
#######################################################
#                                                     #
#                        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   20 (  169),  selected   20 , name T0386TS609_4-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS609_4-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    N     219      E     221          0.946
LGA    P     220      K     222          2.447
LGA    -       -      I     223           -
LGA    E     221      R     224          0.408
LGA    K     222      L     225          1.914
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    I     223      L     263          5.212
LGA    R     224      E     264          2.634
LGA    L     225      G     265          3.538
LGA    L     226      F     266          3.208
LGA    K     227      A     267           -
LGA    E     228      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    F     229      N     278          3.319
LGA    M     230      I     279          3.300
LGA    H     231      D     280          3.844
LGA    T     232      H     281          3.060
LGA    M     233      L     282          2.115
LGA    K     234      P     283          3.821
LGA    N     235      P     284          2.114
LGA    T     236      E     285          4.847
LGA    G     237      Q     286          4.006
LGA    R     238      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)   20   81    5.0     17    3.22     0.00     13.128     0.511

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.158644 * X  +   0.956809 * Y  +   0.243615 * Z  + -43.432899
  Y_new =   0.875915 * X  +  -0.022524 * Y  +  -0.481939 * Z  +  57.744312
  Z_new =  -0.455636 * X  +   0.289843 * Y  +  -0.841657 * Z  +  64.530594 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.809940   -0.331652  [ DEG:   160.9977    -19.0023 ]
  Theta =   0.473087    2.668506  [ DEG:    27.1059    152.8941 ]
  Phi   =   1.391620   -1.749972  [ DEG:    79.7340   -100.2660 ]
 
# 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: T0386TS609_4-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS609_4-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   20   81   5.0   17   3.22    0.00  13.128
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS609_4-D2
PFRMAT TS
TARGET T0386
MODEL 4
PARENT 2g03_A                                           
ATOM   1761  N   ASN   219       1.526  59.326  78.275  1.00110.83       1SG    
ATOM   1762  CA  ASN   219       2.635  58.458  78.540  1.00110.83       1SG    
ATOM   1763  CB  ASN   219       2.492  57.088  77.848  1.00110.83       1SG    
ATOM   1764  CG  ASN   219       3.475  56.119  78.493  1.00110.83       1SG    
ATOM   1765  OD1 ASN   219       3.098  55.322  79.351  1.00110.83       1SG    
ATOM   1766  ND2 ASN   219       4.766  56.180  78.073  1.00110.83       1SG    
ATOM   1767  C   ASN   219       3.943  59.059  78.113  1.00110.83       1SG    
ATOM   1768  O   ASN   219       4.950  58.849  78.786  1.00110.83       1SG    
ATOM   1769  N   PRO   220       3.984  59.719  76.981  1.00133.15       1SG    
ATOM   1770  CA  PRO   220       5.204  60.328  76.499  1.00133.15       1SG    
ATOM   1771  CD  PRO   220       3.141  59.295  75.872  1.00133.15       1SG    
ATOM   1772  CB  PRO   220       5.084  60.394  74.974  1.00133.15       1SG    
ATOM   1773  CG  PRO   220       3.597  60.147  74.684  1.00133.15       1SG    
ATOM   1774  C   PRO   220       5.582  61.656  77.087  1.00133.15       1SG    
ATOM   1775  O   PRO   220       6.659  62.142  76.747  1.00133.15       1SG    
ATOM   1776  N   GLU   221       4.741  62.280  77.935  1.00 86.96       1SG    
ATOM   1777  CA  GLU   221       5.049  63.613  78.374  1.00 86.96       1SG    
ATOM   1778  CB  GLU   221       4.018  64.214  79.346  1.00 86.96       1SG    
ATOM   1779  CG  GLU   221       4.300  65.685  79.663  1.00 86.96       1SG    
ATOM   1780  CD  GLU   221       3.133  66.247  80.463  1.00 86.96       1SG    
ATOM   1781  OE1 GLU   221       2.214  65.459  80.809  1.00 86.96       1SG    
ATOM   1782  OE2 GLU   221       3.145  67.479  80.732  1.00 86.96       1SG    
ATOM   1783  C   GLU   221       6.392  63.651  79.029  1.00 86.96       1SG    
ATOM   1784  O   GLU   221       6.731  62.822  79.872  1.00 86.96       1SG    
ATOM   1785  N   LYS   222       7.190  64.655  78.625  1.00 72.28       1SG    
ATOM   1786  CA  LYS   222       8.532  64.842  79.085  1.00 72.28       1SG    
ATOM   1787  CB  LYS   222       9.191  66.030  78.370  1.00 72.28       1SG    
ATOM   1788  CG  LYS   222      10.695  66.174  78.585  1.00 72.28       1SG    
ATOM   1789  CD  LYS   222      11.327  67.136  77.575  1.00 72.28       1SG    
ATOM   1790  CE  LYS   222      12.832  67.333  77.748  1.00 72.28       1SG    
ATOM   1791  NZ  LYS   222      13.343  68.237  76.694  1.00 72.28       1SG    
ATOM   1792  C   LYS   222       8.525  65.129  80.553  1.00 72.28       1SG    
ATOM   1793  O   LYS   222       9.297  64.546  81.311  1.00 72.28       1SG    
ATOM   1794  N   ILE   223       7.632  66.034  80.996  1.00134.09       1SG    
ATOM   1795  CA  ILE   223       7.621  66.438  82.372  1.00134.09       1SG    
ATOM   1796  CB  ILE   223       6.688  67.597  82.638  1.00134.09       1SG    
ATOM   1797  CG2 ILE   223       5.239  67.114  82.467  1.00134.09       1SG    
ATOM   1798  CG1 ILE   223       6.981  68.270  83.995  1.00134.09       1SG    
ATOM   1799  CD1 ILE   223       6.759  67.395  85.229  1.00134.09       1SG    
ATOM   1800  C   ILE   223       7.247  65.279  83.245  1.00134.09       1SG    
ATOM   1801  O   ILE   223       7.868  65.059  84.284  1.00134.09       1SG    
ATOM   1802  N   ARG   224       6.220  64.501  82.859  1.00 99.72       1SG    
ATOM   1803  CA  ARG   224       5.814  63.422  83.706  1.00 99.72       1SG    
ATOM   1804  CB  ARG   224       4.514  62.733  83.262  1.00 99.72       1SG    
ATOM   1805  CG  ARG   224       3.339  63.713  83.217  1.00 99.72       1SG    
ATOM   1806  CD  ARG   224       1.968  63.084  83.472  1.00 99.72       1SG    
ATOM   1807  NE  ARG   224       1.845  61.868  82.620  1.00 99.72       1SG    
ATOM   1808  CZ  ARG   224       2.204  60.653  83.129  1.00 99.72       1SG    
ATOM   1809  NH1 ARG   224       2.672  60.559  84.407  1.00 99.72       1SG    
ATOM   1810  NH2 ARG   224       2.084  59.529  82.364  1.00 99.72       1SG    
ATOM   1811  C   ARG   224       6.915  62.414  83.771  1.00 99.72       1SG    
ATOM   1812  O   ARG   224       7.157  61.822  84.820  1.00 99.72       1SG    
ATOM   1813  N   LEU   225       7.610  62.166  82.647  1.00 51.94       1SG    
ATOM   1814  CA  LEU   225       8.655  61.186  82.685  1.00 51.94       1SG    
ATOM   1815  CB  LEU   225       9.273  60.931  81.302  1.00 51.94       1SG    
ATOM   1816  CG  LEU   225       8.247  60.452  80.259  1.00 51.94       1SG    
ATOM   1817  CD1 LEU   225       8.909  60.208  78.896  1.00 51.94       1SG    
ATOM   1818  CD2 LEU   225       7.450  59.240  80.768  1.00 51.94       1SG    
ATOM   1819  C   LEU   225       9.770  61.650  83.580  1.00 51.94       1SG    
ATOM   1820  O   LEU   225      10.194  60.929  84.480  1.00 51.94       1SG    
ATOM   1821  N   LEU   226      10.259  62.886  83.367  1.00 52.60       1SG    
ATOM   1822  CA  LEU   226      11.405  63.368  84.089  1.00 52.60       1SG    
ATOM   1823  CB  LEU   226      11.932  64.701  83.529  1.00 52.60       1SG    
ATOM   1824  CG  LEU   226      12.440  64.576  82.079  1.00 52.60       1SG    
ATOM   1825  CD1 LEU   226      13.051  65.892  81.572  1.00 52.60       1SG    
ATOM   1826  CD2 LEU   226      13.396  63.382  81.929  1.00 52.60       1SG    
ATOM   1827  C   LEU   226      11.112  63.555  85.540  1.00 52.60       1SG    
ATOM   1828  O   LEU   226      11.891  63.137  86.395  1.00 52.60       1SG    
ATOM   1829  N   LYS   227       9.974  64.188  85.864  1.00159.29       1SG    
ATOM   1830  CA  LYS   227       9.691  64.463  87.237  1.00159.29       1SG    
ATOM   1831  CB  LYS   227       8.492  65.407  87.438  1.00159.29       1SG    
ATOM   1832  CG  LYS   227       7.151  64.743  87.741  1.00159.29       1SG    
ATOM   1833  CD  LYS   227       6.585  63.767  86.713  1.00159.29       1SG    
ATOM   1834  CE  LYS   227       5.452  62.933  87.321  1.00159.29       1SG    
ATOM   1835  NZ  LYS   227       4.940  61.937  86.356  1.00159.29       1SG    
ATOM   1836  C   LYS   227       9.442  63.162  87.933  1.00159.29       1SG    
ATOM   1837  O   LYS   227       9.741  63.018  89.117  1.00159.29       1SG    
ATOM   1838  N   GLU   228       8.857  62.180  87.215  1.00 90.98       1SG    
ATOM   1839  CA  GLU   228       8.550  60.927  87.835  1.00 90.98       1SG    
ATOM   1840  CB  GLU   228       7.653  59.993  86.993  1.00 90.98       1SG    
ATOM   1841  CG  GLU   228       8.295  59.406  85.736  1.00 90.98       1SG    
ATOM   1842  CD  GLU   228       7.267  58.502  85.065  1.00 90.98       1SG    
ATOM   1843  OE1 GLU   228       6.052  58.674  85.352  1.00 90.98       1SG    
ATOM   1844  OE2 GLU   228       7.682  57.628  84.258  1.00 90.98       1SG    
ATOM   1845  C   GLU   228       9.811  60.202  88.188  1.00 90.98       1SG    
ATOM   1846  O   GLU   228       9.897  59.594  89.254  1.00 90.98       1SG    
ATOM   1847  N   PHE   229      10.837  60.243  87.315  1.00 90.98       1SG    
ATOM   1848  CA  PHE   229      12.033  59.521  87.643  1.00 90.98       1SG    
ATOM   1849  CB  PHE   229      13.089  59.435  86.530  1.00 90.98       1SG    
ATOM   1850  CG  PHE   229      13.909  58.255  86.932  1.00 90.98       1SG    
ATOM   1851  CD1 PHE   229      13.490  56.989  86.585  1.00 90.98       1SG    
ATOM   1852  CD2 PHE   229      15.068  58.390  87.662  1.00 90.98       1SG    
ATOM   1853  CE1 PHE   229      14.213  55.877  86.949  1.00 90.98       1SG    
ATOM   1854  CE2 PHE   229      15.796  57.280  88.029  1.00 90.98       1SG    
ATOM   1855  CZ  PHE   229      15.372  56.021  87.672  1.00 90.98       1SG    
ATOM   1856  C   PHE   229      12.655  60.183  88.832  1.00 90.98       1SG    
ATOM   1857  O   PHE   229      13.241  59.533  89.695  1.00 90.98       1SG    
ATOM   1858  N   MET   230      12.549  61.517  88.905  1.00 85.20       1SG    
ATOM   1859  CA  MET   230      13.127  62.253  89.989  1.00 85.20       1SG    
ATOM   1860  CB  MET   230      12.851  63.760  89.829  1.00 85.20       1SG    
ATOM   1861  CG  MET   230      13.751  64.679  90.654  1.00 85.20       1SG    
ATOM   1862  SD  MET   230      13.414  66.452  90.430  1.00 85.20       1SG    
ATOM   1863  CE  MET   230      15.072  66.989  90.940  1.00 85.20       1SG    
ATOM   1864  C   MET   230      12.485  61.782  91.262  1.00 85.20       1SG    
ATOM   1865  O   MET   230      13.161  61.561  92.267  1.00 85.20       1SG    
ATOM   1866  N   HIS   231      11.152  61.603  91.248  1.00 50.21       1SG    
ATOM   1867  CA  HIS   231      10.428  61.219  92.426  1.00 50.21       1SG    
ATOM   1868  ND1 HIS   231       8.028  62.753  94.134  1.00 50.21       1SG    
ATOM   1869  CG  HIS   231       8.210  61.516  93.556  1.00 50.21       1SG    
ATOM   1870  CB  HIS   231       8.908  61.330  92.245  1.00 50.21       1SG    
ATOM   1871  NE2 HIS   231       7.146  61.265  95.529  1.00 50.21       1SG    
ATOM   1872  CD2 HIS   231       7.664  60.618  94.419  1.00 50.21       1SG    
ATOM   1873  CE1 HIS   231       7.390  62.545  95.312  1.00 50.21       1SG    
ATOM   1874  C   HIS   231      10.770  59.805  92.807  1.00 50.21       1SG    
ATOM   1875  O   HIS   231      10.916  59.490  93.988  1.00 50.21       1SG    
ATOM   1876  N   THR   232      10.921  58.909  91.811  1.00102.10       1SG    
ATOM   1877  CA  THR   232      11.172  57.522  92.099  1.00102.10       1SG    
ATOM   1878  CB  THR   232      11.217  56.652  90.876  1.00102.10       1SG    
ATOM   1879  OG1 THR   232      11.192  55.287  91.257  1.00102.10       1SG    
ATOM   1880  CG2 THR   232      12.506  56.932  90.093  1.00102.10       1SG    
ATOM   1881  C   THR   232      12.478  57.391  92.820  1.00102.10       1SG    
ATOM   1882  O   THR   232      12.616  56.568  93.724  1.00102.10       1SG    
ATOM   1883  N   MET   233      13.479  58.199  92.426  1.00 35.93       1SG    
ATOM   1884  CA  MET   233      14.781  58.170  93.032  1.00 35.93       1SG    
ATOM   1885  CB  MET   233      15.770  59.141  92.362  1.00 35.93       1SG    
ATOM   1886  CG  MET   233      16.159  58.744  90.937  1.00 35.93       1SG    
ATOM   1887  SD  MET   233      17.237  59.947  90.106  1.00 35.93       1SG    
ATOM   1888  CE  MET   233      18.660  59.695  91.208  1.00 35.93       1SG    
ATOM   1889  C   MET   233      14.658  58.587  94.468  1.00 35.93       1SG    
ATOM   1890  O   MET   233      15.351  58.063  95.338  1.00 35.93       1SG    
ATOM   1891  N   LYS   234      13.767  59.555  94.746  1.00 84.85       1SG    
ATOM   1892  CA  LYS   234      13.593  60.088  96.068  1.00 84.85       1SG    
ATOM   1893  CB  LYS   234      12.559  61.226  96.127  1.00 84.85       1SG    
ATOM   1894  CG  LYS   234      13.015  62.523  95.456  1.00 84.85       1SG    
ATOM   1895  CD  LYS   234      11.890  63.547  95.291  1.00 84.85       1SG    
ATOM   1896  CE  LYS   234      12.374  64.938  94.879  1.00 84.85       1SG    
ATOM   1897  NZ  LYS   234      13.078  65.584  96.011  1.00 84.85       1SG    
ATOM   1898  C   LYS   234      13.114  59.021  97.003  1.00 84.85       1SG    
ATOM   1899  O   LYS   234      13.523  58.974  98.162  1.00 84.85       1SG    
ATOM   1900  N   ASN   235      12.239  58.123  96.521  1.00 35.28       1SG    
ATOM   1901  CA  ASN   235      11.659  57.139  97.387  1.00 35.28       1SG    
ATOM   1902  CB  ASN   235      10.698  56.197  96.642  1.00 35.28       1SG    
ATOM   1903  CG  ASN   235       9.482  57.020  96.236  1.00 35.28       1SG    
ATOM   1904  OD1 ASN   235       8.865  57.681  97.069  1.00 35.28       1SG    
ATOM   1905  ND2 ASN   235       9.133  56.989  94.922  1.00 35.28       1SG    
ATOM   1906  C   ASN   235      12.745  56.308  97.991  1.00 35.28       1SG    
ATOM   1907  O   ASN   235      12.697  55.985  99.178  1.00 35.28       1SG    
ATOM   1908  N   THR   236      13.754  55.941  97.184  1.00 46.53       1SG    
ATOM   1909  CA  THR   236      14.819  55.097  97.641  1.00 46.53       1SG    
ATOM   1910  CB  THR   236      15.777  54.735  96.542  1.00 46.53       1SG    
ATOM   1911  OG1 THR   236      15.095  54.064  95.492  1.00 46.53       1SG    
ATOM   1912  CG2 THR   236      16.873  53.825  97.123  1.00 46.53       1SG    
ATOM   1913  C   THR   236      15.596  55.786  98.711  1.00 46.53       1SG    
ATOM   1914  O   THR   236      15.919  55.177  99.729  1.00 46.53       1SG    
ATOM   1915  N   GLY   237      15.915  57.079  98.518  1.00 78.16       1SG    
ATOM   1916  CA  GLY   237      16.684  57.771  99.511  1.00 78.16       1SG    
ATOM   1917  C   GLY   237      15.783  57.947 100.683  1.00 78.16       1SG    
ATOM   1918  O   GLY   237      14.564  57.882 100.541  1.00 78.16       1SG    
ATOM   1919  N   ARG   238      16.359  58.173 101.880  1.00276.31       1SG    
ATOM   1920  CA  ARG   238      15.524  58.324 103.035  1.00276.31       1SG    
ATOM   1921  CB  ARG   238      16.018  57.540 104.265  1.00276.31       1SG    
ATOM   1922  CG  ARG   238      15.054  57.595 105.456  1.00276.31       1SG    
ATOM   1923  CD  ARG   238      15.689  57.191 106.790  1.00276.31       1SG    
ATOM   1924  NE  ARG   238      16.183  55.792 106.662  1.00276.31       1SG    
ATOM   1925  CZ  ARG   238      17.257  55.387 107.401  1.00276.31       1SG    
ATOM   1926  NH1 ARG   238      17.866  56.262 108.253  1.00276.31       1SG    
ATOM   1927  NH2 ARG   238      17.727  54.111 107.284  1.00276.31       1SG    
ATOM   1928  C   ARG   238      15.525  59.768 103.419  1.00276.31       1SG    
ATOM   1929  O   ARG   238      16.575  60.364 103.651  1.00276.31       1SG    
TER
END
