
#######################################################
#                                                     #
#                        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 (   84),  selected   21 , name T0386TS383_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS383_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    -       -      M     233           -
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    -       -      T     236           -
LGA    -       -      G     237           -
LGA    N     219      R     238          3.266
LGA    P     220      N     239          0.623
LGA    E     221      V     240          2.345
LGA    K     222      N     241          2.144
LGA    I     223      D     242          3.121
LGA    R     224      R     243          1.017
LGA    L     225      P     244          3.046
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    L     226      G     272          2.562
LGA    K     227      A     273          3.374
LGA    E     228      Y     274          3.297
LGA    F     229      -       -           -
LGA    M     230      -       -           -
LGA    H     231      I     275          3.070
LGA    T     232      I     276          2.189
LGA    M     233      -       -           -
LGA    K     234      -       -           -
LGA    N     235      -       -           -
LGA    T     236      G     277          1.433
LGA    G     237      N     278          4.106
LGA    R     238      I     279          1.379
LGA    N     239      D     280          2.568
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    2.64     6.25     13.362     0.584

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.743647 * X  +  -0.434633 * Y  +  -0.508020 * Z  +  47.984940
  Y_new =  -0.547885 * X  +  -0.831644 * Y  +  -0.090495 * Z  + 106.663467
  Z_new =  -0.383160 * X  +   0.345633 * Y  +  -0.856579 * Z  +  49.279156 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.758069   -0.383523  [ DEG:   158.0257    -21.9743 ]
  Theta =   0.393214    2.748378  [ DEG:    22.5295    157.4705 ]
  Phi   =  -0.634970    2.506622  [ DEG:   -36.3811    143.6189 ]
 
# 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: T0386TS383_1-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS383_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   2.64    6.25  13.362
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS383_1-D2
PFRMAT TS
TARGET T0386
MODEL 1
PARENT 2g03A
ATOM    617  N   ASN   219      20.260  71.662  74.358  1.00  0.00
ATOM    618  CA  ASN   219      21.459  71.298  73.613  1.00  0.00
ATOM    619  C   ASN   219      21.066  71.224  72.153  1.00  0.00
ATOM    620  O   ASN   219      19.954  70.830  71.843  1.00  0.00
ATOM    621  N   PRO   220      21.951  71.597  71.237  1.00  0.00
ATOM    622  CA  PRO   220      21.622  71.359  69.840  1.00  0.00
ATOM    623  C   PRO   220      22.202  70.064  69.299  1.00  0.00
ATOM    624  O   PRO   220      22.110  69.796  68.109  1.00  0.00
ATOM    625  N   GLU   221      22.749  69.246  70.186  1.00  0.00
ATOM    626  CA  GLU   221      23.285  67.946  69.791  1.00  0.00
ATOM    627  C   GLU   221      22.134  66.924  69.880  1.00  0.00
ATOM    628  O   GLU   221      22.145  66.044  70.733  1.00  0.00
ATOM    629  N   LYS   222      21.153  67.053  68.986  1.00  0.00
ATOM    630  CA  LYS   222      19.814  66.487  69.191  1.00  0.00
ATOM    631  C   LYS   222      19.756  64.965  68.992  1.00  0.00
ATOM    632  O   LYS   222      18.766  64.322  69.391  1.00  0.00
ATOM    633  N   ILE   223      20.803  64.404  68.387  1.00  0.00
ATOM    634  CA  ILE   223      20.830  62.990  68.030  1.00  0.00
ATOM    635  C   ILE   223      21.962  62.240  68.720  1.00  0.00
ATOM    636  O   ILE   223      22.275  61.115  68.363  1.00  0.00
ATOM    637  N   ARG   224      22.568  62.875  69.704  1.00  0.00
ATOM    638  CA  ARG   224      23.657  62.276  70.445  1.00  0.00
ATOM    639  C   ARG   224      23.159  61.115  71.325  1.00  0.00
ATOM    640  O   ARG   224      22.219  61.271  72.103  1.00  0.00
ATOM    641  N   LEU   225      23.767  59.941  71.169  1.00  0.00
ATOM    642  CA  LEU   225      23.351  58.753  71.915  1.00  0.00
ATOM    643  C   LEU   225      23.337  58.959  73.445  1.00  0.00
ATOM    644  O   LEU   225      22.412  58.513  74.116  1.00  0.00
ATOM    645  N   LEU   226      24.335  59.652  73.983  1.00  0.00
ATOM    646  CA  LEU   226      24.430  59.845  75.421  1.00  0.00
ATOM    647  C   LEU   226      23.330  60.773  75.955  1.00  0.00
ATOM    648  O   LEU   226      22.715  60.499  77.000  1.00  0.00
ATOM    649  N   LYS   227      23.071  61.864  75.235  1.00  0.00
ATOM    650  CA  LYS   227      21.993  62.783  75.575  1.00  0.00
ATOM    651  C   LYS   227      20.649  62.074  75.477  1.00  0.00
ATOM    652  O   LYS   227      19.815  62.211  76.373  1.00  0.00
ATOM    653  N   GLU   228      20.428  61.315  74.405  1.00  0.00
ATOM    654  CA  GLU   228      19.164  60.586  74.267  1.00  0.00
ATOM    655  C   GLU   228      18.988  59.564  75.424  1.00  0.00
ATOM    656  O   GLU   228      18.025  59.627  76.182  1.00  0.00
ATOM    657  N   PHE   229      19.938  58.663  75.594  1.00  0.00
ATOM    658  CA  PHE   229      19.761  57.582  76.556  1.00  0.00
ATOM    659  C   PHE   229      19.857  57.959  78.046  1.00  0.00
ATOM    660  O   PHE   229      19.075  57.449  78.834  1.00  0.00
ATOM    661  N   MET   230      20.788  58.837  78.419  1.00  0.00
ATOM    662  CA  MET   230      20.835  59.356  79.787  1.00  0.00
ATOM    663  C   MET   230      19.608  60.209  80.075  1.00  0.00
ATOM    664  O   MET   230      19.152  60.276  81.220  1.00  0.00
ATOM    665  N   HIS   231      19.071  60.850  79.033  1.00  0.00
ATOM    666  CA  HIS   231      17.851  61.628  79.124  1.00  0.00
ATOM    667  C   HIS   231      16.618  60.786  79.385  1.00  0.00
ATOM    668  O   HIS   231      15.795  61.138  80.222  1.00  0.00
ATOM    669  N   THR   232      16.460  59.697  78.636  1.00  0.00
ATOM    670  CA  THR   232      15.403  58.713  78.870  1.00  0.00
ATOM    671  C   THR   232      15.486  58.160  80.297  1.00  0.00
ATOM    672  O   THR   232      14.475  58.054  80.977  1.00  0.00
ATOM    673  N   MET   233      16.680  57.793  80.745  1.00  0.00
ATOM    674  CA  MET   233      16.842  57.364  82.130  1.00  0.00
ATOM    675  C   MET   233      16.406  58.413  83.157  1.00  0.00
ATOM    676  O   MET   233      15.804  58.063  84.163  1.00  0.00
ATOM    677  N   LYS   234      16.720  59.682  82.913  1.00  0.00
ATOM    678  CA  LYS   234      16.357  60.738  83.850  1.00  0.00
ATOM    679  C   LYS   234      14.847  60.960  83.821  1.00  0.00
ATOM    680  O   LYS   234      14.219  61.058  84.859  1.00  0.00
ATOM    681  N   ASN   235      14.267  61.019  82.623  1.00  0.00
ATOM    682  CA  ASN   235      12.832  61.136  82.435  1.00  0.00
ATOM    683  C   ASN   235      12.033  60.085  83.213  1.00  0.00
ATOM    684  O   ASN   235      11.013  60.405  83.844  1.00  0.00
ATOM    685  N   THR   236      12.484  58.835  83.147  1.00  0.00
ATOM    686  CA  THR   236      11.835  57.712  83.839  1.00  0.00
ATOM    687  C   THR   236      12.025  57.772  85.357  1.00  0.00
ATOM    688  O   THR   236      11.212  57.228  86.125  1.00  0.00
ATOM    689  N   GLY   237      13.101  58.432  85.780  1.00  0.00
ATOM    690  CA  GLY   237      13.367  58.676  87.201  1.00  0.00
ATOM    691  C   GLY   237      12.401  59.728  87.823  1.00  0.00
ATOM    692  O   GLY   237      12.032  59.624  88.993  1.00  0.00
ATOM    693  N   ARG   238      11.965  60.703  87.028  1.00  0.00
ATOM    694  CA  ARG   238      11.122  61.787  87.513  1.00  0.00
ATOM    695  C   ARG   238       9.850  61.248  88.123  1.00  0.00
ATOM    696  O   ARG   238       9.317  61.826  89.072  1.00  0.00
ATOM    697  N   ASN   239       9.352  60.130  87.610  1.00  0.00
ATOM    698  CA  ASN   239       8.092  59.637  88.172  1.00  0.00
ATOM    699  C   ASN   239       8.208  58.258  88.782  1.00  0.00
ATOM    700  O   ASN   239       7.214  57.564  88.889  1.00  0.00
TER
END
