
#######################################################
#                                                     #
#                        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    9 (   70),  selected    9 , name T0320TS389_4-D2
# Molecule2: number of CA atoms   73 (  604),  selected   73 , name T0320_D2.pdb
# PARAMETERS: T0320TS389_4-D2.T0320_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    -       -      P     232           -
LGA    N     228      N     233          2.318
LGA    N     229      P     234          2.278
LGA    S     230      H     235          1.614
LGA    L     231      L     236          3.091
LGA    P     232      R     237          2.909
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    -       -      N     242           -
LGA    -       -      P     243           -
LGA    -       -      A     244           -
LGA    -       -      L     245           -
LGA    -       -      H     246           -
LGA    -       -      F     247           -
LGA    -       -      E     248           -
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      T     269           -
LGA    -       -      S     270           -
LGA    -       -      P     271           -
LGA    -       -      I     272           -
LGA    -       -      S     273           -
LGA    -       -      V     274           -
LGA    -       -      V     275           -
LGA    -       -      D     276           -
LGA    -       -      K     277           -
LGA    -       -      E     278           -
LGA    -       -      R     279           -
LGA    -       -      F     280           -
LGA    -       -      S     281           -
LGA    -       -      K     282           -
LGA    -       -      Y     283           -
LGA    -       -      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    N     233      Y     288          0.383
LGA    P     234      P     289          3.584
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    H     235      Y     292          0.447
LGA    L     236      L     293          3.095
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      E     299           -
LGA    -       -      R     300           -
LGA    -       -      A     301           -
LGA    -       -      G     302           -
LGA    -       -      R     303           -
LGA    -       -      I     304           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    9   73    5.0      9    2.45    44.44      8.854     0.353

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.329183 * X  +   0.039057 * Y  +  -0.943458 * Z  +  24.606726
  Y_new =  -0.598696 * X  +   0.764011 * Y  +   0.240520 * Z  +  15.272231
  Z_new =   0.730207 * X  +   0.644019 * Y  +  -0.228116 * Z  +   6.621877 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.911214   -1.230378  [ DEG:   109.5045    -70.4955 ]
  Theta =  -0.818625   -2.322968  [ DEG:   -46.9037   -133.0963 ]
  Phi   =  -2.073512    1.068081  [ DEG:  -118.8035     61.1965 ]
 
# 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: T0320TS389_4-D2                               
REMARK     2: T0320_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS389_4-D2.T0320_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    9   73   5.0    9   2.45   44.44   8.854
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS389_4-D2
PFRMAT TS
TARGET T0320
MODEL  4
PARENT N/A
ATOM   1597  N   ASN   228      19.276  14.967   4.885  1.00  0.00
ATOM   1598  CA  ASN   228      19.864  14.583   3.592  1.00  0.00
ATOM   1599  CB  ASN   228      21.316  15.056   3.501  1.00  0.00
ATOM   1600  CG  ASN   228      21.433  16.567   3.459  1.00  0.00
ATOM   1601  ND2 ASN   228      22.536  17.088   3.985  1.00  0.00
ATOM   1602  OD1 ASN   228      20.544  17.255   2.958  1.00  0.00
ATOM   1603  O   ASN   228      20.365  12.495   2.453  1.00  0.00
ATOM   1604  C   ASN   228      19.839  13.046   3.425  1.00  0.00
ATOM   1605  N   ASN   229      19.218  12.374   4.395  1.00  0.00
ATOM   1606  CA  ASN   229      19.074  10.918   4.387  1.00  0.00
ATOM   1607  CB  ASN   229      19.299  10.350   5.789  1.00  0.00
ATOM   1608  CG  ASN   229      20.720  10.549   6.278  1.00  0.00
ATOM   1609  ND2 ASN   229      20.881  10.679   7.589  1.00  0.00
ATOM   1610  OD1 ASN   229      21.661  10.588   5.485  1.00  0.00
ATOM   1611  O   ASN   229      17.345   9.425   3.611  1.00  0.00
ATOM   1612  C   ASN   229      17.649  10.578   3.913  1.00  0.00
ATOM   1613  N   SER   230      16.774  11.581   3.918  1.00  0.00
ATOM   1614  CA  SER   230      15.391  11.440   3.463  1.00  0.00
ATOM   1615  CB  SER   230      14.427  12.068   4.474  1.00  0.00
ATOM   1616  OG  SER   230      13.089  11.993   4.016  1.00  0.00
ATOM   1617  O   SER   230      15.451  13.405   2.065  1.00  0.00
ATOM   1618  C   SER   230      15.328  12.173   2.118  1.00  0.00
ATOM   1619  N   LEU   231      15.156  11.414   1.039  1.00  0.00
ATOM   1620  CA  LEU   231      15.117  11.988  -0.299  1.00  0.00
ATOM   1621  CB  LEU   231      15.031  10.883  -1.354  1.00  0.00
ATOM   1622  CG  LEU   231      16.256   9.975  -1.486  1.00  0.00
ATOM   1623  CD1 LEU   231      15.986   8.848  -2.469  1.00  0.00
ATOM   1624  CD2 LEU   231      17.458  10.763  -1.983  1.00  0.00
ATOM   1625  O   LEU   231      12.808  12.537  -0.172  1.00  0.00
ATOM   1626  C   LEU   231      13.933  12.898  -0.502  1.00  0.00
ATOM   1627  N   PRO   232      14.191  14.064  -1.088  1.00  0.00
ATOM   1628  CA  PRO   232      13.139  15.032  -1.325  1.00  0.00
ATOM   1629  CB  PRO   232      12.043  14.225  -2.022  1.00  0.00
ATOM   1630  CG  PRO   232      12.234  12.831  -1.527  1.00  0.00
ATOM   1631  CD  PRO   232      13.715  12.649  -1.354  1.00  0.00
ATOM   1632  O   PRO   232      13.342  15.906   0.918  1.00  0.00
ATOM   1633  C   PRO   232      12.602  15.668  -0.045  1.00  0.00
ATOM   1634  N   ASN   233      11.306  15.957  -0.052  1.00  0.00
ATOM   1635  CA  ASN   233      10.620  16.568   1.074  1.00  0.00
ATOM   1636  CB  ASN   233       9.124  16.700   0.782  1.00  0.00
ATOM   1637  CG  ASN   233       8.392  17.501   1.843  1.00  0.00
ATOM   1638  ND2 ASN   233       7.232  18.033   1.483  1.00  0.00
ATOM   1639  OD1 ASN   233       8.869  17.637   2.970  1.00  0.00
ATOM   1640  O   ASN   233      10.518  14.563   2.377  1.00  0.00
ATOM   1641  C   ASN   233      10.761  15.761   2.359  1.00  0.00
ATOM   1642  N   PRO   234      11.181  16.427   3.431  1.00  0.00
ATOM   1643  CA  PRO   234      11.357  15.793   4.735  1.00  0.00
ATOM   1644  CB  PRO   234      12.507  16.574   5.374  1.00  0.00
ATOM   1645  CG  PRO   234      12.399  17.944   4.789  1.00  0.00
ATOM   1646  CD  PRO   234      11.829  17.765   3.411  1.00  0.00
ATOM   1647  O   PRO   234       9.547  17.026   5.711  1.00  0.00
ATOM   1648  C   PRO   234      10.059  15.924   5.517  1.00  0.00
ATOM   1649  N   HIS   235       9.530  14.797   5.965  1.00  0.00
ATOM   1650  CA  HIS   235       8.295  14.787   6.731  1.00  0.00
ATOM   1651  CB  HIS   235       7.168  14.143   5.921  1.00  0.00
ATOM   1652  CG  HIS   235       6.822  14.888   4.671  1.00  0.00
ATOM   1653  CD2 HIS   235       7.122  14.734   3.254  1.00  0.00
ATOM   1654  ND1 HIS   235       6.034  16.019   4.671  1.00  0.00
ATOM   1655  CE1 HIS   235       5.901  16.460   3.407  1.00  0.00
ATOM   1656  NE2 HIS   235       6.551  15.694   2.552  1.00  0.00
ATOM   1657  O   HIS   235       9.338  13.015   7.951  1.00  0.00
ATOM   1658  C   HIS   235       8.565  13.988   7.980  1.00  0.00
ATOM   1659  N   LEU   236       7.917  14.380   9.074  1.00  0.00
ATOM   1660  CA  LEU   236       8.085  13.682  10.336  1.00  0.00
ATOM   1661  CB  LEU   236       7.082  14.198  11.371  1.00  0.00
ATOM   1662  CG  LEU   236       7.155  13.563  12.761  1.00  0.00
ATOM   1663  CD1 LEU   236       8.498  13.853  13.416  1.00  0.00
ATOM   1664  CD2 LEU   236       6.058  14.110  13.661  1.00  0.00
ATOM   1665  O   LEU   236       8.637  11.385  10.733  1.00  0.00
ATOM   1666  C   LEU   236       7.867  12.177  10.186  1.00  0.00
TER
END
