
#######################################################
#                                                     #
#                        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   21 (  104),  selected   21 , name T0386TS245_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS245_1-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N     219           -
LGA    -       -      P     220           -
LGA    -       -      E     221           -
LGA    -       -      K     222           -
LGA    -       -      I     223           -
LGA    -       -      R     224           -
LGA    -       -      L     225           -
LGA    -       -      L     226           -
LGA    -       -      K     227           -
LGA    -       -      E     228           -
LGA    -       -      F     229           -
LGA    -       -      M     230           -
LGA    -       -      H     231           -
LGA    -       -      T     232           -
LGA    N     219      M     233          3.970
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    -       -      T     236           -
LGA    -       -      G     237           -
LGA    P     220      R     238          2.104
LGA    E     221      N     239          1.532
LGA    K     222      V     240          3.192
LGA    I     223      N     241          1.415
LGA    R     224      D     242          2.982
LGA    L     225      R     243          2.911
LGA    L     226      P     244          3.118
LGA    K     227      -       -           -
LGA    E     228      V     245          1.519
LGA    F     229      M     246          2.699
LGA    M     230      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    H     231      G     272           #
LGA    T     232      A     273           #
LGA    M     233      Y     274           #
LGA    K     234      I     275          3.100
LGA    N     235      I     276          2.295
LGA    T     236      G     277          3.148
LGA    G     237      N     278          2.893
LGA    R     238      I     279          1.477
LGA    N     239      D     280          2.356
LGA    -       -      H     281           -
LGA    -       -      L     282           -
LGA    -       -      P     283           -
LGA    -       -      P     284           -
LGA    -       -      E     285           -
LGA    -       -      Q     286           -
LGA    -       -      L     287           -
LGA    -       -      K     288           -
LGA    -       -      I     289           -
LGA    -       -      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)   21   81    5.0     16    2.65     0.00     13.216     0.582

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.597135 * X  +  -0.499433 * Y  +  -0.627691 * Z  +  49.069580
  Y_new =  -0.504335 * X  +  -0.842261 * Y  +   0.190375 * Z  + 109.772522
  Z_new =  -0.623759 * X  +   0.202887 * Y  +  -0.754825 * Z  +  55.669411 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.879011   -0.262581  [ DEG:   164.9552    -15.0448 ]
  Theta =   0.673543    2.468050  [ DEG:    38.5912    141.4088 ]
  Phi   =  -0.701346    2.440247  [ DEG:   -40.1842    139.8158 ]
 
# 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: T0386TS245_1-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS245_1-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   81   5.0   16   2.65    0.00  13.216
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS245_1-D2
PFRMAT TS
TARGET T0386
MODEL 1
PARENT 2g03A
ATOM    926  N   ASN   219      20.119  72.722  75.659  1.00  0.00
ATOM    927  CA  ASN   219      21.262  72.291  74.862  1.00  0.00
ATOM    928  C   ASN   219      20.645  72.494  73.495  1.00  0.00
ATOM    929  O   ASN   219      19.553  71.944  73.236  1.00  0.00
ATOM    930  CB  ASN   219      21.657  70.824  75.049  1.00  0.00
ATOM    931  N   PRO   220      21.328  73.146  72.619  1.00  0.00
ATOM    932  CA  PRO   220      20.916  73.317  71.243  1.00  0.00
ATOM    933  C   PRO   220      21.302  72.163  70.418  1.00  0.00
ATOM    934  O   PRO   220      20.753  72.221  69.296  1.00  0.00
ATOM    935  CB  PRO   220      21.570  74.591  70.705  1.00  0.00
ATOM    936  N   GLU   221      21.920  71.102  70.851  1.00  0.00
ATOM    937  CA  GLU   221      22.044  69.880  70.093  1.00  0.00
ATOM    938  C   GLU   221      20.778  69.049  70.158  1.00  0.00
ATOM    939  O   GLU   221      20.755  68.154  71.030  1.00  0.00
ATOM    940  CB  GLU   221      23.223  69.087  70.661  1.00  0.00
ATOM    941  N   LYS   222      19.710  69.471  69.547  1.00  0.00
ATOM    942  CA  LYS   222      18.349  69.003  69.753  1.00  0.00
ATOM    943  C   LYS   222      18.222  67.564  69.308  1.00  0.00
ATOM    944  O   LYS   222      18.151  66.737  70.242  1.00  0.00
ATOM    945  CB  LYS   222      17.395  69.887  68.948  1.00  0.00
ATOM    946  N   ILE   223      18.470  67.213  68.043  1.00  0.00
ATOM    947  CA  ILE   223      18.680  65.843  67.627  1.00  0.00
ATOM    948  C   ILE   223      19.849  64.948  67.902  1.00  0.00
ATOM    949  O   ILE   223      20.380  64.592  66.828  1.00  0.00
ATOM    950  CB  ILE   223      18.504  66.030  66.120  1.00  0.00
ATOM    951  N   ARG   224      20.379  64.805  68.976  1.00  0.00
ATOM    952  CA  ARG   224      21.676  64.228  69.286  1.00  0.00
ATOM    953  C   ARG   224      21.170  62.939  69.891  1.00  0.00
ATOM    954  O   ARG   224      20.278  63.051  70.760  1.00  0.00
ATOM    955  CB  ARG   224      22.500  65.005  70.316  1.00  0.00
ATOM    956  N   LEU   225      21.586  61.783  69.441  1.00  0.00
ATOM    957  CA  LEU   225      21.066  60.496  69.892  1.00  0.00
ATOM    958  C   LEU   225      21.281  60.302  71.385  1.00  0.00
ATOM    959  O   LEU   225      20.387  59.736  72.050  1.00  0.00
ATOM    960  CB  LEU   225      21.780  59.392  69.110  1.00  0.00
ATOM    961  N   LEU   226      22.429  60.701  71.913  1.00  0.00
ATOM    962  CA  LEU   226      22.759  60.515  73.325  1.00  0.00
ATOM    963  C   LEU   226      21.869  61.392  74.196  1.00  0.00
ATOM    964  O   LEU   226      21.323  60.876  75.196  1.00  0.00
ATOM    965  CB  LEU   226      24.228  60.883  73.539  1.00  0.00
ATOM    966  N   LYS   227      21.681  62.649  73.844  1.00  0.00
ATOM    967  CA  LYS   227      20.817  63.552  74.592  1.00  0.00
ATOM    968  C   LYS   227      19.369  63.091  74.554  1.00  0.00
ATOM    969  O   LYS   227      18.571  63.620  75.359  1.00  0.00
ATOM    970  CB  LYS   227      20.941  64.948  73.981  1.00  0.00
ATOM    971  N   GLU   228      18.969  62.330  73.519  1.00  0.00
ATOM    972  CA  GLU   228      17.549  62.085  73.289  1.00  0.00
ATOM    973  C   GLU   228      17.237  60.655  73.707  1.00  0.00
ATOM    974  O   GLU   228      17.366  61.617  74.496  1.00  0.00
ATOM    975  CB  GLU   228      17.224  62.282  71.807  1.00  0.00
ATOM    976  N   PHE   229      17.516  59.683  73.949  1.00  0.00
ATOM    977  CA  PHE   229      18.010  58.542  74.651  1.00  0.00
ATOM    978  C   PHE   229      16.929  57.561  75.177  1.00  0.00
ATOM    979  O   PHE   229      16.658  58.529  75.921  1.00  0.00
ATOM    980  CB  PHE   229      18.836  59.089  75.816  1.00  0.00
ATOM    981  N   MET   230      17.304  57.759  73.245  1.00  0.00
ATOM    982  CA  MET   230      16.971  58.679  74.315  1.00  0.00
ATOM    983  C   MET   230      18.201  59.142  75.087  1.00  0.00
ATOM    984  O   MET   230      17.110  58.531  75.064  1.00  0.00
ATOM    985  CB  MET   230      15.997  57.966  75.255  1.00  0.00
ATOM    986  N   HIS   231      18.684  59.364  75.937  1.00  0.00
ATOM    987  CA  HIS   231      19.220  59.586  77.275  1.00  0.00
ATOM    988  C   HIS   231      18.283  60.485  78.074  1.00  0.00
ATOM    989  O   HIS   231      18.134  60.368  79.310  1.00  0.00
ATOM    990  CB  HIS   231      20.598  60.240  77.151  1.00  0.00
ATOM    991  N   THR   232      17.658  61.419  77.350  1.00  0.00
ATOM    992  CA  THR   232      16.748  62.371  77.984  1.00  0.00
ATOM    993  C   THR   232      15.463  61.673  78.409  1.00  0.00
ATOM    994  O   THR   232      15.016  61.883  79.556  1.00  0.00
ATOM    995  CB  THR   232      16.435  63.489  76.987  1.00  0.00
ATOM    996  N   MET   233      14.898  60.883  77.573  1.00  0.00
ATOM    997  CA  MET   233      13.673  60.160  77.896  1.00  0.00
ATOM    998  C   MET   233      13.916  59.114  78.972  1.00  0.00
ATOM    999  O   MET   233      13.034  58.938  79.840  1.00  0.00
ATOM   1000  CB  MET   233      13.164  59.491  76.618  1.00  0.00
ATOM   1001  N   LYS   234      15.043  58.454  78.958  1.00  0.00
ATOM   1002  CA  LYS   234      15.361  57.449  79.966  1.00  0.00
ATOM   1003  C   LYS   234      15.364  58.109  81.339  1.00  0.00
ATOM   1004  O   LYS   234      14.833  57.543  82.318  1.00  0.00
ATOM   1005  CB  LYS   234      16.736  56.847  79.668  1.00  0.00
ATOM   1006  N   ASN   235      15.918  59.324  81.413  1.00  0.00
ATOM   1007  CA  ASN   235      15.940  60.085  82.656  1.00  0.00
ATOM   1008  C   ASN   235      14.544  60.538  83.052  1.00  0.00
ATOM   1009  O   ASN   235      14.221  60.480  84.259  1.00  0.00
ATOM   1010  CB  ASN   235      16.850  61.299  82.457  1.00  0.00
ATOM   1011  N   THR   236      13.736  60.908  82.131  1.00  0.00
ATOM   1012  CA  THR   236      12.355  61.302  82.372  1.00  0.00
ATOM   1013  C   THR   236      11.447  60.170  82.822  1.00  0.00
ATOM   1014  O   THR   236      10.744  60.326  83.843  1.00  0.00
ATOM   1015  CB  THR   236      11.838  61.902  81.063  1.00  0.00
ATOM   1016  N   GLY   237      11.878  58.561  82.170  1.00  0.00
ATOM   1017  CA  GLY   237      11.201  57.725  83.137  1.00  0.00
ATOM   1018  C   GLY   237      11.175  58.220  84.557  1.00  0.00
ATOM   1019  O   GLY   237      10.718  57.131  84.964  1.00  0.00
ATOM   1021  N   ARG   238      11.710  60.279  86.182  1.00  0.00
ATOM   1022  CA  ARG   238      11.646  60.631  87.594  1.00  0.00
ATOM   1023  C   ARG   238      10.668  60.409  88.718  1.00  0.00
ATOM   1024  O   ARG   238      10.392  60.955  89.808  1.00  0.00
ATOM   1025  CB  ARG   238      11.846  62.129  87.357  1.00  0.00
ATOM   1026  N   ASN   239       9.696  59.340  88.002  1.00  0.00
ATOM   1027  CA  ASN   239       8.455  58.715  88.215  1.00  0.00
ATOM   1028  C   ASN   239       8.573  57.702  89.246  1.00  0.00
ATOM   1029  O   ASN   239       9.283  57.052  88.449  1.00  0.00
ATOM   1030  CB  ASN   239       7.994  58.079  86.903  1.00  0.00
TER
END
