
#######################################################
#                                                     #
#                        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   11 (   78),  selected   11 , name T0385TS009_2_2
# Molecule2: number of CA atoms  142 ( 1050),  selected  142 , name T0385.pdb
# PARAMETERS: T0385TS009_2_2.T0385.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      S      17           -
LGA    -       -      E      18           -
LGA    -       -      G      19           -
LGA    -       -      S      20           -
LGA    -       -      A      21           -
LGA    -       -      D      22           -
LGA    -       -      N      23           -
LGA    -       -      A      24           -
LGA    -       -      A      25           -
LGA    -       -      L      26           -
LGA    -       -      C      27           -
LGA    -       -      D      28           -
LGA    -       -      A      29           -
LGA    -       -      L      30           -
LGA    -       -      A      31           -
LGA    -       -      V      32           -
LGA    -       -      E      33           -
LGA    -       -      H      34           -
LGA    -       -      A      35           -
LGA    -       -      T      36           -
LGA    -       -      I      37           -
LGA    -       -      Y      38           -
LGA    -       -      G      39           -
LGA    -       -      Y      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      V      43           -
LGA    -       -      S      44           -
LGA    -       -      A      45           -
LGA    -       -      L      46           -
LGA    -       -      S      47           -
LGA    -       -      P      48           -
LGA    -       -      P      49           -
LGA    -       -      G      50           -
LGA    -       -      V      51           -
LGA    -       -      N      52           -
LGA    -       -      F      53           -
LGA    -       -      L      54           -
LGA    -       -      V      55           -
LGA    -       -      A      56           -
LGA    -       -      D      57           -
LGA    -       -      A      58           -
LGA    -       -      L      59           -
LGA    -       -      K      60           -
LGA    -       -      Q      61           -
LGA    -       -      H      62           -
LGA    -       -      R      63           -
LGA    -       -      H      64           -
LGA    -       -      R      65           -
LGA    -       -      R      66           -
LGA    -       -      D      67           -
LGA    -       -      D      68           -
LGA    -       -      V      69           -
LGA    -       -      I      70           -
LGA    -       -      V      71           -
LGA    -       -      M      72           -
LGA    -       -      L      73           -
LGA    -       -      S      74           -
LGA    -       -      A      75           -
LGA    -       -      R      76           -
LGA    -       -      G      77           -
LGA    -       -      V      78           -
LGA    -       -      T      79           -
LGA    -       -      A      80           -
LGA    -       -      P      81           -
LGA    -       -      I      82           -
LGA    -       -      A      83           -
LGA    -       -      A      84           -
LGA    -       -      A      85           -
LGA    -       -      G      86           -
LGA    -       -      Y      87           -
LGA    -       -      Q      88           -
LGA    -       -      L      89           -
LGA    -       -      P      90           -
LGA    -       -      M      91           -
LGA    -       -      Q      92           -
LGA    -       -      V      93           -
LGA    -       -      S      94           -
LGA    -       -      S      95           -
LGA    -       -      A      96           -
LGA    -       -      A      97           -
LGA    -       -      D      98           -
LGA    -       -      A      99           -
LGA    -       -      A     100           -
LGA    -       -      R     101           -
LGA    -       -      L     102           -
LGA    -       -      A     103           -
LGA    -       -      V     104           -
LGA    -       -      R     105           -
LGA    -       -      M     106           -
LGA    -       -      E     107           -
LGA    -       -      N     108           -
LGA    -       -      D     109           -
LGA    A      96      G     110          2.366
LGA    A      97      A     111          1.774
LGA    -       -      T     112           -
LGA    -       -      A     113           -
LGA    D      98      W     114          2.252
LGA    A      99      R     115          0.706
LGA    A     100      A     116          0.915
LGA    R     101      V     117          1.906
LGA    L     102      V     118          0.883
LGA    A     103      E     119          1.006
LGA    V     104      H     120          0.768
LGA    R     105      A     121          2.004
LGA    -       -      E     122           -
LGA    -       -      T     123           -
LGA    -       -      A     124           -
LGA    -       -      D     125           -
LGA    M     106      D     126          3.057
LGA    -       -      R     127           -
LGA    -       -      V     128           -
LGA    -       -      F     129           -
LGA    -       -      A     130           -
LGA    -       -      S     131           -
LGA    -       -      T     132           -
LGA    -       -      A     133           -
LGA    -       -      L     134           -
LGA    -       -      T     135           -
LGA    -       -      E     136           -
LGA    -       -      S     137           -
LGA    -       -      A     138           -
LGA    -       -      V     139           -
LGA    -       -      M     140           -
LGA    -       -      A     141           -
LGA    -       -      T     142           -
LGA    -       -      R     143           -
LGA    -       -      W     144           -
LGA    -       -      N     145           -
LGA    -       -      R     146           -
LGA    -       -      V     147           -
LGA    -       -      L     148           -
LGA    -       -      G     149           -
LGA    -       -      A     150           -
LGA    -       -      W     151           -
LGA    -       -      P     152           -
LGA    -       -      I     153           -
LGA    -       -      T     154           -
LGA    -       -      A     155           -
LGA    -       -      A     156           -
LGA    -       -      F     157           -
LGA    -       -      P     158           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   11  142    5.0     11    1.77    18.18      7.070     0.588

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.400280 * X  +   0.495680 * Y  +   0.770764 * Z  +  93.024132
  Y_new =  -0.888162 * X  +  -0.417004 * Y  +  -0.193071 * Z  +  -4.569131
  Z_new =   0.225711 * X  +  -0.761846 * Y  +   0.607162 * Z  +  38.576015 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.897911    2.243682  [ DEG:   -51.4465    128.5535 ]
  Theta =  -0.227673   -2.913920  [ DEG:   -13.0447   -166.9553 ]
  Phi   =  -1.994218    1.147374  [ DEG:  -114.2603     65.7397 ]
 
# 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: T0385TS009_2_2                                
REMARK     2: T0385.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0385TS009_2_2.T0385.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   11  142   5.0   11   1.77   18.18   7.070
REMARK  ---------------------------------------------------------- 
MOLECULE T0385TS009_2_2
REMARK PARENT number 2
PFRMAT TS                                                                       
TARGET T0385                                                                    
PARENT N/A                                                                      
ATOM    690  N   ALA    96      20.765  16.663  28.339  1.00  0.00              
ATOM    691  CA  ALA    96      21.350  16.515  27.011  1.00  0.00              
ATOM    692  C   ALA    96      22.533  17.458  26.822  1.00  0.00              
ATOM    693  O   ALA    96      23.658  17.019  26.584  1.00  0.00              
ATOM    694  CB  ALA    96      21.784  15.076  26.781  1.00  0.00              
ATOM    695  N   ALA    97      22.271  18.756  26.929  1.00  0.00              
ATOM    696  CA  ALA    97      23.314  19.764  26.769  1.00  0.00              
ATOM    697  C   ALA    97      23.948  20.117  28.111  1.00  0.00              
ATOM    698  O   ALA    97      24.467  19.248  28.810  1.00  0.00              
ATOM    699  CB  ALA    97      24.377  19.277  25.798  1.00  0.00              
ATOM    700  N   ASP    98      23.903  21.398  28.462  1.00  0.00              
ATOM    701  CA  ASP    98      24.473  21.869  29.718  1.00  0.00              
ATOM    702  C   ASP    98      23.421  21.903  30.823  1.00  0.00              
ATOM    703  O   ASP    98      23.734  21.706  31.997  1.00  0.00              
ATOM    704  CB  ASP    98      25.647  20.984  30.139  1.00  0.00              
ATOM    705  CG  ASP    98      26.992  21.602  29.808  1.00  0.00              
ATOM    706  OD1 ASP    98      27.913  21.507  30.646  1.00  0.00              
ATOM    707  OD2 ASP    98      27.124  22.183  28.710  1.00  0.00              
ATOM    708  N   ALA    99      22.175  22.155  30.437  1.00  0.00              
ATOM    709  CA  ALA    99      21.075  22.216  31.393  1.00  0.00              
ATOM    710  C   ALA    99      21.469  21.590  32.727  1.00  0.00              
ATOM    711  O   ALA    99      21.804  22.295  33.679  1.00  0.00              
ATOM    712  CB  ALA    99      20.631  23.655  31.600  1.00  0.00              
ATOM    713  N   ALA   100      21.426  20.263  32.789  1.00  0.00              
ATOM    714  CA  ALA   100      21.777  19.541  34.005  1.00  0.00              
ATOM    715  C   ALA   100      23.186  19.896  34.469  1.00  0.00              
ATOM    716  O   ALA   100      23.473  19.902  35.666  1.00  0.00              
ATOM    717  CB  ALA   100      20.772  19.836  35.107  1.00  0.00              
ATOM    718  N   ARG   101      24.062  20.189  33.514  1.00  0.00              
ATOM    719  CA  ARG   101      25.442  20.545  33.822  1.00  0.00              
ATOM    720  C   ARG   101      25.505  21.704  34.811  1.00  0.00              
ATOM    721  O   ARG   101      25.497  21.498  36.026  1.00  0.00              
ATOM    722  CB  ARG   101      26.195  19.336  34.381  1.00  0.00              
ATOM    723  CG  ARG   101      27.295  18.815  33.470  1.00  0.00              
ATOM    724  CD  ARG   101      27.586  17.348  33.740  1.00  0.00              
ATOM    725  NE  ARG   101      28.802  16.899  33.067  1.00  0.00              
ATOM    726  CZ  ARG   101      30.016  17.375  33.322  1.00  0.00              
ATOM    727  NH1 ARG   101      30.180  18.318  34.240  1.00  0.00              
ATOM    728  NH2 ARG   101      31.065  16.905  32.660  1.00  0.00              
ATOM    729  N   LEU   102      25.566  22.923  34.284  1.00  0.00              
ATOM    730  CA  LEU   102      25.630  24.116  35.119  1.00  0.00              
ATOM    731  C   LEU   102      24.636  24.035  36.273  1.00  0.00              
ATOM    732  O   LEU   102      24.741  24.780  37.248  1.00  0.00              
ATOM    733  CB  LEU   102      27.048  24.318  35.658  1.00  0.00              
ATOM    734  CG  LEU   102      27.675  25.693  35.420  1.00  0.00              
ATOM    735  CD1 LEU   102      29.003  25.812  36.149  1.00  0.00              
ATOM    736  CD2 LEU   102      26.722  26.799  35.846  1.00  0.00              
ATOM    737  N   ALA   103      23.673  23.128  36.155  1.00  0.00              
ATOM    738  CA  ALA   103      22.659  22.949  37.188  1.00  0.00              
ATOM    739  C   ALA   103      23.297  22.749  38.559  1.00  0.00              
ATOM    740  O   ALA   103      23.792  23.697  39.168  1.00  0.00              
ATOM    741  CB  ALA   103      21.716  24.142  37.218  1.00  0.00              
ATOM    742  N   VAL   104      23.281  21.509  39.038  1.00  0.00              
ATOM    743  CA  VAL   104      23.872  21.176  40.366  1.00  0.00              
ATOM    744  C   VAL   104      25.345  20.803  40.237  1.00  0.00              
ATOM    745  O   VAL   104      26.190  21.313  40.971  1.00  0.00              
ATOM    746  CB  VAL   104      23.733  22.347  41.356  1.00  0.00              
ATOM    747  CG1 VAL   104      22.974  21.909  42.598  1.00  0.00              
ATOM    748  CG2 VAL   104      23.042  23.529  40.690  1.00  0.00              
ATOM    749  N   ARG   105      25.644  19.910  39.300  1.00  0.00              
ATOM    750  CA  ARG   105      27.015  19.467  39.072  1.00  0.00              
ATOM    751  C   ARG   105      27.995  20.630  39.187  1.00  0.00              
ATOM    752  O   ARG   105      28.332  21.064  40.288  1.00  0.00              
ATOM    753  CB  ARG   105      27.391  18.363  40.062  1.00  0.00              
ATOM    754  CG  ARG   105      27.806  17.056  39.405  1.00  0.00              
ATOM    755  CD  ARG   105      27.597  15.876  40.341  1.00  0.00              
ATOM    756  NE  ARG   105      28.373  14.709  39.931  1.00  0.00              
ATOM    757  CZ  ARG   105      29.585  14.419  40.392  1.00  0.00              
ATOM    758  NH1 ARG   105      30.163  15.213  41.282  1.00  0.00              
ATOM    759  NH2 ARG   105      30.216  13.335  39.963  1.00  0.00              
ATOM    760  N   MET   106      28.450  21.128  38.042  1.00  0.00              
ATOM    761  CA  MET   106      29.393  22.240  38.010  1.00  0.00              
ATOM    762  C   MET   106      28.668  23.579  38.092  1.00  0.00              
ATOM    763  O   MET   106      28.805  24.312  39.071  1.00  0.00              
ATOM    764  CB  MET   106      30.403  22.118  39.154  1.00  0.00              
ATOM    765  CG  MET   106      31.833  21.884  38.695  1.00  0.00              
ATOM    766  SD  MET   106      33.008  21.863  40.063  1.00  0.00              
ATOM    767  CE  MET   106      34.560  21.780  39.174  1.00  0.00              
TER
END
