
#######################################################
#                                                     #
#                        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   21 (  164),  selected   21 , name T0316TS418_1_1-D2
# Molecule2: number of CA atoms   60 (  457),  selected   60 , name T0316_D2.pdb
# PARAMETERS: T0316TS418_1_1-D2.T0316_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G     220      -       -           -
LGA    R     221      -       -           -
LGA    M     222      G     220          3.708
LGA    M     223      R     221          2.093
LGA    T     224      M     222          2.362
LGA    V     225      M     223          1.371
LGA    D     226      T     224          3.096
LGA    G     227      V     225          3.750
LGA    R     228      D     226          2.323
LGA    D     229      G     227          2.476
LGA    M     230      R     228          2.950
LGA    -       -      D     229           -
LGA    G     231      M     230          1.495
LGA    E     232      G     231           #
LGA    -       -      E     232           -
LGA    -       -      H     233           -
LGA    -       -      A     234           -
LGA    -       -      G     235           -
LGA    -       -      L     236           -
LGA    -       -      M     237           -
LGA    -       -      Y     238           -
LGA    -       -      Y     239           -
LGA    -       -      T     240           -
LGA    -       -      I     241           -
LGA    -       -      G     242           -
LGA    -       -      Q     243           -
LGA    -       -      R     244           -
LGA    -       -      G     245           -
LGA    -       -      G     246           -
LGA    -       -      L     247           -
LGA    -       -      G     248           -
LGA    -       -      I     249           -
LGA    -       -      G     250           -
LGA    H     233      G     251          3.701
LGA    A     234      D     256          2.829
LGA    -       -      N     257           -
LGA    G     235      A     258          5.709
LGA    L     236      P     259           -
LGA    -       -      W     260           -
LGA    -       -      F     261           -
LGA    -       -      V     262           -
LGA    -       -      V     263           -
LGA    -       -      G     264           -
LGA    -       -      K     265           -
LGA    -       -      D     266           -
LGA    -       -      L     267           -
LGA    -       -      S     268           -
LGA    -       -      K     269           -
LGA    -       -      N     270           -
LGA    -       -      I     271           -
LGA    -       -      L     272           -
LGA    -       -      Y     273           -
LGA    -       -      V     274           -
LGA    -       -      G     275           -
LGA    M     237      Q     276          1.937
LGA    Y     238      G     277          3.707
LGA    -       -      F     278           -
LGA    -       -      Y     279           -
LGA    Y     239      H     280          2.311
LGA    T     240      D     281          2.326
LGA    -       -      S     282           -
LGA    -       -      L     283           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21   60    5.0     17    3.01     0.00     19.805     0.546

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.257700 * X  +   0.951609 * Y  +  -0.167424 * Z  +  -7.352516
  Y_new =   0.550666 * X  +  -0.287027 * Y  +  -0.783826 * Z  + 103.696228
  Z_new =  -0.793951 * X  +   0.109798 * Y  +  -0.597985 * Z  +  38.261047 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.960003   -0.181590  [ DEG:   169.5957    -10.4043 ]
  Theta =   0.917280    2.224313  [ DEG:    52.5563    127.4437 ]
  Phi   =   1.133091   -2.008501  [ DEG:    64.9214   -115.0786 ]
 
# 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: T0316TS418_1_1-D2                             
REMARK     2: T0316_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS418_1_1-D2.T0316_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   60   5.0   17   3.01    0.00  19.805
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS418_1_1-D2
REMARK PARENT number 1
PFRMAT TS
TARGET T0316
PARENT 2c5s_A 1vbk_A
ATOM   1736  N   GLY   220      52.219  21.056 -23.859  1.00 57.08       1SG1737
ATOM   1737  CA  GLY   220      50.889  21.301 -24.328  1.00 57.08       1SG1738
ATOM   1738  C   GLY   220      50.254  19.959 -24.351  1.00 57.08       1SG1739
ATOM   1739  O   GLY   220      49.402  19.659 -25.186  1.00 57.08       1SG1740
ATOM   1740  N   ARG   221      50.679  19.119 -23.393  1.00 89.68       1SG1741
ATOM   1741  CA  ARG   221      50.203  17.778 -23.284  1.00 89.68       1SG1742
ATOM   1742  CB  ARG   221      50.925  16.968 -22.194  1.00 89.68       1SG1743
ATOM   1743  CG  ARG   221      50.808  17.560 -20.788  1.00 89.68       1SG1744
ATOM   1744  CD  ARG   221      51.907  18.573 -20.463  1.00 89.68       1SG1745
ATOM   1745  NE  ARG   221      51.691  19.035 -19.062  1.00 89.68       1SG1746
ATOM   1746  CZ  ARG   221      50.894  20.112 -18.806  1.00 89.68       1SG1747
ATOM   1747  NH1 ARG   221      50.287  20.777 -19.832  1.00 89.68       1SG1748
ATOM   1748  NH2 ARG   221      50.704  20.525 -17.519  1.00 89.68       1SG1749
ATOM   1749  C   ARG   221      48.755  17.811 -22.944  1.00 89.68       1SG1750
ATOM   1750  O   ARG   221      47.977  17.011 -23.460  1.00 89.68       1SG1751
ATOM   1751  N   MET   222      48.341  18.751 -22.075  1.00112.22       1SG1752
ATOM   1752  CA  MET   222      46.966  18.690 -21.694  1.00112.22       1SG1753
ATOM   1753  CB  MET   222      46.672  19.194 -20.270  1.00112.22       1SG1754
ATOM   1754  CG  MET   222      46.943  20.684 -20.066  1.00112.22       1SG1755
ATOM   1755  SD  MET   222      46.334  21.330 -18.481  1.00112.22       1SG1756
ATOM   1756  CE  MET   222      47.427  20.306 -17.453  1.00112.22       1SG1757
ATOM   1757  C   MET   222      46.147  19.496 -22.638  1.00112.22       1SG1758
ATOM   1758  O   MET   222      46.327  20.704 -22.781  1.00112.22       1SG1759
ATOM   1759  N   MET   223      45.222  18.806 -23.329  1.00156.67       1SG1760
ATOM   1760  CA  MET   223      44.289  19.460 -24.188  1.00156.67       1SG1761
ATOM   1761  CB  MET   223      44.283  18.938 -25.637  1.00156.67       1SG1762
ATOM   1762  CG  MET   223      43.772  17.504 -25.786  1.00156.67       1SG1763
ATOM   1763  SD  MET   223      44.844  16.239 -25.042  1.00156.67       1SG1764
ATOM   1764  CE  MET   223      46.191  16.470 -26.238  1.00156.67       1SG1765
ATOM   1765  C   MET   223      42.965  19.149 -23.582  1.00156.67       1SG1766
ATOM   1766  O   MET   223      42.720  18.022 -23.155  1.00156.67       1SG1767
ATOM   1767  N   THR   224      42.069  20.146 -23.510  1.00105.49       1SG1768
ATOM   1768  CA  THR   224      40.817  19.873 -22.878  1.00105.49       1SG1769
ATOM   1769  CB  THR   224      40.299  21.005 -22.043  1.00105.49       1SG1770
ATOM   1770  OG1 THR   224      39.146  20.595 -21.321  1.00105.49       1SG1771
ATOM   1771  CG2 THR   224      39.956  22.182 -22.967  1.00105.49       1SG1772
ATOM   1772  C   THR   224      39.828  19.612 -23.952  1.00105.49       1SG1773
ATOM   1773  O   THR   224      39.820  20.277 -24.987  1.00105.49       1SG1774
ATOM   1774  N   VAL   225      38.974  18.601 -23.727  1.00 59.06       1SG1775
ATOM   1775  CA  VAL   225      38.010  18.249 -24.717  1.00 59.06       1SG1776
ATOM   1776  CB  VAL   225      38.136  16.827 -25.166  1.00 59.06       1SG1777
ATOM   1777  CG1 VAL   225      36.956  16.512 -26.092  1.00 59.06       1SG1778
ATOM   1778  CG2 VAL   225      39.515  16.637 -25.822  1.00 59.06       1SG1779
ATOM   1779  C   VAL   225      36.652  18.408 -24.122  1.00 59.06       1SG1780
ATOM   1780  O   VAL   225      36.440  18.157 -22.937  1.00 59.06       1SG1781
ATOM   1781  N   ASP   226      35.697  18.868 -24.951  1.00261.13       1SG1782
ATOM   1782  CA  ASP   226      34.347  19.027 -24.510  1.00261.13       1SG1783
ATOM   1783  CB  ASP   226      33.823  20.465 -24.650  1.00261.13       1SG1784
ATOM   1784  CG  ASP   226      34.545  21.323 -23.622  1.00261.13       1SG1785
ATOM   1785  OD1 ASP   226      34.830  20.799 -22.514  1.00261.13       1SG1786
ATOM   1786  OD2 ASP   226      34.830  22.510 -23.935  1.00261.13       1SG1787
ATOM   1787  C   ASP   226      33.498  18.168 -25.387  1.00261.13       1SG1788
ATOM   1788  O   ASP   226      33.755  18.028 -26.581  1.00261.13       1SG1789
ATOM   1789  N   GLY   227      32.466  17.545 -24.795  1.00 91.03       1SG1790
ATOM   1790  CA  GLY   227      31.564  16.752 -25.576  1.00 91.03       1SG1791
ATOM   1791  C   GLY   227      32.262  15.504 -26.002  1.00 91.03       1SG1792
ATOM   1792  O   GLY   227      33.099  14.963 -25.282  1.00 91.03       1SG1793
ATOM   1793  N   ARG   228      31.911  15.016 -27.208  1.00116.27       1SG1794
ATOM   1794  CA  ARG   228      32.482  13.799 -27.700  1.00116.27       1SG1795
ATOM   1795  CB  ARG   228      32.073  13.524 -29.156  1.00116.27       1SG1796
ATOM   1796  CG  ARG   228      30.568  13.451 -29.409  1.00116.27       1SG1797
ATOM   1797  CD  ARG   228      30.232  13.501 -30.903  1.00116.27       1SG1798
ATOM   1798  NE  ARG   228      28.756  13.383 -31.048  1.00116.27       1SG1799
ATOM   1799  CZ  ARG   228      28.239  12.450 -31.899  1.00116.27       1SG1800
ATOM   1800  NH1 ARG   228      29.077  11.659 -32.630  1.00116.27       1SG1801
ATOM   1801  NH2 ARG   228      26.888  12.297 -32.006  1.00116.27       1SG1802
ATOM   1802  C   ARG   228      33.955  14.012 -27.747  1.00116.27       1SG1803
ATOM   1803  O   ARG   228      34.730  13.252 -27.169  1.00116.27       1SG1804
ATOM   1804  N   ASP   229      34.369  15.087 -28.441  1.00224.78       1SG1805
ATOM   1805  CA  ASP   229      35.756  15.418 -28.546  1.00224.78       1SG1806
ATOM   1806  CB  ASP   229      36.607  14.284 -29.160  1.00224.78       1SG1807
ATOM   1807  CG  ASP   229      36.087  13.944 -30.553  1.00224.78       1SG1808
ATOM   1808  OD1 ASP   229      34.840  13.887 -30.726  1.00224.78       1SG1809
ATOM   1809  OD2 ASP   229      36.932  13.726 -31.462  1.00224.78       1SG1810
ATOM   1810  C   ASP   229      35.845  16.633 -29.413  1.00224.78       1SG1811
ATOM   1811  O   ASP   229      36.528  16.644 -30.436  1.00224.78       1SG1812
ATOM   1812  N   MET   230      35.159  17.716 -29.006  1.00304.74       1SG1813
ATOM   1813  CA  MET   230      35.191  18.888 -29.827  1.00304.74       1SG1814
ATOM   1814  CB  MET   230      33.941  19.054 -30.705  1.00304.74       1SG1815
ATOM   1815  CG  MET   230      34.027  20.235 -31.671  1.00304.74       1SG1816
ATOM   1816  SD  MET   230      32.560  20.441 -32.724  1.00304.74       1SG1817
ATOM   1817  CE  MET   230      32.867  18.940 -33.700  1.00304.74       1SG1818
ATOM   1818  C   MET   230      35.264  20.077 -28.933  1.00304.74       1SG1819
ATOM   1819  O   MET   230      35.065  19.978 -27.724  1.00304.74       1SG1820
ATOM   1820  N   GLY   231      35.577  21.247 -29.523  1.00 99.73       1SG1821
ATOM   1821  CA  GLY   231      35.656  22.448 -28.750  1.00 99.73       1SG1822
ATOM   1822  C   GLY   231      34.257  22.906 -28.511  1.00 99.73       1SG1823
ATOM   1823  O   GLY   231      33.313  22.408 -29.125  1.00 99.73       1SG1824
ATOM   1824  N   GLU   232      34.093  23.889 -27.609  1.00251.90       1SG1825
ATOM   1825  CA  GLU   232      32.782  24.370 -27.298  1.00251.90       1SG1826
ATOM   1826  CB  GLU   232      32.779  25.455 -26.206  1.00251.90       1SG1827
ATOM   1827  CG  GLU   232      31.388  25.986 -25.855  1.00251.90       1SG1828
ATOM   1828  CD  GLU   232      31.554  27.041 -24.770  1.00251.90       1SG1829
ATOM   1829  OE1 GLU   232      32.649  27.084 -24.150  1.00251.90       1SG1830
ATOM   1830  OE2 GLU   232      30.589  27.822 -24.550  1.00251.90       1SG1831
ATOM   1831  C   GLU   232      32.216  24.969 -28.537  1.00251.90       1SG1832
ATOM   1832  O   GLU   232      32.900  25.684 -29.268  1.00251.90       1SG1833
ATOM   1833  N   HIS   233      30.936  24.663 -28.818  1.00274.72       1SG1834
ATOM   1834  CA  HIS   233      30.299  25.208 -29.973  1.00274.72       1SG1835
ATOM   1835  ND1 HIS   233      29.201  25.442 -33.106  1.00274.72       1SG1836
ATOM   1836  CG  HIS   233      30.428  25.262 -32.508  1.00274.72       1SG1837
ATOM   1837  CB  HIS   233      30.668  24.461 -31.265  1.00274.72       1SG1838
ATOM   1838  NE2 HIS   233      30.677  26.559 -34.339  1.00274.72       1SG1839
ATOM   1839  CD2 HIS   233      31.318  25.952 -33.276  1.00274.72       1SG1840
ATOM   1840  CE1 HIS   233      29.406  26.224 -34.195  1.00274.72       1SG1841
ATOM   1841  C   HIS   233      28.835  25.030 -29.739  1.00274.72       1SG1842
ATOM   1842  O   HIS   233      28.434  24.409 -28.755  1.00274.72       1SG1843
ATOM   1843  N   ALA   234      27.988  25.587 -30.622  1.00222.35       1SG1844
ATOM   1844  CA  ALA   234      26.582  25.413 -30.420  1.00222.35       1SG1845
ATOM   1845  CB  ALA   234      25.706  26.257 -31.361  1.00222.35       1SG1846
ATOM   1846  C   ALA   234      26.285  23.976 -30.682  1.00222.35       1SG1847
ATOM   1847  O   ALA   234      26.945  23.337 -31.499  1.00222.35       1SG1848
ATOM   1848  N   GLY   235      25.286  23.420 -29.970  1.00135.36       1SG1849
ATOM   1849  CA  GLY   235      24.963  22.041 -30.175  1.00135.36       1SG1850
ATOM   1850  C   GLY   235      24.009  21.641 -29.103  1.00135.36       1SG1851
ATOM   1851  O   GLY   235      23.597  22.458 -28.282  1.00135.36       1SG1852
ATOM   1852  N   LEU   236      23.631  20.351 -29.092  1.00250.42       1SG1853
ATOM   1853  CA  LEU   236      22.718  19.882 -28.096  1.00250.42       1SG1854
ATOM   1854  CB  LEU   236      22.215  18.454 -28.403  1.00250.42       1SG1855
ATOM   1855  CG  LEU   236      20.963  17.975 -27.632  1.00250.42       1SG1856
ATOM   1856  CD1 LEU   236      20.667  16.499 -27.948  1.00250.42       1SG1857
ATOM   1857  CD2 LEU   236      21.031  18.249 -26.125  1.00250.42       1SG1858
ATOM   1858  C   LEU   236      23.514  19.868 -26.830  1.00250.42       1SG1859
ATOM   1859  O   LEU   236      24.681  19.479 -26.828  1.00250.42       1SG1860
ATOM   1860  N   MET   237      22.907  20.315 -25.717  1.00200.14       1SG1861
ATOM   1861  CA  MET   237      23.602  20.370 -24.465  1.00200.14       1SG1862
ATOM   1862  CB  MET   237      22.840  21.144 -23.374  1.00200.14       1SG1863
ATOM   1863  CG  MET   237      22.716  22.640 -23.680  1.00200.14       1SG1864
ATOM   1864  SD  MET   237      21.824  23.609 -22.427  1.00200.14       1SG1865
ATOM   1865  CE  MET   237      23.114  23.468 -21.157  1.00200.14       1SG1866
ATOM   1866  C   MET   237      23.806  18.970 -23.996  1.00200.14       1SG1867
ATOM   1867  O   MET   237      23.287  18.024 -24.588  1.00200.14       1SG1868
ATOM   1868  N   TYR   238      24.615  18.793 -22.934  1.00284.75       1SG1869
ATOM   1869  CA  TYR   238      24.848  17.466 -22.444  1.00284.75       1SG1870
ATOM   1870  CB  TYR   238      25.737  17.427 -21.186  1.00284.75       1SG1871
ATOM   1871  CG  TYR   238      25.918  16.005 -20.770  1.00284.75       1SG1872
ATOM   1872  CD1 TYR   238      26.899  15.230 -21.344  1.00284.75       1SG1873
ATOM   1873  CD2 TYR   238      25.113  15.447 -19.803  1.00284.75       1SG1874
ATOM   1874  CE1 TYR   238      27.071  13.921 -20.962  1.00284.75       1SG1875
ATOM   1875  CE2 TYR   238      25.280  14.137 -19.417  1.00284.75       1SG1876
ATOM   1876  CZ  TYR   238      26.260  13.371 -19.999  1.00284.75       1SG1877
ATOM   1877  OH  TYR   238      26.438  12.028 -19.610  1.00284.75       1SG1878
ATOM   1878  C   TYR   238      23.507  16.924 -22.087  1.00284.75       1SG1879
ATOM   1879  O   TYR   238      22.744  17.557 -21.360  1.00284.75       1SG1880
ATOM   1880  N   TYR   239      23.179  15.734 -22.621  1.00264.36       1SG1881
ATOM   1881  CA  TYR   239      21.887  15.167 -22.385  1.00264.36       1SG1882
ATOM   1882  CB  TYR   239      21.105  14.973 -23.699  1.00264.36       1SG1883
ATOM   1883  CG  TYR   239      19.747  14.432 -23.418  1.00264.36       1SG1884
ATOM   1884  CD1 TYR   239      18.762  15.252 -22.918  1.00264.36       1SG1885
ATOM   1885  CD2 TYR   239      19.455  13.113 -23.682  1.00264.36       1SG1886
ATOM   1886  CE1 TYR   239      17.504  14.760 -22.667  1.00264.36       1SG1887
ATOM   1887  CE2 TYR   239      18.199  12.614 -23.432  1.00264.36       1SG1888
ATOM   1888  CZ  TYR   239      17.226  13.440 -22.922  1.00264.36       1SG1889
ATOM   1889  OH  TYR   239      15.935  12.934 -22.664  1.00264.36       1SG1890
ATOM   1890  C   TYR   239      22.114  13.833 -21.751  1.00264.36       1SG1891
ATOM   1891  O   TYR   239      22.914  13.034 -22.234  1.00264.36       1SG1892
ATOM   1892  N   THR   240      21.422  13.566 -20.629  1.00 97.78       1SG1893
ATOM   1893  CA  THR   240      21.619  12.314 -19.963  1.00 97.78       1SG1894
ATOM   1894  CB  THR   240      21.387  12.386 -18.481  1.00 97.78       1SG1895
ATOM   1895  OG1 THR   240      21.793  11.176 -17.856  1.00 97.78       1SG1896
ATOM   1896  CG2 THR   240      19.892  12.647 -18.231  1.00 97.78       1SG1897
ATOM   1897  C   THR   240      20.617  11.320 -20.533  1.00 97.78       1SG1898
ATOM   1898  O   THR   240      19.731  11.748 -21.320  1.00 97.78       1SG1899
ATOM   1899  OXT THR   240      20.721  10.115 -20.183  1.00 97.78       1SG1900
TER
END
