
#######################################################
#                                                     #
#                        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   15 (  130),  selected   15 , name T0386TS103_5-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS103_5-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

# WARNING! The change of the parameter DIST cutoff may give you better result.

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N     219           -
LGA    -       -      P     220           -
LGA    -       -      E     221           -
LGA    -       -      K     222           -
LGA    -       -      I     223           -
LGA    N     219      R     224          5.279
LGA    P     220      L     225          4.528
LGA    E     221      L     226          3.211
LGA    K     222      K     227          3.026
LGA    I     223      E     228          3.228
LGA    R     224      -       -           -
LGA    L     225      F     229          0.859
LGA    L     226      M     230          0.894
LGA    K     227      H     231          1.437
LGA    E     228      T     232          1.729
LGA    F     229      M     233          1.396
LGA    M     230      K     234          2.311
LGA    H     231      N     235          2.394
LGA    T     232      T     236          1.721
LGA    M     233      G     237          3.377
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    -       -      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    -       -      G     272           -
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    -       -      I     275           -
LGA    -       -      I     276           -
LGA    -       -      G     277           -
LGA    -       -      N     278           -
LGA    -       -      I     279           -
LGA    -       -      D     280           -
LGA    -       -      H     281           -
LGA    -       -      L     282           -
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    -       -      F     298           -
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   15   81    5.0     14    2.83    14.29     13.694     0.478

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.822530 * X  +  -0.203087 * Y  +  -0.531225 * Z  +  19.779402
  Y_new =   0.169699 * X  +   0.803874 * Y  +  -0.570077 * Z  +  21.129822
  Z_new =   0.542813 * X  +  -0.559054 * Y  +  -0.626747 * Z  + 108.301468 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.413219    0.728374  [ DEG:  -138.2673     41.7327 ]
  Theta =  -0.573783   -2.567810  [ DEG:   -32.8753   -147.1247 ]
  Phi   =   2.938133   -0.203459  [ DEG:   168.3427    -11.6573 ]
 
# 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_5-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS103_5-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   15   81   5.0   14   2.83   14.29  13.694
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS103_5-D2
PFRMAT TS
TARGET T0386
MODEL 5
PARENT 2g03_A
ATOM   1761  N   ASN   219      10.808  62.156  80.167  1.00104.89       1SG1762
ATOM   1762  CA  ASN   219       9.954  62.258  79.024  1.00104.89       1SG1763
ATOM   1763  CB  ASN   219       8.498  62.612  79.357  1.00104.89       1SG1764
ATOM   1764  CG  ASN   219       7.697  62.421  78.079  1.00104.89       1SG1765
ATOM   1765  OD1 ASN   219       7.899  63.139  77.101  1.00104.89       1SG1766
ATOM   1766  ND2 ASN   219       6.779  61.418  78.079  1.00104.89       1SG1767
ATOM   1767  C   ASN   219      10.498  63.323  78.147  1.00104.89       1SG1768
ATOM   1768  O   ASN   219      10.726  64.468  78.542  1.00104.89       1SG1769
ATOM   1769  N   PRO   220      10.717  62.912  76.937  1.00164.63       1SG1770
ATOM   1770  CA  PRO   220      11.319  63.783  75.987  1.00164.63       1SG1771
ATOM   1771  CD  PRO   220      10.970  61.511  76.637  1.00164.63       1SG1772
ATOM   1772  CB  PRO   220      11.631  62.921  74.767  1.00164.63       1SG1773
ATOM   1773  CG  PRO   220      11.844  61.519  75.372  1.00164.63       1SG1774
ATOM   1774  C   PRO   220      10.579  65.031  75.690  1.00164.63       1SG1775
ATOM   1775  O   PRO   220      11.177  66.092  75.813  1.00164.63       1SG1776
ATOM   1776  N   GLU   221       9.276  64.946  75.386  1.00108.23       1SG1777
ATOM   1777  CA  GLU   221       8.576  66.103  74.917  1.00108.23       1SG1778
ATOM   1778  CB  GLU   221       7.113  65.805  74.547  1.00108.23       1SG1779
ATOM   1779  CG  GLU   221       6.349  67.037  74.057  1.00108.23       1SG1780
ATOM   1780  CD  GLU   221       4.924  66.613  73.726  1.00108.23       1SG1781
ATOM   1781  OE1 GLU   221       4.384  65.738  74.453  1.00108.23       1SG1782
ATOM   1782  OE2 GLU   221       4.358  67.156  72.740  1.00108.23       1SG1783
ATOM   1783  C   GLU   221       8.543  67.170  75.943  1.00108.23       1SG1784
ATOM   1784  O   GLU   221       8.799  68.326  75.597  1.00108.23       1SG1785
ATOM   1785  N   LYS   222       8.295  66.767  77.212  1.00186.29       1SG1786
ATOM   1786  CA  LYS   222       8.043  67.604  78.356  1.00186.29       1SG1787
ATOM   1787  CB  LYS   222       8.364  66.928  79.700  1.00186.29       1SG1788
ATOM   1788  CG  LYS   222       7.414  65.774  80.027  1.00186.29       1SG1789
ATOM   1789  CD  LYS   222       7.870  64.908  81.202  1.00186.29       1SG1790
ATOM   1790  CE  LYS   222       6.895  63.780  81.550  1.00186.29       1SG1791
ATOM   1791  NZ  LYS   222       7.417  63.004  82.696  1.00186.29       1SG1792
ATOM   1792  C   LYS   222       8.824  68.861  78.251  1.00186.29       1SG1793
ATOM   1793  O   LYS   222       9.953  68.865  77.766  1.00186.29       1SG1794
ATOM   1794  N   ILE   223       8.224  69.959  78.747  1.00 94.01       1SG1795
ATOM   1795  CA  ILE   223       8.727  71.278  78.522  1.00 94.01       1SG1796
ATOM   1796  CB  ILE   223       7.996  72.319  79.316  1.00 94.01       1SG1797
ATOM   1797  CG2 ILE   223       8.734  73.652  79.128  1.00 94.01       1SG1798
ATOM   1798  CG1 ILE   223       6.514  72.374  78.908  1.00 94.01       1SG1799
ATOM   1799  CD1 ILE   223       5.654  73.203  79.861  1.00 94.01       1SG1800
ATOM   1800  C   ILE   223      10.145  71.317  78.951  1.00 94.01       1SG1801
ATOM   1801  O   ILE   223      10.987  71.873  78.252  1.00 94.01       1SG1802
ATOM   1802  N   ARG   224      10.462  70.718  80.104  1.00120.05       1SG1803
ATOM   1803  CA  ARG   224      11.839  70.758  80.459  1.00120.05       1SG1804
ATOM   1804  CB  ARG   224      12.121  70.104  81.824  1.00120.05       1SG1805
ATOM   1805  CG  ARG   224      11.596  70.914  83.013  1.00120.05       1SG1806
ATOM   1806  CD  ARG   224      12.699  71.622  83.804  1.00120.05       1SG1807
ATOM   1807  NE  ARG   224      13.502  70.566  84.484  1.00120.05       1SG1808
ATOM   1808  CZ  ARG   224      14.699  70.867  85.067  1.00120.05       1SG1809
ATOM   1809  NH1 ARG   224      15.178  72.146  85.042  1.00120.05       1SG1810
ATOM   1810  NH2 ARG   224      15.421  69.881  85.676  1.00120.05       1SG1811
ATOM   1811  C   ARG   224      12.631  70.015  79.423  1.00120.05       1SG1812
ATOM   1812  O   ARG   224      13.635  70.523  78.928  1.00120.05       1SG1813
ATOM   1813  N   LEU   225      12.228  68.785  79.051  1.00127.57       1SG1814
ATOM   1814  CA  LEU   225      13.117  68.104  78.154  1.00127.57       1SG1815
ATOM   1815  CB  LEU   225      12.856  66.595  78.069  1.00127.57       1SG1816
ATOM   1816  CG  LEU   225      13.170  65.892  79.402  1.00127.57       1SG1817
ATOM   1817  CD1 LEU   225      12.131  66.226  80.481  1.00127.57       1SG1818
ATOM   1818  CD2 LEU   225      13.395  64.391  79.201  1.00127.57       1SG1819
ATOM   1819  C   LEU   225      13.183  68.646  76.753  1.00127.57       1SG1820
ATOM   1820  O   LEU   225      14.199  69.215  76.360  1.00127.57       1SG1821
ATOM   1821  N   LEU   226      12.097  68.518  75.962  1.00 91.59       1SG1822
ATOM   1822  CA  LEU   226      12.199  68.907  74.574  1.00 91.59       1SG1823
ATOM   1823  CB  LEU   226      11.032  68.455  73.660  1.00 91.59       1SG1824
ATOM   1824  CG  LEU   226      11.011  66.970  73.242  1.00 91.59       1SG1825
ATOM   1825  CD1 LEU   226       9.835  66.672  72.297  1.00 91.59       1SG1826
ATOM   1826  CD2 LEU   226      12.362  66.514  72.676  1.00 91.59       1SG1827
ATOM   1827  C   LEU   226      12.240  70.382  74.412  1.00 91.59       1SG1828
ATOM   1828  O   LEU   226      13.118  70.933  73.753  1.00 91.59       1SG1829
ATOM   1829  N   LYS   227      11.267  71.066  75.027  1.00138.83       1SG1830
ATOM   1830  CA  LYS   227      11.157  72.463  74.760  1.00138.83       1SG1831
ATOM   1831  CB  LYS   227       9.895  73.082  75.383  1.00138.83       1SG1832
ATOM   1832  CG  LYS   227       8.618  72.463  74.808  1.00138.83       1SG1833
ATOM   1833  CD  LYS   227       8.498  72.610  73.289  1.00138.83       1SG1834
ATOM   1834  CE  LYS   227       7.393  71.752  72.667  1.00138.83       1SG1835
ATOM   1835  NZ  LYS   227       7.762  70.319  72.736  1.00138.83       1SG1836
ATOM   1836  C   LYS   227      12.349  73.163  75.295  1.00138.83       1SG1837
ATOM   1837  O   LYS   227      12.981  73.955  74.599  1.00138.83       1SG1838
ATOM   1838  N   GLU   228      12.711  72.846  76.546  1.00 99.55       1SG1839
ATOM   1839  CA  GLU   228      13.802  73.528  77.166  1.00 99.55       1SG1840
ATOM   1840  CB  GLU   228      13.978  73.218  78.659  1.00 99.55       1SG1841
ATOM   1841  CG  GLU   228      13.025  73.983  79.575  1.00 99.55       1SG1842
ATOM   1842  CD  GLU   228      13.557  75.408  79.669  1.00 99.55       1SG1843
ATOM   1843  OE1 GLU   228      13.715  76.049  78.596  1.00 99.55       1SG1844
ATOM   1844  OE2 GLU   228      13.825  75.873  80.810  1.00 99.55       1SG1845
ATOM   1845  C   GLU   228      15.081  73.187  76.482  1.00 99.55       1SG1846
ATOM   1846  O   GLU   228      15.959  74.043  76.387  1.00 99.55       1SG1847
ATOM   1847  N   PHE   229      15.238  71.939  75.988  1.00 84.91       1SG1848
ATOM   1848  CA  PHE   229      16.536  71.638  75.450  1.00 84.91       1SG1849
ATOM   1849  CB  PHE   229      16.812  70.170  75.031  1.00 84.91       1SG1850
ATOM   1850  CG  PHE   229      16.151  69.775  73.752  1.00 84.91       1SG1851
ATOM   1851  CD1 PHE   229      16.685  70.151  72.538  1.00 84.91       1SG1852
ATOM   1852  CD2 PHE   229      15.031  68.980  73.757  1.00 84.91       1SG1853
ATOM   1853  CE1 PHE   229      16.090  69.782  71.355  1.00 84.91       1SG1854
ATOM   1854  CE2 PHE   229      14.432  68.609  72.575  1.00 84.91       1SG1855
ATOM   1855  CZ  PHE   229      14.956  69.012  71.371  1.00 84.91       1SG1856
ATOM   1856  C   PHE   229      16.795  72.518  74.276  1.00 84.91       1SG1857
ATOM   1857  O   PHE   229      17.897  73.037  74.112  1.00 84.91       1SG1858
ATOM   1858  N   MET   230      15.771  72.733  73.432  1.00 90.06       1SG1859
ATOM   1859  CA  MET   230      15.986  73.550  72.276  1.00 90.06       1SG1860
ATOM   1860  CB  MET   230      14.712  73.773  71.444  1.00 90.06       1SG1861
ATOM   1861  CG  MET   230      14.942  74.653  70.213  1.00 90.06       1SG1862
ATOM   1862  SD  MET   230      13.439  75.021  69.258  1.00 90.06       1SG1863
ATOM   1863  CE  MET   230      12.714  76.067  70.553  1.00 90.06       1SG1864
ATOM   1864  C   MET   230      16.423  74.905  72.738  1.00 90.06       1SG1865
ATOM   1865  O   MET   230      17.337  75.500  72.166  1.00 90.06       1SG1866
ATOM   1866  N   HIS   231      15.781  75.431  73.798  1.00 95.55       1SG1867
ATOM   1867  CA  HIS   231      16.110  76.745  74.264  1.00 95.55       1SG1868
ATOM   1868  ND1 HIS   231      12.795  76.567  75.055  1.00 95.55       1SG1869
ATOM   1869  CG  HIS   231      13.812  77.495  75.050  1.00 95.55       1SG1870
ATOM   1870  CB  HIS   231      15.230  77.203  75.440  1.00 95.55       1SG1871
ATOM   1871  NE2 HIS   231      11.896  78.486  74.386  1.00 95.55       1SG1872
ATOM   1872  CD2 HIS   231      13.244  78.663  74.638  1.00 95.55       1SG1873
ATOM   1873  CE1 HIS   231      11.672  77.213  74.651  1.00 95.55       1SG1874
ATOM   1874  C   HIS   231      17.533  76.813  74.728  1.00 95.55       1SG1875
ATOM   1875  O   HIS   231      18.272  77.701  74.311  1.00 95.55       1SG1876
ATOM   1876  N   THR   232      17.980  75.873  75.586  1.00226.80       1SG1877
ATOM   1877  CA  THR   232      19.316  76.007  76.110  1.00226.80       1SG1878
ATOM   1878  CB  THR   232      19.388  75.720  77.589  1.00226.80       1SG1879
ATOM   1879  OG1 THR   232      20.720  75.870  78.059  1.00226.80       1SG1880
ATOM   1880  CG2 THR   232      18.852  74.310  77.879  1.00226.80       1SG1881
ATOM   1881  C   THR   232      20.252  75.087  75.394  1.00226.80       1SG1882
ATOM   1882  O   THR   232      20.763  74.114  75.932  1.00226.80       1SG1883
ATOM   1883  N   MET   233      20.566  75.418  74.142  1.00243.11       1SG1884
ATOM   1884  CA  MET   233      21.399  74.583  73.340  1.00243.11       1SG1885
ATOM   1885  CB  MET   233      21.208  74.926  71.893  1.00243.11       1SG1886
ATOM   1886  CG  MET   233      19.922  74.315  71.336  1.00243.11       1SG1887
ATOM   1887  SD  MET   233      19.941  72.496  71.297  1.00243.11       1SG1888
ATOM   1888  CE  MET   233      18.334  72.341  70.469  1.00243.11       1SG1889
ATOM   1889  C   MET   233      22.849  74.537  73.777  1.00243.11       1SG1890
ATOM   1890  O   MET   233      23.521  73.530  73.561  1.00243.11       1SG1891
TER
END
