
#######################################################
#                                                     #
#                        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   25 (  124),  selected   25 , name T0386TS239_2-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS239_2-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     219      N     219          4.111
LGA    P     220      P     220          2.830
LGA    E     221      E     221          2.764
LGA    K     222      K     222          2.028
LGA    I     223      I     223          1.229
LGA    R     224      R     224          2.337
LGA    L     225      L     225          4.773
LGA    -       -      L     226           -
LGA    -       -      K     227           -
LGA    -       -      E     228           -
LGA    -       -      F     229           -
LGA    -       -      M     230           -
LGA    -       -      H     231           -
LGA    -       -      T     232           -
LGA    -       -      M     233           -
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    -       -      T     236           -
LGA    -       -      G     237           -
LGA    -       -      R     238           -
LGA    -       -      N     239           -
LGA    -       -      V     240           -
LGA    -       -      N     241           -
LGA    -       -      D     242           -
LGA    -       -      R     243           -
LGA    -       -      P     244           -
LGA    -       -      V     245           -
LGA    -       -      M     246           -
LGA    -       -      V     247           -
LGA    -       -      A     248           -
LGA    -       -      K     249           -
LGA    -       -      E     250           -
LGA    -       -      G     251           -
LGA    -       -      E     252           -
LGA    -       -      T     253           -
LGA    -       -      Y     254           -
LGA    -       -      T     255           -
LGA    -       -      G     256           -
LGA    -       -      T     257           -
LGA    -       -      Y     258           -
LGA    -       -      R     259           -
LGA    -       -      G     260           -
LGA    -       -      A     261           -
LGA    -       -      G     262           -
LGA    -       -      L     263           -
LGA    -       -      E     264           -
LGA    -       -      G     265           -
LGA    -       -      F     266           -
LGA    -       -      A     267           -
LGA    -       -      L     268           -
LGA    -       -      N     269           -
LGA    -       -      V     270           -
LGA    -       -      K     271           -
LGA    -       -      G     272           -
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    L     226      I     275          5.401
LGA    K     227      I     276          1.756
LGA    E     228      G     277          3.071
LGA    F     229      N     278          2.771
LGA    M     230      -       -           -
LGA    H     231      I     279          3.336
LGA    T     232      D     280          2.840
LGA    M     233      H     281          2.999
LGA    K     234      L     282          3.019
LGA    N     235      P     283           #
LGA    T     236      P     284          1.622
LGA    G     237      -       -           -
LGA    R     238      E     285          2.257
LGA    N     239      Q     286          5.235
LGA    V     240      L     287           -
LGA    N     241      K     288           -
LGA    D     242      I     289           -
LGA    R     243      L     290           -
LGA    -       -      K     291           -
LGA    -       -      P     292           -
LGA    -       -      G     293           -
LGA    -       -      D     294           -
LGA    -       -      K     295           -
LGA    -       -      I     296           -
LGA    -       -      T     297           -
LGA    -       -      F     298           -
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   25   81    5.0     18    3.23    38.89     14.468     0.540

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.428396 * X  +   0.902444 * Y  +  -0.045519 * Z  +  12.345787
  Y_new =   0.445058 * X  +   0.254577 * Y  +   0.858553 * Z  +   0.920448
  Z_new =   0.786384 * X  +   0.347543 * Y  +  -0.510700 * Z  +  93.698746 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.544059   -0.597534  [ DEG:   145.7638    -34.2362 ]
  Theta =  -0.904934   -2.236659  [ DEG:   -51.8489   -128.1511 ]
  Phi   =   2.337121   -0.804471  [ DEG:   133.9072    -46.0928 ]
 
# 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: T0386TS239_2-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS239_2-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   25   81   5.0   18   3.23   38.89  14.468
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS239_2-D2
PFRMAT TS
TARGET T0386
MODEL 2
PARENT 1gz5_A
ATOM    991  N   ASN   219       1.796  57.968  71.662  1.00  9.99
ATOM    992  CA  ASN   219       3.009  58.758  71.659  1.00  9.99
ATOM    993  C   ASN   219       2.968  59.687  72.822  1.00  9.99
ATOM    994  O   ASN   219       3.954  59.850  73.506  1.00  9.99
ATOM    995  CB  ASN   219       3.208  59.534  70.364  1.00  9.99
ATOM    996  N   PRO   220       1.814  60.240  73.106  1.00  9.99
ATOM    997  CA  PRO   220       1.764  61.165  74.212  1.00  9.99
ATOM    998  C   PRO   220       2.065  60.448  75.547  1.00  9.99
ATOM    999  O   PRO   220       2.868  60.929  76.364  1.00  9.99
ATOM   1000  CB  PRO   220       0.479  62.030  74.169  1.00  9.99
ATOM   1001  N   GLU   221       1.468  59.288  75.747  1.00  9.99
ATOM   1002  CA  GLU   221       1.746  58.484  76.953  1.00  9.99
ATOM   1003  C   GLU   221       3.230  58.136  77.150  1.00  9.99
ATOM   1004  O   GLU   221       3.732  58.178  78.275  1.00  9.99
ATOM   1005  CB  GLU   221       0.980  57.160  76.943  1.00  9.99
ATOM   1006  N   LYS   222       3.928  57.815  76.073  1.00  9.99
ATOM   1007  CA  LYS   222       5.348  57.499  76.200  1.00  9.99
ATOM   1008  C   LYS   222       6.282  58.721  76.263  1.00  9.99
ATOM   1009  O   LYS   222       7.389  58.607  76.761  1.00  9.99
ATOM   1010  CB  LYS   222       5.830  56.465  75.116  1.00  9.99
ATOM   1011  N   ILE   223       5.825  59.876  75.761  1.00  9.99
ATOM   1012  CA  ILE   223       6.544  61.111  75.919  1.00  9.99
ATOM   1013  C   ILE   223       6.436  61.566  77.375  1.00  9.99
ATOM   1014  O   ILE   223       7.432  62.026  77.961  1.00  9.99
ATOM   1015  CB  ILE   223       6.044  62.218  74.915  1.00  9.99
ATOM   1016  N   ARG   224       5.247  61.440  77.965  1.00  9.99
ATOM   1017  CA  ARG   224       5.068  61.892  79.343  1.00  9.99
ATOM   1018  C   ARG   224       5.827  60.971  80.258  1.00  9.99
ATOM   1019  O   ARG   224       6.347  61.416  81.264  1.00  9.99
ATOM   1020  CB  ARG   224       3.600  61.978  79.799  1.00  9.99
ATOM   1021  N   LEU   225       5.911  59.697  79.903  1.00  9.99
ATOM   1022  CA  LEU   225       6.641  58.742  80.709  1.00  9.99
ATOM   1023  C   LEU   225       7.917  58.186  80.029  1.00  9.99
ATOM   1024  O   LEU   225       8.091  56.983  79.833  1.00  9.99
ATOM   1025  CB  LEU   225       5.721  57.644  81.211  1.00  9.99
ATOM   1026  N   LEU   226      12.029  57.694  79.629  1.00  9.99
ATOM   1027  CA  LEU   226      13.096  57.153  80.482  1.00  9.99
ATOM   1028  C   LEU   226      13.627  58.216  81.477  1.00  9.99
ATOM   1029  O   LEU   226      14.009  57.915  82.614  1.00  9.99
ATOM   1030  CB  LEU   226      14.284  56.508  79.649  1.00  9.99
ATOM   1031  N   LYS   227      13.646  59.471  81.064  1.00  9.99
ATOM   1032  CA  LYS   227      14.050  60.532  82.004  1.00  9.99
ATOM   1033  C   LYS   227      13.112  60.696  83.208  1.00  9.99
ATOM   1034  O   LYS   227      13.560  60.865  84.336  1.00  9.99
ATOM   1035  CB  LYS   227      14.226  61.875  81.318  1.00  9.99
ATOM   1036  N   GLU   228      11.812  60.606  82.966  1.00  9.99
ATOM   1037  CA  GLU   228      10.819  60.503  84.056  1.00  9.99
ATOM   1038  C   GLU   228      11.004  59.300  85.013  1.00  9.99
ATOM   1039  O   GLU   228      10.945  59.488  86.241  1.00  9.99
ATOM   1040  CB  GLU   228       9.403  60.512  83.483  1.00  9.99
ATOM   1041  N   PHE   229      11.230  58.109  84.445  1.00  9.99
ATOM   1042  CA  PHE   229      11.496  56.875  85.200  1.00  9.99
ATOM   1043  C   PHE   229      12.613  57.096  86.229  1.00  9.99
ATOM   1044  O   PHE   229      12.423  57.004  87.434  1.00  9.99
ATOM   1045  CB  PHE   229      11.903  55.778  84.219  1.00  9.99
ATOM   1046  N   MET   230      13.765  57.448  85.702  1.00  9.99
ATOM   1047  CA  MET   230      14.978  57.749  86.422  1.00  9.99
ATOM   1048  C   MET   230      14.767  58.824  87.509  1.00  9.99
ATOM   1049  O   MET   230      15.162  58.675  88.662  1.00  9.99
ATOM   1050  CB  MET   230      15.928  58.258  85.324  1.00  9.99
ATOM   1051  N   HIS   231      14.132  59.912  87.125  1.00  9.99
ATOM   1052  CA  HIS   231      13.809  60.982  88.062  1.00  9.99
ATOM   1053  C   HIS   231      12.946  60.556  89.246  1.00  9.99
ATOM   1054  O   HIS   231      13.260  60.881  90.393  1.00  9.99
ATOM   1055  CB  HIS   231      13.070  62.091  87.339  1.00  9.99
ATOM   1056  N   THR   232      11.854  59.838  88.953  1.00  9.99
ATOM   1057  CA  THR   232      10.908  59.368  89.984  1.00  9.99
ATOM   1058  C   THR   232      11.552  58.402  90.942  1.00  9.99
ATOM   1059  O   THR   232      11.387  58.540  92.169  1.00  9.99
ATOM   1060  CB  THR   232       9.671  58.730  89.361  1.00  9.99
ATOM   1061  N   MET   233      12.320  57.467  90.387  1.00  9.99
ATOM   1062  CA  MET   233      12.995  56.493  91.221  1.00  9.99
ATOM   1063  C   MET   233      14.040  57.141  92.150  1.00  9.99
ATOM   1064  O   MET   233      14.032  56.918  93.358  1.00  9.99
ATOM   1065  CB  MET   233      13.614  55.368  90.393  1.00  9.99
ATOM   1066  N   LYS   234      14.930  57.941  91.576  1.00  9.99
ATOM   1067  CA  LYS   234      15.991  58.555  92.344  1.00  9.99
ATOM   1068  C   LYS   234      15.376  59.494  93.396  1.00  9.99
ATOM   1069  O   LYS   234      15.790  59.508  94.556  1.00  9.99
ATOM   1070  CB  LYS   234      16.978  59.343  91.420  1.00  9.99
ATOM   1071  N   ASN   235      14.383  60.273  92.987  1.00  9.99
ATOM   1072  CA  ASN   235      13.721  61.178  93.924  1.00  9.99
ATOM   1073  C   ASN   235      13.064  60.434  95.077  1.00  9.99
ATOM   1074  O   ASN   235      13.198  60.852  96.210  1.00  9.99
ATOM   1075  CB  ASN   235      12.720  62.075  93.192  1.00  9.99
ATOM   1076  N   THR   236      12.380  59.315  94.776  1.00  9.99
ATOM   1077  CA  THR   236      11.764  58.489  95.815  1.00  9.99
ATOM   1078  C   THR   236      12.815  57.905  96.750  1.00  9.99
ATOM   1079  O   THR   236      12.636  57.920  97.961  1.00  9.99
ATOM   1080  CB  THR   236      10.910  57.381  95.204  1.00  9.99
ATOM   1081  N   GLY   237      13.908  57.403  96.177  1.00  9.99
ATOM   1082  CA  GLY   237      15.038  56.886  96.953  1.00  9.99
ATOM   1083  C   GLY   237      15.702  57.959  97.858  1.00  9.99
ATOM   1084  O   GLY   237      15.998  57.715  99.030  1.00  9.99
ATOM   1085  N   ARG   238      15.933  59.145  97.302  1.00  9.99
ATOM   1086  CA  ARG   238      16.620  60.208  98.023  1.00  9.99
ATOM   1087  C   ARG   238      15.762  60.662  99.172  1.00  9.99
ATOM   1088  O   ARG   238      16.263  61.227 100.113  1.00  9.99
ATOM   1089  CB  ARG   238      16.902  61.396  97.110  1.00  9.99
ATOM   1090  N   ASN   239      14.461  60.387  99.083  1.00  9.99
ATOM   1091  CA  ASN   239      13.478  60.825 100.087  1.00  9.99
ATOM   1092  C   ASN   239      13.450  59.941 101.343  1.00  9.99
ATOM   1093  O   ASN   239      12.901  60.352 102.365  1.00  9.99
ATOM   1094  CB  ASN   239      12.085  60.859  99.456  1.00  9.99
ATOM   1095  N   VAL   240      14.000  58.717 101.267  1.00  9.99
ATOM   1096  CA  VAL   240      13.977  57.881 102.468  1.00  9.99
ATOM   1097  C   VAL   240      15.205  58.121 103.365  1.00  9.99
ATOM   1098  O   VAL   240      16.318  58.401 102.869  1.00  9.99
ATOM   1099  CB  VAL   240      13.583  56.365 102.196  1.00  9.99
ATOM   1100  N   ASN   241      14.993  58.072 104.681  1.00  9.99
ATOM   1101  CA  ASN   241      16.109  58.177 105.602  1.00  9.99
ATOM   1102  C   ASN   241      16.769  56.812 105.753  1.00  9.99
ATOM   1103  O   ASN   241      16.091  55.827 106.023  1.00  9.99
ATOM   1104  CB  ASN   241      15.689  58.757 107.001  1.00  9.99
ATOM   1105  N   ASP   242      18.094  56.757 105.614  1.00  9.99
ATOM   1106  CA  ASP   242      18.845  55.501 105.762  1.00  9.99
ATOM   1107  C   ASP   242      18.923  55.019 107.243  1.00  9.99
ATOM   1108  O   ASP   242      18.751  55.832 108.177  1.00  9.99
ATOM   1109  CB  ASP   242      20.250  55.891 105.262  1.00  9.99
ATOM   1110  N   ARG   243      19.179  53.717 107.428  1.00  9.99
ATOM   1111  CA  ARG   243      19.174  53.080 108.751  1.00  9.99
ATOM   1112  C   ARG   243      20.275  53.634 109.653  1.00  9.99
ATOM   1113  O   ARG   243      21.385  53.915 109.163  1.00  9.99
ATOM   1114  CB  ARG   243      19.327  51.561 108.604  1.00  9.99
TER
END
