
#######################################################
#                                                     #
#                        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   23 (  193),  selected   23 , name T0386TS338_4_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS338_4_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    -       -      R     238           -
LGA    N     219      N     239          1.051
LGA    P     220      V     240          1.734
LGA    E     221      N     241          2.184
LGA    K     222      D     242          2.929
LGA    I     223      R     243          0.890
LGA    R     224      P     244          1.905
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     225      G     272          3.100
LGA    L     226      A     273          3.020
LGA    K     227      Y     274          2.724
LGA    E     228      -       -           -
LGA    F     229      -       -           -
LGA    M     230      I     275          3.483
LGA    H     231      I     276          1.524
LGA    T     232      G     277          4.165
LGA    M     233      -       -           -
LGA    K     234      -       -           -
LGA    N     235      N     278          2.960
LGA    T     236      -       -           -
LGA    G     237      I     279          1.012
LGA    R     238      D     280          2.144
LGA    N     239      H     281          2.032
LGA    V     240      L     282          3.372
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    N     241      F     298          4.103
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   23   81    5.0     18    2.65    11.11     14.531     0.654

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.417730 * X  +   0.314884 * Y  +  -0.852262 * Z  +  -8.092862
  Y_new =  -0.849544 * X  +  -0.467953 * Y  +   0.243504 * Z  +  67.188408
  Z_new =  -0.322143 * X  +   0.825753 * Y  +   0.462986 * Z  +  30.532902 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.059788   -2.081805  [ DEG:    60.7214   -119.2786 ]
  Theta =   0.327993    2.813600  [ DEG:    18.7926    161.2074 ]
  Phi   =  -2.027790    1.113803  [ DEG:  -116.1838     63.8162 ]
 
# 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: T0386TS338_4_1-D2                             
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS338_4_1-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   23   81   5.0   18   2.65   11.11  14.531
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS338_4_1-D2
REMARK PARENT number 1
PFRMAT TS
TARGET T0386
PARENT 2g03_A 2f6s_A
ATOM   1761  N   ASN   219      21.619  71.473  71.710  1.00  0.01
ATOM   1762  CA  ASN   219      21.600  71.389  70.281  1.00  0.01
ATOM   1763  CB  ASN   219      22.759  72.163  69.632  1.00  0.01
ATOM   1764  CG  ASN   219      22.524  73.643  69.876  1.00  0.01
ATOM   1765  OD1 ASN   219      21.458  74.170  69.563  1.00  0.01
ATOM   1766  ND2 ASN   219      23.543  74.335  70.455  1.00  0.01
ATOM   1767  C   ASN   219      21.737  69.966  69.841  1.00  0.01
ATOM   1768  O   ASN   219      21.098  69.569  68.869  1.00  0.01
ATOM   1769  N   PRO   220      22.575  69.183  70.479  1.00  0.03
ATOM   1770  CA  PRO   220      22.724  67.832  70.012  1.00  0.03
ATOM   1771  CD  PRO   220      23.813  69.689  71.053  1.00  0.03
ATOM   1772  CB  PRO   220      23.964  67.281  70.709  1.00  0.03
ATOM   1773  CG  PRO   220      24.827  68.538  70.932  1.00  0.03
ATOM   1774  C   PRO   220      21.485  67.023  70.192  1.00  0.03
ATOM   1775  O   PRO   220      21.328  66.371  71.222  1.00  0.03
ATOM   1776  N   GLU   221      20.630  67.006  69.160  1.00  0.01
ATOM   1777  CA  GLU   221      19.377  66.317  69.181  1.00  0.01
ATOM   1778  CB  GLU   221      18.502  66.699  67.975  1.00  0.01
ATOM   1779  CG  GLU   221      18.130  68.180  67.908  1.00  0.01
ATOM   1780  CD  GLU   221      16.770  68.371  68.560  1.00  0.01
ATOM   1781  OE1 GLU   221      16.259  67.406  69.188  1.00  0.01
ATOM   1782  OE2 GLU   221      16.221  69.498  68.434  1.00  0.01
ATOM   1783  C   GLU   221      19.593  64.847  69.058  1.00  0.01
ATOM   1784  O   GLU   221      18.872  64.058  69.663  1.00  0.01
ATOM   1785  N   LYS   222      20.564  64.475  68.200  1.00  0.02
ATOM   1786  CA  LYS   222      20.878  63.137  67.779  1.00  0.02
ATOM   1787  CB  LYS   222      21.795  63.106  66.545  1.00  0.02
ATOM   1788  CG  LYS   222      23.207  63.630  66.815  1.00  0.02
ATOM   1789  CD  LYS   222      24.204  63.288  65.705  1.00  0.02
ATOM   1790  CE  LYS   222      25.619  63.809  65.966  1.00  0.02
ATOM   1791  NZ  LYS   222      26.253  63.044  67.063  1.00  0.02
ATOM   1792  C   LYS   222      21.539  62.284  68.807  1.00  0.02
ATOM   1793  O   LYS   222      21.291  61.080  68.832  1.00  0.02
ATOM   1794  N   ILE   223      22.401  62.863  69.666  1.00  0.01
ATOM   1795  CA  ILE   223      23.221  62.040  70.513  1.00  0.01
ATOM   1796  CB  ILE   223      24.122  62.829  71.417  1.00  0.01
ATOM   1797  CG2 ILE   223      23.240  63.623  72.394  1.00  0.01
ATOM   1798  CG1 ILE   223      25.150  61.903  72.085  1.00  0.01
ATOM   1799  CD1 ILE   223      26.335  62.641  72.704  1.00  0.01
ATOM   1800  C   ILE   223      22.398  61.095  71.336  1.00  0.01
ATOM   1801  O   ILE   223      21.529  61.488  72.113  1.00  0.01
ATOM   1802  N   ARG   224      22.684  59.789  71.157  1.00  0.01
ATOM   1803  CA  ARG   224      22.020  58.720  71.844  1.00  0.01
ATOM   1804  CB  ARG   224      22.418  57.334  71.309  1.00  0.01
ATOM   1805  CG  ARG   224      23.920  57.048  71.376  1.00  0.01
ATOM   1806  CD  ARG   224      24.323  55.743  70.685  1.00  0.01
ATOM   1807  NE  ARG   224      23.748  54.620  71.476  1.00  0.01
ATOM   1808  CZ  ARG   224      24.485  54.048  72.471  1.00  0.01
ATOM   1809  NH1 ARG   224      25.762  54.470  72.702  1.00  0.01
ATOM   1810  NH2 ARG   224      23.943  53.057  73.239  1.00  0.01
ATOM   1811  C   ARG   224      22.373  58.801  73.296  1.00  0.01
ATOM   1812  O   ARG   224      21.549  58.489  74.152  1.00  0.01
ATOM   1813  N   LEU   225      23.620  59.214  73.604  1.00  0.01
ATOM   1814  CA  LEU   225      24.101  59.300  74.957  1.00  0.01
ATOM   1815  CB  LEU   225      25.578  59.748  74.982  1.00  0.01
ATOM   1816  CG  LEU   225      26.269  59.762  76.363  1.00  0.01
ATOM   1817  CD1 LEU   225      25.704  60.847  77.294  1.00  0.01
ATOM   1818  CD2 LEU   225      26.275  58.360  76.990  1.00  0.01
ATOM   1819  C   LEU   225      23.281  60.305  75.714  1.00  0.01
ATOM   1820  O   LEU   225      22.799  60.024  76.811  1.00  0.01
ATOM   1821  N   LEU   226      23.084  61.510  75.145  1.00  0.01
ATOM   1822  CA  LEU   226      22.303  62.491  75.840  1.00  0.01
ATOM   1823  CB  LEU   226      22.272  63.878  75.171  1.00  0.01
ATOM   1824  CG  LEU   226      23.571  64.675  75.390  1.00  0.01
ATOM   1825  CD1 LEU   226      24.798  63.905  74.883  1.00  0.01
ATOM   1826  CD2 LEU   226      23.464  66.085  74.792  1.00  0.01
ATOM   1827  C   LEU   226      20.917  61.969  75.947  1.00  0.01
ATOM   1828  O   LEU   226      20.273  62.142  76.977  1.00  0.01
ATOM   1829  N   LYS   227      20.429  61.298  74.889  1.00  0.01
ATOM   1830  CA  LYS   227      19.086  60.796  74.889  1.00  0.01
ATOM   1831  CB  LYS   227      18.690  60.107  73.570  1.00  0.01
ATOM   1832  CG  LYS   227      18.572  61.057  72.375  1.00  0.01
ATOM   1833  CD  LYS   227      18.408  60.331  71.037  1.00  0.01
ATOM   1834  CE  LYS   227      18.244  61.272  69.842  1.00  0.01
ATOM   1835  NZ  LYS   227      18.078  60.485  68.598  1.00  0.01
ATOM   1836  C   LYS   227      18.910  59.784  75.984  1.00  0.01
ATOM   1837  O   LYS   227      17.921  59.827  76.711  1.00  0.01
ATOM   1838  N   GLU   228      19.872  58.850  76.137  1.00  0.01
ATOM   1839  CA  GLU   228      19.762  57.798  77.113  1.00  0.01
ATOM   1840  CB  GLU   228      20.940  56.813  77.059  1.00  0.01
ATOM   1841  CG  GLU   228      20.833  55.693  78.094  1.00  0.01
ATOM   1842  CD  GLU   228      22.120  54.888  78.036  1.00  0.01
ATOM   1843  OE1 GLU   228      23.045  55.308  77.290  1.00  0.01
ATOM   1844  OE2 GLU   228      22.195  53.844  78.737  1.00  0.01
ATOM   1845  C   GLU   228      19.756  58.378  78.491  1.00  0.01
ATOM   1846  O   GLU   228      18.954  57.983  79.338  1.00  0.01
ATOM   1847  N   PHE   229      20.653  59.346  78.752  1.00  0.01
ATOM   1848  CA  PHE   229      20.723  59.942  80.053  1.00  0.01
ATOM   1849  CB  PHE   229      21.844  60.987  80.204  1.00  0.01
ATOM   1850  CG  PHE   229      23.131  60.262  80.401  1.00  0.01
ATOM   1851  CD1 PHE   229      23.825  59.731  79.341  1.00  0.01
ATOM   1852  CD2 PHE   229      23.647  60.126  81.670  1.00  0.01
ATOM   1853  CE1 PHE   229      25.011  59.069  79.551  1.00  0.01
ATOM   1854  CE2 PHE   229      24.833  59.465  81.881  1.00  0.01
ATOM   1855  CZ  PHE   229      25.520  58.931  80.818  1.00  0.01
ATOM   1856  C   PHE   229      19.427  60.630  80.321  1.00  0.01
ATOM   1857  O   PHE   229      18.926  60.603  81.443  1.00  0.01
ATOM   1858  N   MET   230      18.854  61.278  79.290  1.00  0.01
ATOM   1859  CA  MET   230      17.636  62.004  79.496  1.00  0.01
ATOM   1860  CB  MET   230      17.010  62.604  78.224  1.00  0.01
ATOM   1861  CG  MET   230      17.930  63.473  77.382  1.00  0.01
ATOM   1862  SD  MET   230      18.886  64.691  78.315  1.00  0.01
ATOM   1863  CE  MET   230      19.676  65.389  76.836  1.00  0.01
ATOM   1864  C   MET   230      16.578  61.049  79.935  1.00  0.01
ATOM   1865  O   MET   230      15.843  61.315  80.884  1.00  0.01
ATOM   1866  N   HIS   231      16.483  59.900  79.242  1.00  0.01
ATOM   1867  CA  HIS   231      15.410  59.000  79.526  1.00  0.01
ATOM   1868  ND1 HIS   231      12.802  57.726  78.034  1.00  0.01
ATOM   1869  CG  HIS   231      13.912  57.228  78.682  1.00  0.01
ATOM   1870  CB  HIS   231      15.280  57.822  78.550  1.00  0.01
ATOM   1871  NE2 HIS   231      12.093  56.052  79.312  1.00  0.01
ATOM   1872  CD2 HIS   231      13.462  56.202  79.453  1.00  0.01
ATOM   1873  CE1 HIS   231      11.742  56.989  78.447  1.00  0.01
ATOM   1874  C   HIS   231      15.564  58.445  80.904  1.00  0.01
ATOM   1875  O   HIS   231      14.579  58.256  81.616  1.00  0.01
ATOM   1876  N   THR   232      16.809  58.164  81.324  1.00  0.01
ATOM   1877  CA  THR   232      17.014  57.621  82.634  1.00  0.01
ATOM   1878  CB  THR   232      18.465  57.380  82.938  1.00  0.01
ATOM   1879  OG1 THR   232      19.017  56.472  81.995  1.00  0.01
ATOM   1880  CG2 THR   232      18.587  56.807  84.360  1.00  0.01
ATOM   1881  C   THR   232      16.495  58.617  83.624  1.00  0.01
ATOM   1882  O   THR   232      15.829  58.256  84.594  1.00  0.01
ATOM   1883  N   MET   233      16.783  59.909  83.391  1.00  0.01
ATOM   1884  CA  MET   233      16.356  60.959  84.272  1.00  0.01
ATOM   1885  CB  MET   233      16.869  62.342  83.837  1.00  0.01
ATOM   1886  CG  MET   233      16.429  63.484  84.757  1.00  0.01
ATOM   1887  SD  MET   233      17.221  63.485  86.393  1.00  0.01
ATOM   1888  CE  MET   233      16.223  62.124  87.050  1.00  0.01
ATOM   1889  C   MET   233      14.861  61.027  84.280  1.00  0.01
ATOM   1890  O   MET   233      14.269  61.245  85.333  1.00  0.01
ATOM   1891  N   LYS   234      14.218  60.847  83.108  1.00  0.01
ATOM   1892  CA  LYS   234      12.786  60.930  82.973  1.00  0.01
ATOM   1893  CB  LYS   234      12.299  60.615  81.545  1.00  0.01
ATOM   1894  CG  LYS   234      12.851  61.503  80.429  1.00  0.01
ATOM   1895  CD  LYS   234      12.486  62.982  80.536  1.00  0.01
ATOM   1896  CE  LYS   234      12.723  63.738  79.228  1.00  0.01
ATOM   1897  NZ  LYS   234      14.019  63.328  78.640  1.00  0.01
ATOM   1898  C   LYS   234      12.151  59.864  83.816  1.00  0.01
ATOM   1899  O   LYS   234      11.117  60.090  84.443  1.00  0.01
ATOM   1900  N   ASN   235      12.734  58.650  83.804  1.00  0.01
ATOM   1901  CA  ASN   235      12.225  57.555  84.577  1.00  0.01
ATOM   1902  CB  ASN   235      12.956  56.229  84.318  1.00  0.01
ATOM   1903  CG  ASN   235      12.484  55.700  82.973  1.00  0.01
ATOM   1904  OD1 ASN   235      12.379  56.450  82.006  1.00  0.01
ATOM   1905  ND2 ASN   235      12.175  54.377  82.913  1.00  0.01
ATOM   1906  C   ASN   235      12.410  57.915  86.001  1.00  0.01
ATOM   1907  O   ASN   235      11.566  57.628  86.849  1.00  0.01
ATOM   1908  N   THR   236      13.543  58.563  86.305  1.00  0.01
ATOM   1909  CA  THR   236      13.686  59.024  87.640  1.00  0.01
ATOM   1910  CB  THR   236      15.034  59.596  87.953  1.00  0.01
ATOM   1911  OG1 THR   236      16.046  58.625  87.738  1.00  0.01
ATOM   1912  CG2 THR   236      15.048  60.064  89.418  1.00  0.01
ATOM   1913  C   THR   236      12.701  60.128  87.658  1.00  0.01
ATOM   1914  O   THR   236      12.226  60.581  86.632  1.00  0.01
ATOM   1915  N   GLY   237      12.254  60.572  88.808  1.00  0.01
ATOM   1916  CA  GLY   237      11.267  61.594  88.699  1.00  0.01
ATOM   1917  C   GLY   237       9.972  60.907  88.944  1.00  0.01
ATOM   1918  O   GLY   237       9.181  61.344  89.777  1.00  0.01
ATOM   1919  N   ARG   238       9.720  59.807  88.202  1.00  0.01
ATOM   1920  CA  ARG   238       8.542  59.041  88.468  1.00  0.01
ATOM   1921  CB  ARG   238       8.303  57.918  87.446  1.00  0.01
ATOM   1922  CG  ARG   238       7.940  58.430  86.051  1.00  0.01
ATOM   1923  CD  ARG   238       6.469  58.825  85.900  1.00  0.01
ATOM   1924  NE  ARG   238       6.245  60.057  86.708  1.00  0.01
ATOM   1925  CZ  ARG   238       5.733  59.967  87.970  1.00  0.01
ATOM   1926  NH1 ARG   238       5.395  58.748  88.485  1.00  0.01
ATOM   1927  NH2 ARG   238       5.552  61.097  88.715  1.00  0.01
ATOM   1928  C   ARG   238       8.760  58.409  89.795  1.00  0.01
ATOM   1929  O   ARG   238       7.908  58.496  90.676  1.00  0.01
ATOM   1930  N   ASN   239       9.937  57.760  89.940  1.00  0.03
ATOM   1931  CA  ASN   239      10.410  57.153  91.151  1.00  0.03
ATOM   1932  CB  ASN   239       9.311  56.661  92.115  1.00  0.03
ATOM   1933  CG  ASN   239       8.455  55.636  91.383  1.00  0.03
ATOM   1934  OD1 ASN   239       8.428  55.589  90.155  1.00  0.03
ATOM   1935  ND2 ASN   239       7.726  54.793  92.162  1.00  0.03
ATOM   1936  C   ASN   239      11.219  55.951  90.783  1.00  0.03
ATOM   1937  O   ASN   239      11.098  54.907  91.420  1.00  0.03
ATOM   1938  N   VAL   240      12.097  56.057  89.768  1.00  0.01
ATOM   1939  CA  VAL   240      12.867  54.885  89.471  1.00  0.01
ATOM   1940  CB  VAL   240      12.863  54.470  88.025  1.00  0.01
ATOM   1941  CG1 VAL   240      13.626  55.508  87.187  1.00  0.01
ATOM   1942  CG2 VAL   240      13.454  53.054  87.934  1.00  0.01
ATOM   1943  C   VAL   240      14.274  55.174  89.868  1.00  0.01
ATOM   1944  O   VAL   240      14.828  56.223  89.540  1.00  0.01
ATOM   1945  N   ASN   241      14.885  54.234  90.609  1.00  0.00
ATOM   1946  CA  ASN   241      16.226  54.416  91.071  1.00  0.00
ATOM   1947  CB  ASN   241      16.730  53.237  91.919  1.00  0.00
ATOM   1948  CG  ASN   241      18.140  53.554  92.393  1.00  0.00
ATOM   1949  OD1 ASN   241      18.329  54.193  93.427  1.00  0.00
ATOM   1950  ND2 ASN   241      19.159  53.087  91.621  1.00  0.00
ATOM   1951  C   ASN   241      17.129  54.532  89.854  1.00  0.00
ATOM   1952  O   ASN   241      17.518  53.468  89.304  1.00  0.00
ATOM   1953  OXT ASN   241      17.449  55.685  89.460  1.00  0.00
TER
END
