
#######################################################
#                                                     #
#                        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   17 (  143),  selected   17 , name T0372TS022_5_1-D2
# Molecule2: number of CA atoms  172 ( 1400),  selected  172 , name T0372_D2.pdb
# PARAMETERS: T0372TS022_5_1-D2.T0372_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      R     118           -
LGA    -       -      A     119           -
LGA    -       -      Y     120           -
LGA    -       -      A     121           -
LGA    -       -      D     122           -
LGA    -       -      Y     123           -
LGA    -       -      I     124           -
LGA    -       -      Y     125           -
LGA    -       -      L     126           -
LGA    -       -      R     127           -
LGA    -       -      S     128           -
LGA    -       -      D     129           -
LGA    -       -      L     130           -
LGA    -       -      A     131           -
LGA    -       -      T     132           -
LGA    -       -      L     133           -
LGA    -       -      K     134           -
LGA    -       -      G     135           -
LGA    -       -      K     136           -
LGA    -       -      K     137           -
LGA    -       -      F     138           -
LGA    -       -      Q     139           -
LGA    -       -      A     140           -
LGA    -       -      K     141           -
LGA    -       -      R     142           -
LGA    -       -      N     143           -
LGA    R     118      H     144          4.821
LGA    A     119      I     145          5.096
LGA    -       -      N     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      N     150           -
LGA    -       -      T     151           -
LGA    -       -      Y     152           -
LGA    -       -      P     153           -
LGA    -       -      D     154           -
LGA    -       -      Y     155           -
LGA    -       -      E     156           -
LGA    -       -      Y     157           -
LGA    -       -      T     158           -
LGA    -       -      P     159           -
LGA    -       -      I     160           -
LGA    -       -      T     161           -
LGA    -       -      P     162           -
LGA    -       -      D     163           -
LGA    -       -      R     164           -
LGA    -       -      I     165           -
LGA    -       -      Q     166           -
LGA    -       -      E     167           -
LGA    -       -      C     168           -
LGA    -       -      L     169           -
LGA    -       -      D     170           -
LGA    -       -      L     171           -
LGA    -       -      E     172           -
LGA    -       -      A     173           -
LGA    -       -      E     174           -
LGA    -       -      W     175           -
LGA    -       -      C     176           -
LGA    -       -      K     177           -
LGA    -       -      V     178           -
LGA    -       -      N     179           -
LGA    -       -      N     180           -
LGA    -       -      C     181           -
LGA    -       -      D     182           -
LGA    -       -      Q     183           -
LGA    -       -      Q     184           -
LGA    -       -      E     185           -
LGA    -       -      G     186           -
LGA    -       -      T     187           -
LGA    -       -      G     188           -
LGA    -       -      N     189           -
LGA    -       -      E     190           -
LGA    -       -      R     191           -
LGA    -       -      R     192           -
LGA    -       -      A     193           -
LGA    -       -      L     194           -
LGA    -       -      I     195           -
LGA    -       -      Y     196           -
LGA    -       -      A     197           -
LGA    -       -      L     198           -
LGA    -       -      H     199           -
LGA    -       -      N     200           -
LGA    -       -      F     201           -
LGA    -       -      E     202           -
LGA    -       -      A     203           -
LGA    -       -      L     204           -
LGA    -       -      G     205           -
LGA    -       -      L     206           -
LGA    -       -      T     207           -
LGA    -       -      G     208           -
LGA    -       -      G     209           -
LGA    -       -      I     210           -
LGA    Y     120      L     211          4.557
LGA    -       -      H     212           -
LGA    A     121      V     213          3.554
LGA    -       -      N     214           -
LGA    -       -      G     215           -
LGA    -       -      K     216           -
LGA    D     122      I     217          5.691
LGA    Y     123      V     218          2.229
LGA    -       -      A     219           -
LGA    -       -      F     220           -
LGA    -       -      T     221           -
LGA    -       -      F     222           -
LGA    -       -      G     223           -
LGA    -       -      M     224           -
LGA    -       -      P     225           -
LGA    -       -      I     226           -
LGA    -       -      N     227           -
LGA    -       -      H     228           -
LGA    -       -      E     229           -
LGA    -       -      T     230           -
LGA    -       -      F     231           -
LGA    -       -      G     232           -
LGA    -       -      V     233           -
LGA    -       -      H     234           -
LGA    -       -      V     235           -
LGA    -       -      E     236           -
LGA    -       -      K     237           -
LGA    -       -      A     238           -
LGA    -       -      D     239           -
LGA    -       -      T     240           -
LGA    I     124      S     241          3.294
LGA    Y     125      I     242          0.500
LGA    L     126      D     243          2.875
LGA    -       -      G     244           -
LGA    R     127      A     245          1.038
LGA    S     128      Y     246          1.124
LGA    D     129      A     247          1.427
LGA    L     130      M     248          1.064
LGA    A     131      I     249          1.433
LGA    T     132      N     250          2.013
LGA    L     133      Y     251          0.927
LGA    K     134      E     252          2.496
LGA    -       -      F     253           -
LGA    -       -      A     254           -
LGA    -       -      N     255           -
LGA    -       -      R     256           -
LGA    -       -      I     257           -
LGA    -       -      P     258           -
LGA    -       -      E     259           -
LGA    -       -      Q     260           -
LGA    -       -      Y     261           -
LGA    -       -      I     262           -
LGA    -       -      Y     263           -
LGA    -       -      I     264           -
LGA    -       -      N     265           -
LGA    -       -      R     266           -
LGA    -       -      E     267           -
LGA    -       -      E     268           -
LGA    -       -      D     269           -
LGA    -       -      L     270           -
LGA    -       -      G     271           -
LGA    -       -      I     272           -
LGA    -       -      E     273           -
LGA    -       -      G     274           -
LGA    -       -      L     275           -
LGA    -       -      R     276           -
LGA    -       -      K     277           -
LGA    -       -      A     278           -
LGA    -       -      K     279           -
LGA    -       -      L     280           -
LGA    -       -      S     281           -
LGA    -       -      Y     282           -
LGA    -       -      Q     283           -
LGA    -       -      P     284           -
LGA    -       -      V     285           -
LGA    -       -      T     286           -
LGA    -       -      I     287           -
LGA    -       -      L     288           -
LGA    -       -      E     289           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   17  172    5.0     17    3.05     0.00      7.038     0.540

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.386734 * X  +   0.553462 * Y  +   0.737642 * Z  + -22.360479
  Y_new =  -0.888320 * X  +  -0.438369 * Y  +  -0.136818 * Z  +  93.541718
  Z_new =   0.247636 * X  +  -0.708175 * Y  +   0.661184 * Z  + 131.819687 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.819701    2.321892  [ DEG:   -46.9654    133.0346 ]
  Theta =  -0.250240   -2.891353  [ DEG:   -14.3377   -165.6623 ]
  Phi   =  -1.981404    1.160189  [ DEG:  -113.5261     66.4739 ]
 
# 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: T0372TS022_5_1-D2                             
REMARK     2: T0372_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS022_5_1-D2.T0372_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   17  172   5.0   17   3.05    0.00   7.038
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS022_5_1-D2
REMARK PARENT number 1
PFRMAT TS
TARGET T0372
PARENT 1th8_B
ATOM    953  N   ARG   118      31.811  32.880  34.729  1.00  0.00
ATOM    954  CA  ARG   118      31.840  33.766  35.868  1.00  0.00
ATOM    955  C   ARG   118      33.015  34.697  35.764  1.00  0.00
ATOM    956  O   ARG   118      33.682  34.778  34.737  1.00  0.00
ATOM    957  CB  ARG   118      31.960  32.965  37.167  1.00  0.00
ATOM    958  CG  ARG   118      32.217  33.817  38.399  1.00  0.00
ATOM    959  CD  ARG   118      33.693  34.148  38.545  1.00  0.00
ATOM    960  NE  ARG   118      34.492  32.962  38.852  1.00  0.00
ATOM    961  CZ  ARG   118      35.804  32.876  38.663  1.00  0.00
ATOM    962  NH1 ARG   118      36.446  31.758  38.972  1.00  0.00
ATOM    963  NH2 ARG   118      36.471  33.907  38.165  1.00  0.00
ATOM    964  N   ALA   119      33.247  35.505  36.813  1.00  0.00
ATOM    965  CA  ALA   119      34.310  36.463  36.825  1.00  0.00
ATOM    966  C   ALA   119      35.585  35.734  36.567  1.00  0.00
ATOM    967  O   ALA   119      35.676  34.530  36.774  1.00  0.00
ATOM    968  CB  ALA   119      34.378  37.162  38.175  1.00  0.00
ATOM    969  N   TYR   120      36.606  36.471  36.091  1.00  0.00
ATOM    970  CA  TYR   120      37.866  35.928  35.686  1.00  0.00
ATOM    971  C   TYR   120      38.369  35.030  36.760  1.00  0.00
ATOM    972  O   TYR   120      38.211  35.292  37.952  1.00  0.00
ATOM    973  CB  TYR   120      38.881  37.050  35.448  1.00  0.00
ATOM    974  CG  TYR   120      40.253  36.558  35.045  1.00  0.00
ATOM    975  CD1 TYR   120      40.503  36.135  33.747  1.00  0.00
ATOM    976  CD2 TYR   120      41.293  36.521  35.965  1.00  0.00
ATOM    977  CE1 TYR   120      41.755  35.685  33.369  1.00  0.00
ATOM    978  CE2 TYR   120      42.551  36.073  35.606  1.00  0.00
ATOM    979  CZ  TYR   120      42.775  35.654  34.296  1.00  0.00
ATOM    980  OH  TYR   120      44.021  35.206  33.924  1.00  0.00
ATOM    981  N   ALA   121      38.949  33.902  36.321  1.00  0.00
ATOM    982  CA  ALA   121      39.486  32.887  37.170  1.00  0.00
ATOM    983  C   ALA   121      40.498  32.196  36.324  1.00  0.00
ATOM    984  O   ALA   121      41.021  32.782  35.375  1.00  0.00
ATOM    985  CB  ALA   121      38.388  31.936  37.619  1.00  0.00
ATOM    986  N   ASP   122      40.814  30.930  36.653  1.00  0.00
ATOM    987  CA  ASP   122      41.775  30.231  35.857  1.00  0.00
ATOM    988  C   ASP   122      41.228  30.205  34.465  1.00  0.00
ATOM    989  O   ASP   122      40.046  30.464  34.245  1.00  0.00
ATOM    990  CB  ASP   122      41.974  28.807  36.383  1.00  0.00
ATOM    991  CG  ASP   122      42.758  28.770  37.680  1.00  0.00
ATOM    992  OD1 ASP   122      43.291  29.826  38.082  1.00  0.00
ATOM    993  OD2 ASP   122      42.839  27.685  38.293  1.00  0.00
ATOM    994  N   TYR   123      42.091  29.892  33.482  1.00  0.00
ATOM    995  CA  TYR   123      41.736  30.082  32.105  1.00  0.00
ATOM    996  C   TYR   123      40.510  29.306  31.746  1.00  0.00
ATOM    997  O   TYR   123      39.591  29.867  31.151  1.00  0.00
ATOM    998  CB  TYR   123      42.872  29.621  31.190  1.00  0.00
ATOM    999  CG  TYR   123      42.562  29.750  29.716  1.00  0.00
ATOM   1000  CD1 TYR   123      42.665  30.977  29.072  1.00  0.00
ATOM   1001  CD2 TYR   123      42.168  28.645  28.973  1.00  0.00
ATOM   1002  CE1 TYR   123      42.384  31.104  27.726  1.00  0.00
ATOM   1003  CE2 TYR   123      41.882  28.754  27.625  1.00  0.00
ATOM   1004  CZ  TYR   123      41.994  29.998  27.003  1.00  0.00
ATOM   1005  OH  TYR   123      41.714  30.122  25.662  1.00  0.00
ATOM   1006  N   ILE   124      40.421  28.011  32.103  1.00  0.00
ATOM   1007  CA  ILE   124      39.244  27.307  31.673  1.00  0.00
ATOM   1008  C   ILE   124      38.294  27.315  32.829  1.00  0.00
ATOM   1009  O   ILE   124      38.107  26.288  33.481  1.00  0.00
ATOM   1010  CB  ILE   124      39.569  25.857  31.271  1.00  0.00
ATOM   1011  CG1 ILE   124      40.566  25.836  30.111  1.00  0.00
ATOM   1012  CG2 ILE   124      38.306  25.129  30.835  1.00  0.00
ATOM   1013  CD1 ILE   124      41.201  24.483  29.876  1.00  0.00
ATOM   1014  N   TYR   125      37.657  28.477  33.101  1.00  0.00
ATOM   1015  CA  TYR   125      36.807  28.609  34.252  1.00  0.00
ATOM   1016  C   TYR   125      35.771  29.660  34.005  1.00  0.00
ATOM   1017  O   TYR   125      35.283  29.836  32.890  1.00  0.00
ATOM   1018  CB  TYR   125      37.627  29.007  35.480  1.00  0.00
ATOM   1019  CG  TYR   125      36.849  28.963  36.776  1.00  0.00
ATOM   1020  CD1 TYR   125      35.778  28.092  36.933  1.00  0.00
ATOM   1021  CD2 TYR   125      37.189  29.791  37.838  1.00  0.00
ATOM   1022  CE1 TYR   125      35.062  28.045  38.114  1.00  0.00
ATOM   1023  CE2 TYR   125      36.483  29.757  39.026  1.00  0.00
ATOM   1024  CZ  TYR   125      35.413  28.874  39.157  1.00  0.00
ATOM   1025  OH  TYR   125      34.701  28.829  40.334  1.00  0.00
ATOM   1026  N   LEU   126      35.406  30.376  35.088  1.00  0.00
ATOM   1027  CA  LEU   126      34.410  31.395  35.128  1.00  0.00
ATOM   1028  C   LEU   126      34.774  32.376  34.066  1.00  0.00
ATOM   1029  O   LEU   126      33.949  32.730  33.233  1.00  0.00
ATOM   1030  CB  LEU   126      34.389  32.070  36.500  1.00  0.00
ATOM   1031  CG  LEU   126      33.841  31.235  37.659  1.00  0.00
ATOM   1032  CD1 LEU   126      34.052  31.950  38.985  1.00  0.00
ATOM   1033  CD2 LEU   126      32.351  30.987  37.485  1.00  0.00
ATOM   1034  N   ARG   127      36.007  32.899  34.066  1.00  0.00
ATOM   1035  CA  ARG   127      36.370  33.632  32.890  1.00  0.00
ATOM   1036  C   ARG   127      35.631  34.921  32.695  1.00  0.00
ATOM   1037  O   ARG   127      35.752  35.872  33.465  1.00  0.00
ATOM   1038  CB  ARG   127      36.103  32.798  31.635  1.00  0.00
ATOM   1039  CG  ARG   127      36.997  31.575  31.502  1.00  0.00
ATOM   1040  CD  ARG   127      36.685  30.799  30.233  1.00  0.00
ATOM   1041  NE  ARG   127      35.368  30.168  30.288  1.00  0.00
ATOM   1042  CZ  ARG   127      34.805  29.525  29.270  1.00  0.00
ATOM   1043  NH1 ARG   127      33.604  28.982  29.413  1.00  0.00
ATOM   1044  NH2 ARG   127      35.444  29.426  28.113  1.00  0.00
ATOM   1045  N   SER   128      34.834  34.924  31.601  1.00  0.00
ATOM   1046  CA  SER   128      34.236  36.047  30.932  1.00  0.00
ATOM   1047  C   SER   128      33.311  36.890  31.749  1.00  0.00
ATOM   1048  O   SER   128      33.103  38.041  31.374  1.00  0.00
ATOM   1049  CB  SER   128      33.405  35.579  29.735  1.00  0.00
ATOM   1050  OG  SER   128      34.225  34.969  28.754  1.00  0.00
ATOM   1051  N   ASP   129      32.716  36.396  32.853  1.00  0.00
ATOM   1052  CA  ASP   129      31.834  37.297  33.551  1.00  0.00
ATOM   1053  C   ASP   129      32.618  38.487  34.013  1.00  0.00
ATOM   1054  O   ASP   129      32.148  39.614  33.906  1.00  0.00
ATOM   1055  CB  ASP   129      31.210  36.605  34.764  1.00  0.00
ATOM   1056  CG  ASP   129      30.180  37.470  35.463  1.00  0.00
ATOM   1057  OD1 ASP   129      29.164  37.816  34.824  1.00  0.00
ATOM   1058  OD2 ASP   129      30.389  37.802  36.649  1.00  0.00
ATOM   1059  N   LEU   130      33.848  38.291  34.509  1.00  0.00
ATOM   1060  CA  LEU   130      34.578  39.446  34.938  1.00  0.00
ATOM   1061  C   LEU   130      34.852  40.294  33.741  1.00  0.00
ATOM   1062  O   LEU   130      34.826  41.520  33.823  1.00  0.00
ATOM   1063  CB  LEU   130      35.899  39.034  35.591  1.00  0.00
ATOM   1064  CG  LEU   130      36.774  40.169  36.125  1.00  0.00
ATOM   1065  CD1 LEU   130      36.040  40.953  37.201  1.00  0.00
ATOM   1066  CD2 LEU   130      38.058  39.619  36.730  1.00  0.00
ATOM   1067  N   ALA   131      35.112  39.658  32.585  1.00  0.00
ATOM   1068  CA  ALA   131      35.450  40.406  31.414  1.00  0.00
ATOM   1069  C   ALA   131      34.318  41.326  31.099  1.00  0.00
ATOM   1070  O   ALA   131      34.533  42.474  30.712  1.00  0.00
ATOM   1071  CB  ALA   131      35.689  39.471  30.238  1.00  0.00
ATOM   1072  N   THR   132      33.071  40.856  31.284  1.00  0.00
ATOM   1073  CA  THR   132      31.961  41.683  30.918  1.00  0.00
ATOM   1074  C   THR   132      32.001  42.947  31.716  1.00  0.00
ATOM   1075  O   THR   132      31.767  44.025  31.175  1.00  0.00
ATOM   1076  CB  THR   132      30.619  40.978  31.186  1.00  0.00
ATOM   1077  OG1 THR   132      30.536  39.786  30.394  1.00  0.00
ATOM   1078  CG2 THR   132      29.456  41.889  30.827  1.00  0.00
ATOM   1079  N   LEU   133      32.312  42.871  33.023  1.00  0.00
ATOM   1080  CA  LEU   133      32.276  44.086  33.779  1.00  0.00
ATOM   1081  C   LEU   133      33.300  45.034  33.266  1.00  0.00
ATOM   1082  O   LEU   133      33.028  46.225  33.136  1.00  0.00
ATOM   1083  CB  LEU   133      32.561  43.808  35.256  1.00  0.00
ATOM   1084  CG  LEU   133      31.478  43.045  36.023  1.00  0.00
ATOM   1085  CD1 LEU   133      31.965  42.680  37.417  1.00  0.00
ATOM   1086  CD2 LEU   133      30.222  43.891  36.164  1.00  0.00
ATOM   1087  N   LYS   134      34.509  44.538  32.949  1.00  0.00
ATOM   1088  CA  LYS   134      35.498  45.454  32.472  1.00  0.00
ATOM   1089  C   LYS   134      35.014  46.001  31.133  1.00  0.00
ATOM   1090  O   LYS   134      34.705  47.221  31.074  1.00  0.00
ATOM   1091  CB  LYS   134      36.842  44.747  32.290  1.00  0.00
ATOM   1092  CG  LYS   134      37.476  44.274  33.589  1.00  0.00
ATOM   1093  CD  LYS   134      38.838  43.648  33.343  1.00  0.00
ATOM   1094  CE  LYS   134      39.462  43.156  34.639  1.00  0.00
ATOM   1095  NZ  LYS   134      40.785  42.513  34.409  1.00  0.00
TER
END
