
#######################################################
#                                                     #
#                        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   22 (  108),  selected   22 , name T0286TS261_1_2
# Molecule2: number of CA atoms  202 ( 1582),  selected  202 , name T0286.pdb
# PARAMETERS: T0286TS261_1_2.T0286.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      S       3           -
LGA    A       2      K       4           -
LGA    S       3      T       5           -
LGA    K       4      I       6           -
LGA    -       -      K       7           -
LGA    -       -      I       8           -
LGA    -       -      M       9           -
LGA    -       -      P      10           -
LGA    -       -      V      11           -
LGA    -       -      G      12           -
LGA    -       -      D      13           -
LGA    -       -      S      14           -
LGA    -       -      C      15           -
LGA    -       -      T      16           -
LGA    -       -      E      17           -
LGA    -       -      G      18           -
LGA    -       -      M      19           -
LGA    -       -      G      20           -
LGA    -       -      G      21           -
LGA    -       -      G      22           -
LGA    -       -      E      23           -
LGA    -       -      M      24           -
LGA    -       -      G      25           -
LGA    G      46      S      26          3.312
LGA    S      47      Y      27          2.221
LGA    Q      48      R      28          2.388
LGA    -       -      T      29           -
LGA    -       -      E      30           -
LGA    R      49      L      31          1.067
LGA    S      50      Y      32          1.318
LGA    G      51      R      33          3.451
LGA    P      52      L      34          3.257
LGA    S      53      L      35          3.632
LGA    -       -      T      36           -
LGA    -       -      Q      37           -
LGA    -       -      A      38           -
LGA    S      54      G      39          2.360
LGA    L      55      L      40          2.698
LGA    P      56      S      41          2.723
LGA    D      57      I      42          1.144
LGA    K      58      D      43          2.512
LGA    D      59      F      44          2.473
LGA    -       -      V      45           -
LGA    -       -      G      46           -
LGA    -       -      S      47           -
LGA    -       -      Q      48           -
LGA    -       -      R      49           -
LGA    -       -      S      50           -
LGA    -       -      G      51           -
LGA    -       -      P      52           -
LGA    -       -      S      53           -
LGA    -       -      S      54           -
LGA    -       -      L      55           -
LGA    -       -      P      56           -
LGA    -       -      D      57           -
LGA    -       -      K      58           -
LGA    -       -      D      59           -
LGA    -       -      H      60           -
LGA    -       -      E      61           -
LGA    -       -      G      62           -
LGA    -       -      H      63           -
LGA    -       -      S      64           -
LGA    -       -      G      65           -
LGA    -       -      W      66           -
LGA    -       -      T      67           -
LGA    -       -      I      68           -
LGA    -       -      P      69           -
LGA    -       -      Q      70           -
LGA    -       -      I      71           -
LGA    -       -      A      72           -
LGA    -       -      S      73           -
LGA    -       -      N      74           -
LGA    -       -      I      75           -
LGA    -       -      N      76           -
LGA    -       -      N      77           -
LGA    -       -      W      78           -
LGA    -       -      L      79           -
LGA    -       -      N      80           -
LGA    -       -      T      81           -
LGA    -       -      H      82           -
LGA    -       -      N      83           -
LGA    -       -      P      84           -
LGA    -       -      D      85           -
LGA    -       -      V      86           -
LGA    -       -      V      87           -
LGA    -       -      F      88           -
LGA    -       -      L      89           -
LGA    -       -      W      90           -
LGA    -       -      I      91           -
LGA    -       -      G      92           -
LGA    -       -      G      93           -
LGA    -       -      N      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    -       -      L      97           -
LGA    -       -      L      98           -
LGA    -       -      N      99           -
LGA    -       -      G     100           -
LGA    -       -      N     101           -
LGA    -       -      L     102           -
LGA    -       -      N     103           -
LGA    -       -      A     104           -
LGA    -       -      T     105           -
LGA    -       -      G     106           -
LGA    -       -      L     107           -
LGA    -       -      S     108           -
LGA    -       -      N     109           -
LGA    -       -      L     110           -
LGA    -       -      I     111           -
LGA    -       -      D     112           -
LGA    -       -      Q     113           -
LGA    -       -      I     114           -
LGA    -       -      F     115           -
LGA    -       -      T     116           -
LGA    -       -      V     117           -
LGA    -       -      K     118           -
LGA    -       -      P     119           -
LGA    -       -      N     120           -
LGA    -       -      V     121           -
LGA    -       -      T     122           -
LGA    -       -      L     123           -
LGA    -       -      F     124           -
LGA    -       -      V     125           -
LGA    -       -      A     126           -
LGA    -       -      D     127           -
LGA    -       -      Y     128           -
LGA    -       -      Y     129           -
LGA    -       -      P     130           -
LGA    -       -      W     131           -
LGA    -       -      P     132           -
LGA    -       -      E     133           -
LGA    -       -      A     134           -
LGA    -       -      I     135           -
LGA    -       -      K     136           -
LGA    -       -      Q     137           -
LGA    -       -      Y     138           -
LGA    -       -      N     139           -
LGA    -       -      A     140           -
LGA    -       -      V     141           -
LGA    -       -      I     142           -
LGA    -       -      P     143           -
LGA    -       -      G     144           -
LGA    -       -      I     145           -
LGA    -       -      V     146           -
LGA    -       -      Q     147           -
LGA    -       -      Q     148           -
LGA    -       -      K     149           -
LGA    -       -      A     150           -
LGA    -       -      N     151           -
LGA    -       -      A     152           -
LGA    -       -      G     153           -
LGA    -       -      K     154           -
LGA    -       -      K     155           -
LGA    -       -      V     156           -
LGA    -       -      Y     157           -
LGA    -       -      F     158           -
LGA    -       -      V     159           -
LGA    -       -      K     160           -
LGA    -       -      L     161           -
LGA    -       -      S     162           -
LGA    -       -      E     163           -
LGA    -       -      I     164           -
LGA    -       -      Q     165           -
LGA    -       -      F     166           -
LGA    -       -      D     167           -
LGA    -       -      R     168           -
LGA    -       -      N     169           -
LGA    -       -      T     170           -
LGA    -       -      D     171           -
LGA    -       -      I     172           -
LGA    -       -      S     173           -
LGA    -       -      W     174           -
LGA    K     155      D     175          4.623
LGA    R     200      G     176           -
LGA    A     201      L     177           -
LGA    L     202      H     178           -
LGA    -       -      L     179           -
LGA    -       -      S     180           -
LGA    -       -      E     181           -
LGA    -       -      I     182           -
LGA    -       -      G     183           -
LGA    -       -      Y     184           -
LGA    -       -      K     185           -
LGA    -       -      K     186           -
LGA    -       -      I     187           -
LGA    -       -      A     188           -
LGA    -       -      N     189           -
LGA    -       -      I     190           -
LGA    -       -      W     191           -
LGA    -       -      Y     192           -
LGA    -       -      K     193           -
LGA    -       -      Y     194           -
LGA    -       -      T     195           -
LGA    -       -      I     196           -
LGA    -       -      D     197           -
LGA    -       -      I     198           -
LGA    -       -      L     199           -
LGA    -       -      R     200           -
LGA    -       -      A     201           -
LGA    -       -      L     202           -
LGA    -       -      A     203           -
LGA    -       -      G     204           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   22  202    5.0     15    2.78     6.67      5.341     0.522

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.606181 * X  +  -0.759513 * Y  +  -0.235977 * Z  +  92.339409
  Y_new =  -0.415711 * X  +   0.049631 * Y  +   0.908141 * Z  +  85.559875
  Z_new =  -0.678033 * X  +   0.648596 * Y  +  -0.345823 * Z  +  11.479016 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.060640   -1.080953  [ DEG:   118.0660    -61.9340 ]
  Theta =   0.745084    2.396509  [ DEG:    42.6902    137.3098 ]
  Phi   =  -2.540469    0.601124  [ DEG:  -145.5582     34.4419 ]
 
# 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: T0286TS261_1_2                                
REMARK     2: T0286.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0286TS261_1_2.T0286.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   22  202   5.0   15   2.78    6.67   5.341
REMARK  ---------------------------------------------------------- 
MOLECULE T0286TS261_1_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0286
PARENT 1mum_A
ATOM    898  N   MET     1      41.798 -23.359 -22.791  1.00  4.88
ATOM    899  CA  MET     1      41.745 -23.145 -24.236  1.00  4.88
ATOM    900  C   MET     1      42.464 -21.903 -24.768  1.00  4.88
ATOM    901  O   MET     1      42.854 -21.863 -25.938  1.00  4.88
ATOM    902  CB  MET     1      40.265 -23.115 -24.730  1.00  4.88
ATOM    903  N   ALA     2      42.636 -20.895 -23.918  1.00  4.62
ATOM    904  CA  ALA     2      43.289 -19.650 -24.327  1.00  4.62
ATOM    905  C   ALA     2      44.650 -19.495 -23.652  1.00  4.62
ATOM    906  O   ALA     2      44.752 -19.593 -22.431  1.00  4.62
ATOM    907  CB  ALA     2      42.397 -18.455 -23.976  1.00  4.62
ATOM    908  N   SER     3      45.685 -19.230 -24.449  1.00  4.90
ATOM    909  CA  SER     3      47.043 -19.093 -23.922  1.00  4.90
ATOM    910  C   SER     3      47.408 -17.718 -23.358  1.00  4.90
ATOM    911  O   SER     3      48.472 -17.557 -22.762  1.00  4.90
ATOM    912  CB  SER     3      48.062 -19.477 -25.001  1.00  4.90
ATOM    913  N   LYS     4      46.544 -16.725 -23.541  1.00  5.09
ATOM    914  CA  LYS     4      46.841 -15.393 -23.017  1.00  5.09
ATOM    915  C   LYS     4      46.894 -15.396 -21.491  1.00  5.09
ATOM    916  O   LYS     4      46.125 -16.103 -20.840  1.00  5.09
ATOM    917  CB  LYS     4      45.789 -14.382 -23.479  1.00  5.09
ATOM    918  N   GLY    46      42.169  -7.168  -2.423  1.00  6.35
ATOM    919  CA  GLY    46      41.877  -5.820  -1.936  1.00  6.35
ATOM    920  C   GLY    46      41.761  -5.698  -0.425  1.00  6.35
ATOM    921  O   GLY    46      41.731  -6.702   0.283  1.00  6.35
ATOM    922  N   SER    47      41.694  -4.456   0.060  1.00  5.51
ATOM    923  CA  SER    47      41.613  -4.203   1.493  1.00  5.51
ATOM    924  C   SER    47      40.211  -4.060   2.069  1.00  5.51
ATOM    925  O   SER    47      40.048  -3.521   3.162  1.00  5.51
ATOM    926  CB  SER    47      42.451  -2.967   1.875  1.00  5.51
ATOM    927  N   GLN    48      39.200  -4.541   1.350  1.00  4.04
ATOM    928  CA  GLN    48      37.835  -4.458   1.856  1.00  4.04
ATOM    929  C   GLN    48      37.614  -5.408   3.026  1.00  4.04
ATOM    930  O   GLN    48      38.321  -6.412   3.172  1.00  4.04
ATOM    931  CB  GLN    48      36.819  -4.748   0.747  1.00  4.04
ATOM    932  N   ARG    49      36.634  -5.083   3.862  1.00  5.45
ATOM    933  CA  ARG    49      36.328  -5.892   5.038  1.00  5.45
ATOM    934  C   ARG    49      35.408  -7.068   4.742  1.00  5.45
ATOM    935  O   ARG    49      35.559  -8.139   5.327  1.00  5.45
ATOM    936  CB  ARG    49      35.646  -5.046   6.140  1.00  5.45
ATOM    937  N   SER    50      34.462  -6.867   3.831  1.00  4.76
ATOM    938  CA  SER    50      33.505  -7.914   3.526  1.00  4.76
ATOM    939  C   SER    50      32.453  -7.869   4.624  1.00  4.76
ATOM    940  O   SER    50      32.214  -6.810   5.207  1.00  4.76
ATOM    941  CB  SER    50      34.207  -9.280   3.443  1.00  4.76
ATOM    942  N   GLY    51      31.825  -9.000   4.918  1.00  5.79
ATOM    943  CA  GLY    51      30.806  -9.044   5.964  1.00  5.79
ATOM    944  C   GLY    51      31.460  -9.326   7.316  1.00  5.79
ATOM    945  O   GLY    51      32.191 -10.298   7.467  1.00  5.79
ATOM    946  N   PRO    52      31.197  -8.465   8.291  1.00  5.28
ATOM    947  CA  PRO    52      31.759  -8.611   9.631  1.00  5.28
ATOM    948  C   PRO    52      30.698  -9.212  10.543  1.00  5.28
ATOM    949  O   PRO    52      31.000  -9.710  11.626  1.00  5.28
ATOM    950  CB  PRO    52      32.184  -7.234  10.160  1.00  5.28
ATOM    951  N   SER    53      29.455  -9.177  10.081  1.00  5.80
ATOM    952  CA  SER    53      28.327  -9.679  10.852  1.00  5.80
ATOM    953  C   SER    53      27.296 -10.308   9.918  1.00  5.80
ATOM    954  O   SER    53      27.209  -9.943   8.747  1.00  5.80
ATOM    955  CB  SER    53      27.711  -8.506  11.619  1.00  5.80
ATOM    956  N   SER    54      26.511 -11.249  10.435  1.00  5.21
ATOM    957  CA  SER    54      25.496 -11.914   9.625  1.00  5.21
ATOM    958  C   SER    54      24.559 -10.897   8.959  1.00  5.21
ATOM    959  O   SER    54      24.225 -11.027   7.778  1.00  5.21
ATOM    960  CB  SER    54      24.688 -12.894  10.487  1.00  5.21
ATOM    961  N   LEU    55      24.150  -9.877   9.711  1.00  4.97
ATOM    962  CA  LEU    55      23.257  -8.872   9.158  1.00  4.97
ATOM    963  C   LEU    55      23.951  -7.673   8.535  1.00  4.97
ATOM    964  O   LEU    55      23.305  -6.663   8.238  1.00  4.97
ATOM    965  CB  LEU    55      22.301  -8.415  10.273  1.00  4.97
ATOM    966  N   PRO    56      25.261  -7.780   8.326  1.00  6.07
ATOM    967  CA  PRO    56      26.045  -6.691   7.742  1.00  6.07
ATOM    968  C   PRO    56      25.598  -6.382   6.312  1.00  6.07
ATOM    969  O   PRO    56      25.707  -7.227   5.423  1.00  6.07
ATOM    970  CB  PRO    56      27.530  -7.067   7.742  1.00  6.07
ATOM    971  N   ASP    57      25.097  -5.170   6.093  1.00  5.76
ATOM    972  CA  ASP    57      24.641  -4.760   4.769  1.00  5.76
ATOM    973  C   ASP    57      25.814  -4.674   3.799  1.00  5.76
ATOM    974  O   ASP    57      26.967  -4.588   4.219  1.00  5.76
ATOM    975  CB  ASP    57      23.964  -3.384   4.836  1.00  5.76
ATOM    976  N   LYS    58      25.534  -4.708   2.486  1.00  5.65
ATOM    977  CA  LYS    58      26.611  -4.616   1.495  1.00  5.65
ATOM    978  C   LYS    58      27.366  -3.320   1.801  1.00  5.65
ATOM    979  O   LYS    58      26.739  -2.281   2.023  1.00  5.65
ATOM    980  CB  LYS    58      25.850  -4.551   0.178  1.00  5.65
ATOM    981  N   ASP    59      28.695  -3.362   1.811  1.00  5.12
ATOM    982  CA  ASP    59      29.453  -2.166   2.167  1.00  5.12
ATOM    983  C   ASP    59      30.810  -2.010   1.491  1.00  5.12
ATOM    984  O   ASP    59      31.327  -2.946   0.877  1.00  5.12
ATOM    985  CB  ASP    59      29.651  -2.145   3.679  1.00  5.12
ATOM    986  N   LYS   155      51.173   0.396 -12.130  1.00  4.96
ATOM    987  CA  LYS   155      49.868   0.856 -11.668  1.00  4.96
ATOM    988  C   LYS   155      48.782   0.429 -12.659  1.00  4.96
ATOM    989  O   LYS   155      48.945   0.571 -13.875  1.00  4.96
ATOM    990  CB  LYS   155      49.828   2.408 -11.554  1.00  4.96
ATOM    991  N   ARG   200       8.248 -10.791 -28.371  1.00  5.20
ATOM    992  CA  ARG   200       7.281  -9.861 -28.951  1.00  5.20
ATOM    993  C   ARG   200       6.746 -10.300 -30.317  1.00  5.20
ATOM    994  O   ARG   200       5.535 -10.268 -30.561  1.00  5.20
ATOM    995  CB  ARG   200       7.915  -8.472 -29.107  1.00  5.20
ATOM    996  N   ALA   201       7.642 -10.726 -31.202  1.00  3.50
ATOM    997  CA  ALA   201       7.236 -11.082 -32.559  1.00  3.50
ATOM    998  C   ALA   201       7.099 -12.553 -32.926  1.00  3.50
ATOM    999  O   ALA   201       6.647 -12.865 -34.027  1.00  3.50
ATOM   1000  CB  ALA   201       8.177 -10.397 -33.549  1.00  3.50
ATOM   1001  N   LEU   202       7.479 -13.454 -32.028  1.00  4.20
ATOM   1002  CA  LEU   202       7.362 -14.873 -32.328  1.00  4.20
ATOM   1003  C   LEU   202       8.314 -15.362 -33.408  1.00  4.20
ATOM   1004  O   LEU   202       8.051 -16.371 -34.066  1.00  4.20
ATOM   1005  CB  LEU   202       5.905 -15.165 -32.723  1.00  4.20
TER
END
