
#######################################################
#                                                     #
#                        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_2_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS338_2_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      N     219          4.292
LGA    E     221      P     220          3.309
LGA    -       -      E     221           -
LGA    K     222      K     222          3.442
LGA    I     223      I     223          1.209
LGA    -       -      R     224           -
LGA    R     224      L     225          1.950
LGA    -       -      L     226           -
LGA    -       -      K     227           -
LGA    -       -      E     228           -
LGA    L     225      F     229           #
LGA    L     226      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    K     227      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     228      E     264          4.602
LGA    F     229      G     265          2.847
LGA    M     230      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    H     231      N     278          2.060
LGA    T     232      I     279          1.522
LGA    M     233      D     280          1.598
LGA    K     234      H     281          1.179
LGA    N     235      L     282          1.010
LGA    T     236      P     283          3.134
LGA    G     237      P     284          3.437
LGA    R     238      -       -           -
LGA    N     239      E     285          1.596
LGA    V     240      Q     286          0.979
LGA    N     241      L     287          2.523
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)   23   81    5.0     17    2.64    17.65     15.226     0.620

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.968662 * X  +   0.224668 * Y  +   0.105920 * Z  +  17.831575
  Y_new =  -0.074958 * X  +   0.670967 * Y  +  -0.737688 * Z  +  23.279800
  Z_new =  -0.236804 * X  +   0.706631 * Y  +   0.666781 * Z  +  45.104511 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.814405   -2.327187  [ DEG:    46.6620   -133.3380 ]
  Theta =   0.239075    2.902518  [ DEG:    13.6980    166.3020 ]
  Phi   =  -0.077229    3.064363  [ DEG:    -4.4249    175.5751 ]
 
# 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_2_1-D2                             
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS338_2_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   17   2.64   17.65  15.226
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS338_2_1-D2
REMARK PARENT number 1
PFRMAT TS
TARGET T0386
PARENT 2g03_A 2f6s_A
ATOM   1761  N   ASN   219      -2.449  56.581  78.927  1.00  0.01
ATOM   1762  CA  ASN   219      -2.419  56.195  77.551  1.00  0.01
ATOM   1763  CB  ASN   219      -3.683  56.639  76.791  1.00  0.01
ATOM   1764  CG  ASN   219      -3.754  55.853  75.495  1.00  0.01
ATOM   1765  OD1 ASN   219      -2.946  54.957  75.254  1.00  0.01
ATOM   1766  ND2 ASN   219      -4.749  56.195  74.635  1.00  0.01
ATOM   1767  C   ASN   219      -1.235  56.814  76.874  1.00  0.01
ATOM   1768  O   ASN   219      -0.594  56.156  76.056  1.00  0.01
ATOM   1769  N   PRO   220      -0.928  58.063  77.138  1.00  0.03
ATOM   1770  CA  PRO   220       0.210  58.619  76.454  1.00  0.03
ATOM   1771  CD  PRO   220      -1.963  59.069  77.341  1.00  0.03
ATOM   1772  CB  PRO   220       0.086  60.134  76.573  1.00  0.03
ATOM   1773  CG  PRO   220      -1.435  60.352  76.672  1.00  0.03
ATOM   1774  C   PRO   220       1.511  58.057  76.919  1.00  0.03
ATOM   1775  O   PRO   220       2.110  58.604  77.843  1.00  0.03
ATOM   1776  N   GLU   221       1.986  57.003  76.241  1.00  0.01
ATOM   1777  CA  GLU   221       3.206  56.326  76.566  1.00  0.01
ATOM   1778  CB  GLU   221       3.311  54.958  75.869  1.00  0.01
ATOM   1779  CG  GLU   221       4.614  54.213  76.165  1.00  0.01
ATOM   1780  CD  GLU   221       4.537  53.622  77.568  1.00  0.01
ATOM   1781  OE1 GLU   221       3.411  53.255  77.999  1.00  0.01
ATOM   1782  OE2 GLU   221       5.605  53.530  78.230  1.00  0.01
ATOM   1783  C   GLU   221       4.387  57.132  76.141  1.00  0.01
ATOM   1784  O   GLU   221       5.451  57.059  76.750  1.00  0.01
ATOM   1785  N   LYS   222       4.224  57.852  75.020  1.00  0.02
ATOM   1786  CA  LYS   222       5.253  58.590  74.347  1.00  0.02
ATOM   1787  CB  LYS   222       4.812  58.986  72.931  1.00  0.02
ATOM   1788  CG  LYS   222       5.945  59.499  72.046  1.00  0.02
ATOM   1789  CD  LYS   222       5.538  59.589  70.574  1.00  0.02
ATOM   1790  CE  LYS   222       5.143  58.242  69.959  1.00  0.02
ATOM   1791  NZ  LYS   222       3.752  57.896  70.328  1.00  0.02
ATOM   1792  C   LYS   222       5.705  59.835  75.044  1.00  0.02
ATOM   1793  O   LYS   222       6.891  60.157  74.980  1.00  0.02
ATOM   1794  N   ILE   223       4.802  60.574  75.720  1.00  0.01
ATOM   1795  CA  ILE   223       5.176  61.884  76.180  1.00  0.01
ATOM   1796  CB  ILE   223       4.056  62.636  76.848  1.00  0.01
ATOM   1797  CG2 ILE   223       3.724  61.945  78.177  1.00  0.01
ATOM   1798  CG1 ILE   223       4.415  64.126  76.993  1.00  0.01
ATOM   1799  CD1 ILE   223       3.220  65.012  77.337  1.00  0.01
ATOM   1800  C   ILE   223       6.368  61.828  77.087  1.00  0.01
ATOM   1801  O   ILE   223       6.397  61.111  78.085  1.00  0.01
ATOM   1802  N   ARG   224       7.409  62.611  76.732  1.00  0.01
ATOM   1803  CA  ARG   224       8.629  62.678  77.481  1.00  0.01
ATOM   1804  CB  ARG   224       9.738  63.482  76.778  1.00  0.01
ATOM   1805  CG  ARG   224       9.340  64.900  76.368  1.00  0.01
ATOM   1806  CD  ARG   224       8.501  64.899  75.089  1.00  0.01
ATOM   1807  NE  ARG   224       9.130  63.874  74.208  1.00  0.01
ATOM   1808  CZ  ARG   224       8.503  63.421  73.085  1.00  0.01
ATOM   1809  NH1 ARG   224       7.388  64.047  72.608  1.00  0.01
ATOM   1810  NH2 ARG   224       8.993  62.315  72.454  1.00  0.01
ATOM   1811  C   ARG   224       8.350  63.291  78.817  1.00  0.01
ATOM   1812  O   ARG   224       8.997  62.936  79.800  1.00  0.01
ATOM   1813  N   LEU   225       7.388  64.236  78.883  1.00  0.01
ATOM   1814  CA  LEU   225       7.058  64.921  80.106  1.00  0.01
ATOM   1815  CB  LEU   225       5.952  65.976  79.871  1.00  0.01
ATOM   1816  CG  LEU   225       5.503  66.798  81.100  1.00  0.01
ATOM   1817  CD1 LEU   225       4.697  65.971  82.114  1.00  0.01
ATOM   1818  CD2 LEU   225       6.697  67.528  81.735  1.00  0.01
ATOM   1819  C   LEU   225       6.567  63.927  81.121  1.00  0.01
ATOM   1820  O   LEU   225       7.014  63.924  82.269  1.00  0.01
ATOM   1821  N   LEU   226       5.637  63.039  80.726  1.00  0.01
ATOM   1822  CA  LEU   226       5.136  62.071  81.656  1.00  0.01
ATOM   1823  CB  LEU   226       3.967  61.226  81.118  1.00  0.01
ATOM   1824  CG  LEU   226       2.673  62.044  80.928  1.00  0.01
ATOM   1825  CD1 LEU   226       1.471  61.143  80.605  1.00  0.01
ATOM   1826  CD2 LEU   226       2.421  62.969  82.125  1.00  0.01
ATOM   1827  C   LEU   226       6.265  61.169  82.023  1.00  0.01
ATOM   1828  O   LEU   226       6.378  60.741  83.170  1.00  0.01
ATOM   1829  N   LYS   227       7.135  60.854  81.047  1.00  0.01
ATOM   1830  CA  LYS   227       8.244  59.981  81.304  1.00  0.01
ATOM   1831  CB  LYS   227       9.102  59.674  80.064  1.00  0.01
ATOM   1832  CG  LYS   227       8.482  58.676  79.088  1.00  0.01
ATOM   1833  CD  LYS   227       9.363  58.440  77.859  1.00  0.01
ATOM   1834  CE  LYS   227       8.897  57.291  76.961  1.00  0.01
ATOM   1835  NZ  LYS   227       9.924  57.009  75.933  1.00  0.01
ATOM   1836  C   LYS   227       9.175  60.591  82.305  1.00  0.01
ATOM   1837  O   LYS   227       9.616  59.911  83.229  1.00  0.01
ATOM   1838  N   GLU   228       9.495  61.891  82.152  1.00  0.01
ATOM   1839  CA  GLU   228      10.451  62.558  82.995  1.00  0.01
ATOM   1840  CB  GLU   228      10.575  64.054  82.657  1.00  0.01
ATOM   1841  CG  GLU   228      11.063  64.361  81.243  1.00  0.01
ATOM   1842  CD  GLU   228      10.891  65.860  81.029  1.00  0.01
ATOM   1843  OE1 GLU   228      11.018  66.614  82.031  1.00  0.01
ATOM   1844  OE2 GLU   228      10.623  66.269  79.868  1.00  0.01
ATOM   1845  C   GLU   228       9.950  62.540  84.399  1.00  0.01
ATOM   1846  O   GLU   228      10.677  62.190  85.327  1.00  0.01
ATOM   1847  N   PHE   229       8.670  62.909  84.580  1.00  0.01
ATOM   1848  CA  PHE   229       8.091  62.973  85.885  1.00  0.01
ATOM   1849  CB  PHE   229       6.642  63.492  85.892  1.00  0.01
ATOM   1850  CG  PHE   229       6.686  64.980  85.839  1.00  0.01
ATOM   1851  CD1 PHE   229       6.821  65.659  84.651  1.00  0.01
ATOM   1852  CD2 PHE   229       6.589  65.691  87.014  1.00  0.01
ATOM   1853  CE1 PHE   229       6.859  67.035  84.640  1.00  0.01
ATOM   1854  CE2 PHE   229       6.626  67.065  87.008  1.00  0.01
ATOM   1855  CZ  PHE   229       6.761  67.737  85.818  1.00  0.01
ATOM   1856  C   PHE   229       8.097  61.606  86.479  1.00  0.01
ATOM   1857  O   PHE   229       8.360  61.444  87.669  1.00  0.01
ATOM   1858  N   MET   230       7.797  60.580  85.662  1.00  0.01
ATOM   1859  CA  MET   230       7.741  59.240  86.165  1.00  0.01
ATOM   1860  CB  MET   230       7.365  58.202  85.090  1.00  0.01
ATOM   1861  CG  MET   230       5.971  58.375  84.483  1.00  0.01
ATOM   1862  SD  MET   230       5.567  57.170  83.183  1.00  0.01
ATOM   1863  CE  MET   230       7.046  57.441  82.171  1.00  0.01
ATOM   1864  C   MET   230       9.088  58.828  86.686  1.00  0.01
ATOM   1865  O   MET   230       9.186  58.267  87.776  1.00  0.01
ATOM   1866  N   HIS   231      10.170  59.104  85.928  1.00  0.01
ATOM   1867  CA  HIS   231      11.474  58.677  86.359  1.00  0.01
ATOM   1868  ND1 HIS   231      13.613  57.849  83.260  1.00  0.01
ATOM   1869  CG  HIS   231      12.603  57.940  84.193  1.00  0.01
ATOM   1870  CB  HIS   231      12.599  58.920  85.333  1.00  0.01
ATOM   1871  NE2 HIS   231      12.111  56.299  82.725  1.00  0.01
ATOM   1872  CD2 HIS   231      11.693  56.989  83.852  1.00  0.01
ATOM   1873  CE1 HIS   231      13.266  56.849  82.407  1.00  0.01
ATOM   1874  C   HIS   231      11.853  59.394  87.615  1.00  0.01
ATOM   1875  O   HIS   231      12.454  58.814  88.517  1.00  0.01
ATOM   1876  N   THR   232      11.511  60.688  87.710  1.00  0.00
ATOM   1877  CA  THR   232      11.888  61.439  88.868  1.00  0.00
ATOM   1878  CB  THR   232      11.407  62.854  88.792  1.00  0.00
ATOM   1879  OG1 THR   232      11.933  63.484  87.634  1.00  0.00
ATOM   1880  CG2 THR   232      11.868  63.595  90.056  1.00  0.00
ATOM   1881  C   THR   232      11.253  60.800  90.064  1.00  0.00
ATOM   1882  O   THR   232      11.891  60.618  91.102  1.00  0.00
ATOM   1883  N   MET   233       9.968  60.430  89.937  1.00  0.01
ATOM   1884  CA  MET   233       9.239  59.829  91.014  1.00  0.01
ATOM   1885  CB  MET   233       7.758  59.618  90.654  1.00  0.01
ATOM   1886  CG  MET   233       6.825  59.392  91.847  1.00  0.01
ATOM   1887  SD  MET   233       7.117  57.867  92.789  1.00  0.01
ATOM   1888  CE  MET   233       6.717  56.757  91.410  1.00  0.01
ATOM   1889  C   MET   233       9.846  58.497  91.345  1.00  0.01
ATOM   1890  O   MET   233       9.955  58.146  92.517  1.00  0.01
ATOM   1891  N   LYS   234      10.263  57.709  90.335  1.00  0.01
ATOM   1892  CA  LYS   234      10.821  56.411  90.619  1.00  0.01
ATOM   1893  CB  LYS   234      11.150  55.573  89.376  1.00  0.01
ATOM   1894  CG  LYS   234      12.380  56.074  88.619  1.00  0.01
ATOM   1895  CD  LYS   234      13.020  55.011  87.725  1.00  0.01
ATOM   1896  CE  LYS   234      12.080  54.414  86.677  1.00  0.01
ATOM   1897  NZ  LYS   234      12.792  53.377  85.894  1.00  0.01
ATOM   1898  C   LYS   234      12.114  56.555  91.366  1.00  0.01
ATOM   1899  O   LYS   234      12.472  55.693  92.167  1.00  0.01
ATOM   1900  N   ASN   235      12.888  57.612  91.059  1.00  0.01
ATOM   1901  CA  ASN   235      14.134  57.857  91.728  1.00  0.01
ATOM   1902  CB  ASN   235      14.921  59.033  91.124  1.00  0.01
ATOM   1903  CG  ASN   235      16.355  58.945  91.626  1.00  0.01
ATOM   1904  OD1 ASN   235      16.695  58.070  92.419  1.00  0.01
ATOM   1905  ND2 ASN   235      17.221  59.879  91.149  1.00  0.01
ATOM   1906  C   ASN   235      13.811  58.178  93.142  1.00  0.01
ATOM   1907  O   ASN   235      14.509  57.764  94.066  1.00  0.01
ATOM   1908  N   THR   236      12.723  58.933  93.364  1.00  0.02
ATOM   1909  CA  THR   236      12.366  59.088  94.733  1.00  0.02
ATOM   1910  CB  THR   236      11.444  60.241  95.051  1.00  0.02
ATOM   1911  OG1 THR   236      11.423  60.458  96.452  1.00  0.02
ATOM   1912  CG2 THR   236      10.021  59.948  94.561  1.00  0.02
ATOM   1913  C   THR   236      11.703  57.779  94.983  1.00  0.02
ATOM   1914  O   THR   236      11.536  56.976  94.084  1.00  0.02
ATOM   1915  N   GLY   237      11.349  57.426  96.199  1.00  0.01
ATOM   1916  CA  GLY   237      10.857  56.086  96.321  1.00  0.01
ATOM   1917  C   GLY   237      12.031  55.373  96.885  1.00  0.01
ATOM   1918  O   GLY   237      11.936  54.647  97.873  1.00  0.01
ATOM   1919  N   ARG   238      13.186  55.608  96.239  1.00  0.02
ATOM   1920  CA  ARG   238      14.455  55.253  96.780  1.00  0.02
ATOM   1921  CB  ARG   238      15.520  54.898  95.723  1.00  0.02
ATOM   1922  CG  ARG   238      16.885  54.495  96.296  1.00  0.02
ATOM   1923  CD  ARG   238      17.003  53.017  96.688  1.00  0.02
ATOM   1924  NE  ARG   238      16.066  52.739  97.814  1.00  0.02
ATOM   1925  CZ  ARG   238      15.376  51.560  97.853  1.00  0.02
ATOM   1926  NH1 ARG   238      15.500  50.656  96.838  1.00  0.02
ATOM   1927  NH2 ARG   238      14.549  51.289  98.905  1.00  0.02
ATOM   1928  C   ARG   238      14.772  56.605  97.283  1.00  0.02
ATOM   1929  O   ARG   238      14.488  57.570  96.586  1.00  0.02
ATOM   1930  N   ASN   239      15.326  56.766  98.486  1.00  0.02
ATOM   1931  CA  ASN   239      15.364  58.122  98.947  1.00  0.02
ATOM   1932  CB  ASN   239      15.754  58.248 100.432  1.00  0.02
ATOM   1933  CG  ASN   239      17.134  57.641 100.648  1.00  0.02
ATOM   1934  OD1 ASN   239      17.580  56.771  99.902  1.00  0.02
ATOM   1935  ND2 ASN   239      17.825  58.104 101.725  1.00  0.02
ATOM   1936  C   ASN   239      16.265  58.988  98.123  1.00  0.02
ATOM   1937  O   ASN   239      17.486  58.937  98.252  1.00  0.02
ATOM   1938  N   VAL   240      15.654  59.804  97.230  1.00  0.02
ATOM   1939  CA  VAL   240      16.354  60.823  96.508  1.00  0.02
ATOM   1940  CB  VAL   240      16.857  60.428  95.148  1.00  0.02
ATOM   1941  CG1 VAL   240      15.673  60.249  94.185  1.00  0.02
ATOM   1942  CG2 VAL   240      17.878  61.491  94.705  1.00  0.02
ATOM   1943  C   VAL   240      15.379  61.951  96.361  1.00  0.02
ATOM   1944  O   VAL   240      14.231  61.753  95.963  1.00  0.02
ATOM   1945  N   ASN   241      15.821  63.180  96.688  1.00  0.00
ATOM   1946  CA  ASN   241      14.933  64.305  96.630  1.00  0.00
ATOM   1947  CB  ASN   241      15.555  65.621  97.129  1.00  0.00
ATOM   1948  CG  ASN   241      15.681  65.555  98.642  1.00  0.00
ATOM   1949  OD1 ASN   241      15.024  64.757  99.306  1.00  0.00
ATOM   1950  ND2 ASN   241      16.550  66.437  99.209  1.00  0.00
ATOM   1951  C   ASN   241      14.525  64.527  95.185  1.00  0.00
ATOM   1952  O   ASN   241      15.422  64.785  94.338  1.00  0.00
ATOM   1953  OXT ASN   241      13.296  64.459  94.916  1.00  0.00
TER
END
