
#######################################################
#                                                     #
#                        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 (   55),  selected   11 , name T0386TS103_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS103_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    N     219      K     222           #
LGA    -       -      I     223           -
LGA    -       -      R     224           -
LGA    P     220      L     225          2.766
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    E     221      L     263          3.727
LGA    L     225      E     264          2.089
LGA    L     226      G     265          4.163
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    -       -      I     275           -
LGA    -       -      I     276           -
LGA    -       -      G     277           -
LGA    K     227      N     278          2.179
LGA    E     228      I     279          1.604
LGA    F     229      D     280          1.006
LGA    M     230      H     281          1.191
LGA    H     231      L     282          1.002
LGA    T     232      P     283          3.054
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)   11   81    5.0     10    2.52     0.00      9.507     0.382

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.438219 * X  +   0.795466 * Y  +  -0.418566 * Z  + -38.288322
  Y_new =   0.610516 * X  +  -0.605171 * Y  +  -0.510919 * Z  +  98.689598
  Z_new =  -0.659723 * X  +  -0.031646 * Y  +  -0.750842 * Z  +  81.286034 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.099470    0.042123  [ DEG:  -177.5865      2.4135 ]
  Theta =   0.720450    2.421142  [ DEG:    41.2788    138.7212 ]
  Phi   =   0.948233   -2.193359  [ DEG:    54.3298   -125.6702 ]
 
# 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: T0386TS103_1-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS103_1-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   11   81   5.0   10   2.52    0.00   9.507
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS103_1-D2
PFRMAT TS
TARGET T0386
MODEL 1
PARENT 2g03_A
ATOM    734  N   ASN   219       4.144  64.341  81.832  1.00  1.00
ATOM    735  CA  ASN   219       5.216  65.271  82.110  1.00  1.00
ATOM    736  C   ASN   219       6.533  64.531  82.407  1.00  1.00
ATOM    737  O   ASN   219       6.579  63.642  83.257  1.00  1.00
ATOM    738  CB  ASN   219       4.793  66.152  83.263  1.00  1.00
ATOM    739  N   PRO   220       7.591  64.873  81.676  1.00  1.00
ATOM    740  CA  PRO   220       8.885  64.207  81.835  1.00  1.00
ATOM    741  C   PRO   220       9.416  64.229  83.284  1.00  1.00
ATOM    742  O   PRO   220       9.935  63.226  83.764  1.00  1.00
ATOM    743  CB  PRO   220       9.921  64.774  80.850  1.00  1.00
ATOM    744  N   GLU   221       9.261  65.349  83.981  1.00  1.00
ATOM    745  CA  GLU   221       9.782  65.476  85.332  1.00  1.00
ATOM    746  C   GLU   221       9.017  64.598  86.333  1.00  1.00
ATOM    747  O   GLU   221       9.621  63.933  87.192  1.00  1.00
ATOM    748  CB  GLU   221       9.761  66.933  85.772  1.00  1.00
ATOM    749  N   LEU   225       7.689  64.584  86.217  1.00  1.00
ATOM    750  CA  LEU   225       6.846  63.727  87.040  1.00  1.00
ATOM    751  C   LEU   225       7.153  62.263  86.758  1.00  1.00
ATOM    752  O   LEU   225       7.291  61.472  87.693  1.00  1.00
ATOM    753  CB  LEU   225       5.335  64.051  86.840  1.00  1.00
ATOM    754  N   LEU   226       7.267  61.890  85.485  1.00  1.00
ATOM    755  CA  LEU   226       7.589  60.499  85.152  1.00  1.00
ATOM    756  C   LEU   226       8.977  60.101  85.727  1.00  1.00
ATOM    757  O   LEU   226       9.089  59.170  86.517  1.00  1.00
ATOM    758  CB  LEU   226       7.527  60.235  83.624  1.00  1.00
ATOM    759  N   LYS   227      10.017  60.834  85.376  1.00  1.00
ATOM    760  CA  LYS   227      11.364  60.424  85.751  1.00  1.00
ATOM    761  C   LYS   227      11.751  60.590  87.233  1.00  1.00
ATOM    762  O   LYS   227      12.408  59.713  87.772  1.00  1.00
ATOM    763  CB  LYS   227      12.401  60.989  84.766  1.00  1.00
ATOM    764  N   GLU   228      11.346  61.686  87.874  1.00  1.00
ATOM    765  CA  GLU   228      11.544  61.837  89.317  1.00  1.00
ATOM    766  C   GLU   228      10.704  60.820  90.078  1.00  1.00
ATOM    767  O   GLU   228      11.091  60.383  91.165  1.00  1.00
ATOM    768  CB  GLU   228      11.230  63.253  89.797  1.00  1.00
ATOM    769  N   PHE   229       9.561  60.439  89.499  1.00  1.00
ATOM    770  CA  PHE   229       8.697  59.414  90.050  1.00  1.00
ATOM    771  C   PHE   229       9.307  58.028  90.015  1.00  1.00
ATOM    772  O   PHE   229       9.235  57.295  90.994  1.00  1.00
ATOM    773  CB  PHE   229       7.411  59.381  89.203  1.00  1.00
ATOM    774  N   MET   230       9.869  57.643  88.871  1.00  1.00
ATOM    775  CA  MET   230      10.624  56.398  88.730  1.00  1.00
ATOM    776  C   MET   230      11.783  56.353  89.733  1.00  1.00
ATOM    777  O   MET   230      11.996  55.339  90.384  1.00  1.00
ATOM    778  CB  MET   230      11.180  56.231  87.283  1.00  1.00
ATOM    779  N   HIS   231      12.539  57.437  89.849  1.00  1.00
ATOM    780  CA  HIS   231      13.585  57.496  90.864  1.00  1.00
ATOM    781  C   HIS   231      13.073  57.290  92.292  1.00  1.00
ATOM    782  O   HIS   231      13.727  56.621  93.080  1.00  1.00
ATOM    783  CB  HIS   231      14.374  58.783  90.793  1.00  1.00
ATOM    784  N   THR   232      11.924  57.870  92.624  1.00  1.00
ATOM    785  CA  THR   232      11.378  57.738  93.969  1.00  1.00
ATOM    786  C   THR   232      10.882  56.311  94.189  1.00  1.00
ATOM    787  O   THR   232      11.159  55.714  95.212  1.00  1.00
ATOM    788  CB  THR   232      10.269  58.773  94.217  1.00  1.00
TER
END
