           C
ATOM    263  CA  LEU   263      25.754  14.248  -1.689  1.00 25.00           C
ATOM    264  CA  LEU   264      26.036  14.788   2.092  1.00 25.00           C
ATOM    265  CA  LEU   265      29.789  15.470   1.739  1.00 25.00           C
ATOM    266  CA  GLU   266      29.091  17.990  -1.060  1.00 25.00           C
ATOM    267  CA  PHE   267      26.471  19.729   1.126  1.00 25.00           C
ATOM    268  CA  ASN   268      28.967  19.902   4.025  1.00 25.00           C
ATOM    269  CA  LYS   269      31.610  21.399   1.693  1.00 25.00           C
ATOM    270  CA  LYS   270      31.393  24.739   3.524  1.00 25.00           C
ATOM    271  CA  GLY   271      27.603  24.746   3.492  1.00 25.00           C
ATOM    272  CA  ILE   272      24.368  24.653   1.499  1.00 25.00           C
ATOM    273  CA  HIS   273      22.981  23.114   4.657  1.00 25.00           C
ATOM    274  CA  PHE   274      23.480  19.439   5.383  1.00 25.00           C
ATOM    275  CA  PHE   275      23.197  18.111   8.962  1.00 25.00           C
TER
END
