
#######################################################
#                                                     #
#                        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   26 (  129),  selected   26 , name T0361TS239_3_2
# Molecule2: number of CA atoms  166 ( 1335),  selected  166 , name T0361.pdb
# PARAMETERS: T0361TS239_3_2.T0361.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T       3           -
LGA    -       -      L       4           -
LGA    -       -      T       5           -
LGA    -       -      E       6           -
LGA    -       -      D       7           -
LGA    -       -      D       8           -
LGA    -       -      V       9           -
LGA    -       -      L      10           -
LGA    -       -      E      11           -
LGA    -       -      Q      12           -
LGA    -       -      L      13           -
LGA    -       -      D      14           -
LGA    -       -      A      15           -
LGA    -       -      Q      16           -
LGA    -       -      D      17           -
LGA    -       -      N      18           -
LGA    -       -      L      19           -
LGA    -       -      F      20           -
LGA    -       -      S      21           -
LGA    -       -      F      22           -
LGA    -       -      M      23           -
LGA    W     143      K      24          3.640
LGA    S     144      T      25          1.333
LGA    E     145      A      26          1.835
LGA    A     146      H      27          1.362
LGA    R     147      S      28          0.902
LGA    F     148      I      29          1.253
LGA    S     149      L      30          1.254
LGA    G     150      L      31          1.263
LGA    M     151      Q      32          1.916
LGA    V     152      G      33          1.963
LGA    K     153      I      34          1.380
LGA    T     154      R      35          1.379
LGA    A     155      Q      36          1.585
LGA    L     156      F      37          1.522
LGA    T     157      L      38          0.976
LGA    L     158      P      39          1.965
LGA    A     159      S      40          2.769
LGA    V     160      L      41          2.896
LGA    T     161      F      42          2.173
LGA    T     162      V      43          4.411
LGA    T     163      D      44           #
LGA    L     164      N      45           -
LGA    -       -      D      46           -
LGA    -       -      E      47           -
LGA    -       -      E      48           -
LGA    -       -      I      49           -
LGA    K     165      V      50          4.306
LGA    -       -      E      51           -
LGA    -       -      Y      52           -
LGA    -       -      A      53           -
LGA    L     167      V      54          3.083
LGA    -       -      K      55           -
LGA    -       -      P      56           -
LGA    T     168      L      57          2.018
LGA    P     169      L      58          2.373
LGA    -       -      A      59           -
LGA    -       -      Q      60           -
LGA    -       -      S      61           -
LGA    -       -      G      62           -
LGA    -       -      P      63           -
LGA    -       -      L      64           -
LGA    -       -      D      65           -
LGA    -       -      D      66           -
LGA    -       -      I      67           -
LGA    -       -      D      68           -
LGA    -       -      V      69           -
LGA    -       -      A      70           -
LGA    -       -      L      71           -
LGA    -       -      R      72           -
LGA    -       -      L      73           -
LGA    -       -      I      74           -
LGA    -       -      Y      75           -
LGA    -       -      A      76           -
LGA    -       -      L      77           -
LGA    -       -      G      78           -
LGA    -       -      K      79           -
LGA    -       -      M      80           -
LGA    -       -      D      81           -
LGA    -       -      K      82           -
LGA    -       -      W      83           -
LGA    -       -      L      84           -
LGA    -       -      Y      85           -
LGA    -       -      A      86           -
LGA    -       -      D      87           -
LGA    -       -      I      88           -
LGA    -       -      T      89           -
LGA    -       -      H      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      Q      93           -
LGA    -       -      Y      94           -
LGA    -       -      W      95           -
LGA    -       -      H      96           -
LGA    -       -      Y      97           -
LGA    -       -      L      98           -
LGA    -       -      N      99           -
LGA    -       -      E     100           -
LGA    -       -      Q     101           -
LGA    -       -      D     102           -
LGA    -       -      E     103           -
LGA    -       -      T     104           -
LGA    -       -      P     105           -
LGA    -       -      G     106           -
LGA    -       -      F     107           -
LGA    -       -      A     108           -
LGA    -       -      D     109           -
LGA    -       -      D     110           -
LGA    -       -      I     111           -
LGA    -       -      T     112           -
LGA    -       -      W     113           -
LGA    -       -      D     114           -
LGA    -       -      F     115           -
LGA    -       -      I     116           -
LGA    -       -      S     117           -
LGA    -       -      N     118           -
LGA    -       -      V     119           -
LGA    -       -      N     120           -
LGA    -       -      S     121           -
LGA    -       -      I     122           -
LGA    -       -      T     123           -
LGA    -       -      R     124           -
LGA    -       -      N     125           -
LGA    -       -      A     126           -
LGA    -       -      T     127           -
LGA    -       -      L     128           -
LGA    -       -      Y     129           -
LGA    -       -      D     130           -
LGA    -       -      A     131           -
LGA    -       -      L     132           -
LGA    -       -      K     133           -
LGA    -       -      A     134           -
LGA    -       -      M     135           -
LGA    -       -      K     136           -
LGA    -       -      F     137           -
LGA    -       -      A     138           -
LGA    -       -      D     139           -
LGA    -       -      F     140           -
LGA    -       -      A     141           -
LGA    -       -      V     142           -
LGA    -       -      W     143           -
LGA    -       -      S     144           -
LGA    -       -      E     145           -
LGA    -       -      A     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      S     149           -
LGA    -       -      G     150           -
LGA    -       -      M     151           -
LGA    -       -      V     152           -
LGA    -       -      K     153           -
LGA    -       -      T     154           -
LGA    -       -      A     155           -
LGA    -       -      L     156           -
LGA    -       -      T     157           -
LGA    -       -      L     158           -
LGA    -       -      A     159           -
LGA    -       -      V     160           -
LGA    -       -      T     161           -
LGA    -       -      T     162           -
LGA    -       -      T     163           -
LGA    -       -      L     164           -
LGA    -       -      K     165           -
LGA    -       -      E     166           -
LGA    -       -      L     167           -
LGA    -       -      T     168           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   26  166    5.0     24    2.28     0.00     11.953     1.008

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.943324 * X  +   0.072092 * Y  +  -0.323950 * Z  +  52.551254
  Y_new =   0.312875 * X  +  -0.132354 * Y  +  -0.940527 * Z  +  10.692785
  Z_new =  -0.110681 * X  +  -0.988577 * Y  +   0.102297 * Z  +  82.371544 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.467685    1.673908  [ DEG:   -84.0921     95.9079 ]
  Theta =   0.110908    3.030685  [ DEG:     6.3546    173.6454 ]
  Phi   =   2.821337   -0.320255  [ DEG:   161.6507    -18.3493 ]
 
# 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: T0361TS239_3_2                                
REMARK     2: T0361.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0361TS239_3_2.T0361.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   26  166   5.0   24   2.28    0.00  11.953
REMARK  ---------------------------------------------------------- 
MOLECULE T0361TS239_3_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0361
PARENT 1f5q_B
ATOM    702  N   TRP   143       2.202   0.559  20.335  1.00  9.99
ATOM    703  CA  TRP   143       3.058   1.688  19.995  1.00  9.99
ATOM    704  C   TRP   143       4.232   1.970  20.924  1.00  9.99
ATOM    705  O   TRP   143       5.370   2.029  20.480  1.00  9.99
ATOM    706  CB  TRP   143       2.234   2.963  19.862  1.00  9.99
ATOM    707  N   SER   144       3.966   2.146  22.208  1.00  9.99
ATOM    708  CA  SER   144       5.035   2.464  23.140  1.00  9.99
ATOM    709  C   SER   144       6.209   1.518  23.103  1.00  9.99
ATOM    710  O   SER   144       7.327   1.930  22.812  1.00  9.99
ATOM    711  CB  SER   144       4.516   2.523  24.574  1.00  9.99
ATOM    712  N   GLU   145       5.969   0.254  23.428  1.00  9.99
ATOM    713  CA  GLU   145       7.050  -0.727  23.450  1.00  9.99
ATOM    714  C   GLU   145       7.807  -0.708  22.140  1.00  9.99
ATOM    715  O   GLU   145       9.032  -0.770  22.125  1.00  9.99
ATOM    716  CB  GLU   145       6.510  -2.140  23.686  1.00  9.99
ATOM    717  N   ALA   146       7.062  -0.615  21.041  1.00  9.99
ATOM    718  CA  ALA   146       7.637  -0.617  19.703  1.00  9.99
ATOM    719  C   ALA   146       8.467   0.619  19.426  1.00  9.99
ATOM    720  O   ALA   146       9.603   0.528  18.969  1.00  9.99
ATOM    721  CB  ALA   146       6.530  -0.775  18.651  1.00  9.99
ATOM    722  N   ARG   147       7.912   1.780  19.707  1.00  9.99
ATOM    723  CA  ARG   147       8.664   2.997  19.495  1.00  9.99
ATOM    724  C   ARG   147      10.001   2.904  20.222  1.00  9.99
ATOM    725  O   ARG   147      11.056   3.179  19.649  1.00  9.99
ATOM    726  CB  ARG   147       7.902   4.189  20.033  1.00  9.99
ATOM    727  N   PHE   148       9.951   2.503  21.486  1.00  9.99
ATOM    728  CA  PHE   148      11.151   2.411  22.285  1.00  9.99
ATOM    729  C   PHE   148      12.173   1.393  21.844  1.00  9.99
ATOM    730  O   PHE   148      13.340   1.487  22.224  1.00  9.99
ATOM    731  CB  PHE   148      10.795   2.177  23.745  1.00  9.99
ATOM    732  N   SER   149      11.764   0.407  21.063  1.00  9.99
ATOM    733  CA  SER   149      12.737  -0.565  20.616  1.00  9.99
ATOM    734  C   SER   149      13.378  -0.066  19.335  1.00  9.99
ATOM    735  O   SER   149      14.573  -0.261  19.105  1.00  9.99
ATOM    736  CB  SER   149      12.082  -1.926  20.396  1.00  9.99
ATOM    737  N   GLY   150      12.580   0.610  18.519  1.00  9.99
ATOM    738  CA  GLY   150      13.053   1.128  17.248  1.00  9.99
ATOM    739  C   GLY   150      13.959   2.340  17.357  1.00  9.99
ATOM    740  O   GLY   150      14.900   2.474  16.592  1.00  9.99
ATOM    741  N   MET   151      13.671   3.224  18.304  1.00  9.99
ATOM    742  CA  MET   151      14.456   4.438  18.482  1.00  9.99
ATOM    743  C   MET   151      15.966   4.184  18.470  1.00  9.99
ATOM    744  O   MET   151      16.681   4.701  17.610  1.00  9.99
ATOM    745  CB  MET   151      14.065   5.138  19.793  1.00  9.99
ATOM    746  N   VAL   152      16.469   3.364  19.407  1.00  9.99
ATOM    747  CA  VAL   152      17.910   3.104  19.436  1.00  9.99
ATOM    748  C   VAL   152      18.522   2.607  18.133  1.00  9.99
ATOM    749  O   VAL   152      19.648   2.965  17.796  1.00  9.99
ATOM    750  CB  VAL   152      18.058   2.109  20.589  1.00  9.99
ATOM    751  N   LYS   153      17.791   1.781  17.399  1.00  9.99
ATOM    752  CA  LYS   153      18.296   1.257  16.135  1.00  9.99
ATOM    753  C   LYS   153      18.399   2.354  15.083  1.00  9.99
ATOM    754  O   LYS   153      19.358   2.391  14.314  1.00  9.99
ATOM    755  CB  LYS   153      17.383   0.153  15.613  1.00  9.99
ATOM    756  N   THR   154      17.401   3.237  15.062  1.00  9.99
ATOM    757  CA  THR   154      17.339   4.340  14.111  1.00  9.99
ATOM    758  C   THR   154      18.473   5.340  14.311  1.00  9.99
ATOM    759  O   THR   154      19.037   5.849  13.351  1.00  9.99
ATOM    760  CB  THR   154      16.009   5.088  14.236  1.00  9.99
ATOM    761  N   ALA   155      18.789   5.619  15.572  1.00  9.99
ATOM    762  CA  ALA   155      19.846   6.556  15.919  1.00  9.99
ATOM    763  C   ALA   155      21.184   6.030  15.452  1.00  9.99
ATOM    764  O   ALA   155      22.023   6.790  14.997  1.00  9.99
ATOM    765  CB  ALA   155      19.870   6.782  17.434  1.00  9.99
ATOM    766  N   LEU   156      21.381   4.725  15.579  1.00  9.99
ATOM    767  CA  LEU   156      22.618   4.100  15.152  1.00  9.99
ATOM    768  C   LEU   156      22.700   4.131  13.641  1.00  9.99
ATOM    769  O   LEU   156      23.775   4.314  13.072  1.00  9.99
ATOM    770  CB  LEU   156      22.682   2.649  15.621  1.00  9.99
ATOM    771  N   THR   157      21.553   3.951  12.998  1.00  9.99
ATOM    772  CA  THR   157      21.486   3.957  11.551  1.00  9.99
ATOM    773  C   THR   157      21.884   5.321  11.026  1.00  9.99
ATOM    774  O   THR   157      22.554   5.429  10.001  1.00  9.99
ATOM    775  CB  THR   157      20.095   3.620  11.102  1.00  9.99
ATOM    776  N   LEU   158      21.476   6.358  11.746  1.00  9.99
ATOM    777  CA  LEU   158      21.767   7.728  11.364  1.00  9.99
ATOM    778  C   LEU   158      23.245   8.049  11.410  1.00  9.99
ATOM    779  O   LEU   158      23.738   8.828  10.610  1.00  9.99
ATOM    780  CB  LEU   158      20.965   8.692  12.245  1.00  9.99
ATOM    781  N   ALA   159      23.963   7.430  12.333  1.00  9.99
ATOM    782  CA  ALA   159      25.391   7.672  12.453  1.00  9.99
ATOM    783  C   ALA   159      26.200   6.857  11.464  1.00  9.99
ATOM    784  O   ALA   159      27.402   7.065  11.321  1.00  9.99
ATOM    785  CB  ALA   159      25.863   7.353  13.863  1.00  9.99
ATOM    786  N   VAL   160      25.553   5.906  10.797  1.00  9.99
ATOM    787  CA  VAL   160      26.252   5.093   9.813  1.00  9.99
ATOM    788  C   VAL   160      25.833   5.623   8.443  1.00  9.99
ATOM    789  O   VAL   160      24.661   5.603   8.098  1.00  9.99
ATOM    790  CB  VAL   160      25.867   3.616   9.956  1.00  9.99
ATOM    791  N   THR   161      26.795   6.121   7.678  1.00  9.99
ATOM    792  CA  THR   161      26.498   6.658   6.364  1.00  9.99
ATOM    793  C   THR   161      25.928   5.638   5.398  1.00  9.99
ATOM    794  O   THR   161      25.122   5.984   4.546  1.00  9.99
ATOM    795  CB  THR   161      27.781   7.284   5.793  1.00  9.99
ATOM    796  N   THR   162      26.347   4.384   5.525  1.00  9.99
ATOM    797  CA  THR   162      25.846   3.346   4.642  1.00  9.99
ATOM    798  C   THR   162      24.395   2.998   4.914  1.00  9.99
ATOM    799  O   THR   162      23.765   2.331   4.106  1.00  9.99
ATOM    800  CB  THR   162      26.714   2.089   4.737  1.00  9.99
ATOM    801  N   THR   163      23.860   3.450   6.044  1.00  9.99
ATOM    802  CA  THR   163      22.465   3.180   6.379  1.00  9.99
ATOM    803  C   THR   163      21.660   4.458   6.536  1.00  9.99
ATOM    804  O   THR   163      20.441   4.436   6.473  1.00  9.99
ATOM    805  CB  THR   163      22.360   2.349   7.664  1.00  9.99
ATOM    806  N   LEU   164      22.349   5.569   6.730  1.00  9.99
ATOM    807  CA  LEU   164      21.687   6.842   6.902  1.00  9.99
ATOM    808  C   LEU   164      21.276   7.483   5.579  1.00  9.99
ATOM    809  O   LEU   164      20.467   8.413   5.567  1.00  9.99
ATOM    810  CB  LEU   164      22.584   7.785   7.683  1.00  9.99
ATOM    811  N   LYS   165      21.822   7.003   4.468  1.00  9.99
ATOM    812  CA  LYS   165      21.465   7.567   3.170  1.00  9.99
ATOM    813  C   LYS   165      20.248   6.839   2.572  1.00  9.99
ATOM    814  O   LYS   165      19.749   7.182   1.498  1.00  9.99
ATOM    815  CB  LYS   165      22.667   7.530   2.216  1.00  9.99
ATOM    816  N   LEU   167      19.755   5.844   3.300  1.00  9.99
ATOM    817  CA  LEU   167      18.593   5.090   2.860  1.00  9.99
ATOM    818  C   LEU   167      17.327   5.891   3.149  1.00  9.99
ATOM    819  O   LEU   167      17.299   6.702   4.068  1.00  9.99
ATOM    820  CB  LEU   167      18.546   3.743   3.583  1.00  9.99
ATOM    821  N   THR   168      16.286   5.663   2.355  1.00  9.99
ATOM    822  CA  THR   168      15.011   6.354   2.533  1.00  9.99
ATOM    823  C   THR   168      14.544   6.169   3.973  1.00  9.99
ATOM    824  O   THR   168      14.823   5.146   4.589  1.00  9.99
ATOM    825  CB  THR   168      13.948   5.782   1.584  1.00  9.99
ATOM    826  N   PRO   169      13.839   7.167   4.528  1.00  9.99
ATOM    827  CA  PRO   169      13.310   7.150   5.895  1.00  9.99
ATOM    828  C   PRO   169      12.395   5.964   6.229  1.00  9.99
ATOM    829  O   PRO   169      12.582   5.314   7.247  1.00  9.99
ATOM    830  CB  PRO   169      12.579   8.479   5.988  1.00  9.99
TER
END
