
#######################################################
#                                                     #
#                        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   25 (  211),  selected   25 , name T0386TS132_1-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS132_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    N     219      R     238          1.525
LGA    P     220      N     239          1.810
LGA    E     221      V     240          2.508
LGA    K     222      N     241          0.497
LGA    I     223      D     242          2.283
LGA    R     224      R     243          3.680
LGA    L     225      P     244          2.496
LGA    L     226      -       -           -
LGA    K     227      -       -           -
LGA    E     228      V     245          2.542
LGA    F     229      M     246          2.889
LGA    M     230      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    H     231      A     273          3.030
LGA    T     232      Y     274          1.899
LGA    M     233      I     275          2.457
LGA    K     234      I     276          4.209
LGA    N     235      -       -           -
LGA    T     236      G     277          3.579
LGA    G     237      N     278          4.812
LGA    R     238      I     279           #
LGA    N     239      D     280           #
LGA    V     240      H     281          4.257
LGA    N     241      L     282          2.391
LGA    D     242      P     283          2.144
LGA    R     243      P     284          3.389
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)   25   81    5.0     19    2.94     5.26     15.055     0.625

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.712747 * X  +   0.379615 * Y  +   0.589817 * Z  +   4.698720
  Y_new =  -0.614428 * X  +   0.743510 * Y  +   0.263953 * Z  +  46.383228
  Z_new =  -0.338335 * X  +  -0.550532 * Y  +   0.763181 * Z  +  92.342865 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.624921    2.516671  [ DEG:   -35.8054    144.1946 ]
  Theta =   0.345147    2.796446  [ DEG:    19.7754    160.2245 ]
  Phi   =  -0.711451    2.430141  [ DEG:   -40.7632    139.2368 ]
 
# 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: T0386TS132_1-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS132_1-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   25   81   5.0   19   2.94    5.26  15.055
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS132_1-D2
PFRMAT TS
TARGET T0386
MODEL  1
PARENT 2G03_A
ATOM   1446  N   ASN   219      22.599  73.723  71.948  1.00  0.00
ATOM   1447  CA  ASN   219      22.073  73.620  70.584  1.00  0.00
ATOM   1448  C   ASN   219      22.321  72.334  69.775  1.00  0.00
ATOM   1449  O   ASN   219      21.693  72.249  68.720  1.00  0.00
ATOM   1450  CB  ASN   219      22.488  74.858  69.767  1.00  0.00
ATOM   1451  CG  ASN   219      21.572  76.025  70.096  1.00  0.00
ATOM   1452  OD1 ASN   219      21.776  76.705  71.091  1.00  0.00
ATOM   1453  ND2 ASN   219      20.519  76.240  69.322  1.00  0.00
ATOM   1454  N   PRO   220      23.149  71.323  70.133  1.00  0.00
ATOM   1455  CA  PRO   220      23.220  70.091  69.338  1.00  0.00
ATOM   1456  C   PRO   220      21.982  69.216  69.609  1.00  0.00
ATOM   1457  O   PRO   220      22.062  68.176  70.260  1.00  0.00
ATOM   1458  CB  PRO   220      24.559  69.441  69.703  1.00  0.00
ATOM   1459  CG  PRO   220      24.792  69.895  71.142  1.00  0.00
ATOM   1460  CD  PRO   220      24.145  71.282  71.199  1.00  0.00
ATOM   1461  N   GLU   221      20.818  69.674  69.153  1.00  0.00
ATOM   1462  CA  GLU   221      19.489  69.213  69.538  1.00  0.00
ATOM   1463  C   GLU   221      19.154  67.799  69.040  1.00  0.00
ATOM   1464  O   GLU   221      18.304  67.120  69.626  1.00  0.00
ATOM   1465  CB  GLU   221      18.456  70.250  69.070  1.00  0.00
ATOM   1466  CG  GLU   221      18.429  70.478  67.548  1.00  0.00
ATOM   1467  CD  GLU   221      17.354  71.486  67.129  1.00  0.00
ATOM   1468  OE1 GLU   221      17.096  72.441  67.897  1.00  0.00
ATOM   1469  OE2 GLU   221      16.752  71.270  66.049  1.00  0.00
ATOM   1470  N   LYS   222      19.817  67.323  67.983  1.00  0.00
ATOM   1471  CA  LYS   222      19.544  66.037  67.349  1.00  0.00
ATOM   1472  C   LYS   222      20.834  65.240  67.251  1.00  0.00
ATOM   1473  O   LYS   222      21.498  65.226  66.221  1.00  0.00
ATOM   1474  CB  LYS   222      18.833  66.233  65.992  1.00  0.00
ATOM   1475  CG  LYS   222      17.314  66.414  66.162  1.00  0.00
ATOM   1476  CD  LYS   222      16.619  65.073  66.484  1.00  0.00
ATOM   1477  CE  LYS   222      15.521  65.171  67.551  1.00  0.00
ATOM   1478  NZ  LYS   222      16.056  65.587  68.867  1.00  0.00
ATOM   1479  N   ILE   223      21.159  64.558  68.343  1.00  0.00
ATOM   1480  CA  ILE   223      21.994  63.370  68.368  1.00  0.00
ATOM   1481  C   ILE   223      21.226  62.359  69.226  1.00  0.00
ATOM   1482  O   ILE   223      20.462  62.761  70.108  1.00  0.00
ATOM   1483  CB  ILE   223      23.419  63.682  68.892  1.00  0.00
ATOM   1484  CG1 ILE   223      24.292  64.444  67.871  1.00  0.00
ATOM   1485  CG2 ILE   223      23.411  64.487  70.206  1.00  0.00
ATOM   1486  CD1 ILE   223      24.600  63.644  66.598  1.00  0.00
ATOM   1487  N   ARG   224      21.384  61.058  68.956  1.00  0.00
ATOM   1488  CA  ARG   224      20.485  60.049  69.525  1.00  0.00
ATOM   1489  C   ARG   224      20.783  59.733  71.000  1.00  0.00
ATOM   1490  O   ARG   224      19.901  59.258  71.712  1.00  0.00
ATOM   1491  CB  ARG   224      20.456  58.806  68.613  1.00  0.00
ATOM   1492  CG  ARG   224      19.402  57.735  68.963  1.00  0.00
ATOM   1493  CD  ARG   224      17.956  58.224  69.166  1.00  0.00
ATOM   1494  NE  ARG   224      17.400  58.935  67.999  1.00  0.00
ATOM   1495  CZ  ARG   224      16.444  58.498  67.168  1.00  0.00
ATOM   1496  NH1 ARG   224      16.103  57.220  67.155  1.00  0.00
ATOM   1497  NH2 ARG   224      15.830  59.348  66.352  1.00  0.00
ATOM   1498  N   LEU   225      22.027  59.949  71.453  1.00  0.00
ATOM   1499  CA  LEU   225      22.517  59.518  72.765  1.00  0.00
ATOM   1500  C   LEU   225      22.036  60.474  73.866  1.00  0.00
ATOM   1501  O   LEU   225      20.908  60.349  74.347  1.00  0.00
ATOM   1502  CB  LEU   225      24.047  59.321  72.715  1.00  0.00
ATOM   1503  CG  LEU   225      24.663  58.762  74.017  1.00  0.00
ATOM   1504  CD1 LEU   225      24.112  57.376  74.382  1.00  0.00
ATOM   1505  CD2 LEU   225      26.183  58.681  73.865  1.00  0.00
ATOM   1506  N   LEU   226      22.863  61.450  74.261  1.00  0.00
ATOM   1507  CA  LEU   226      22.362  62.634  74.953  1.00  0.00
ATOM   1508  C   LEU   226      21.425  63.358  73.992  1.00  0.00
ATOM   1509  O   LEU   226      21.373  63.021  72.813  1.00  0.00
ATOM   1510  CB  LEU   226      23.522  63.542  75.416  1.00  0.00
ATOM   1511  CG  LEU   226      23.980  63.246  76.856  1.00  0.00
ATOM   1512  CD1 LEU   226      25.303  63.964  77.138  1.00  0.00
ATOM   1513  CD2 LEU   226      22.939  63.708  77.886  1.00  0.00
ATOM   1514  N   LYS   227      20.705  64.363  74.485  1.00  0.00
ATOM   1515  CA  LYS   227      19.567  64.944  73.793  1.00  0.00
ATOM   1516  C   LYS   227      18.485  63.890  73.576  1.00  0.00
ATOM   1517  O   LYS   227      17.673  63.707  74.478  1.00  0.00
ATOM   1518  CB  LYS   227      20.000  65.714  72.522  1.00  0.00
ATOM   1519  CG  LYS   227      20.290  67.178  72.831  1.00  0.00
ATOM   1520  CD  LYS   227      21.694  67.483  73.360  1.00  0.00
ATOM   1521  CE  LYS   227      21.935  69.000  73.332  1.00  0.00
ATOM   1522  NZ  LYS   227      20.911  69.779  74.057  1.00  0.00
ATOM   1523  N   GLU   228      18.442  63.197  72.442  1.00  0.00
ATOM   1524  CA  GLU   228      17.214  62.588  71.920  1.00  0.00
ATOM   1525  C   GLU   228      16.740  61.325  72.658  1.00  0.00
ATOM   1526  O   GLU   228      15.663  60.835  72.334  1.00  0.00
ATOM   1527  CB  GLU   228      17.428  62.355  70.428  1.00  0.00
ATOM   1528  CG  GLU   228      16.191  62.098  69.560  1.00  0.00
ATOM   1529  CD  GLU   228      16.576  61.940  68.087  1.00  0.00
ATOM   1530  OE1 GLU   228      17.761  61.679  67.785  1.00  0.00
ATOM   1531  OE2 GLU   228      15.676  62.026  67.227  1.00  0.00
ATOM   1532  N   PHE   229      17.495  60.851  73.659  1.00  0.00
ATOM   1533  CA  PHE   229      17.053  60.207  74.904  1.00  0.00
ATOM   1534  C   PHE   229      17.810  58.921  75.243  1.00  0.00
ATOM   1535  O   PHE   229      17.752  58.521  76.407  1.00  0.00
ATOM   1536  CB  PHE   229      15.523  59.997  75.067  1.00  0.00
ATOM   1537  CG  PHE   229      14.689  61.250  75.312  1.00  0.00
ATOM   1538  CD1 PHE   229      13.605  61.576  74.474  1.00  0.00
ATOM   1539  CD2 PHE   229      14.955  62.068  76.427  1.00  0.00
ATOM   1540  CE1 PHE   229      12.826  62.720  74.729  1.00  0.00
ATOM   1541  CE2 PHE   229      14.204  63.231  76.666  1.00  0.00
ATOM   1542  CZ  PHE   229      13.139  63.561  75.812  1.00  0.00
ATOM   1543  N   MET   230      18.582  58.292  74.346  1.00  0.00
ATOM   1544  CA  MET   230      19.242  57.014  74.672  1.00  0.00
ATOM   1545  C   MET   230      20.235  57.121  75.850  1.00  0.00
ATOM   1546  O   MET   230      20.601  56.101  76.446  1.00  0.00
ATOM   1547  CB  MET   230      19.916  56.401  73.433  1.00  0.00
ATOM   1548  CG  MET   230      18.910  55.933  72.377  1.00  0.00
ATOM   1549  SD  MET   230      17.977  54.460  72.858  1.00  0.00
ATOM   1550  CE  MET   230      16.750  54.426  71.520  1.00  0.00
ATOM   1551  N   HIS   231      20.645  58.336  76.227  1.00  0.00
ATOM   1552  CA  HIS   231      21.191  58.680  77.532  1.00  0.00
ATOM   1553  C   HIS   231      20.155  59.474  78.337  1.00  0.00
ATOM   1554  O   HIS   231      19.886  59.112  79.477  1.00  0.00
ATOM   1555  CB  HIS   231      22.504  59.464  77.381  1.00  0.00
ATOM   1556  CG  HIS   231      23.175  59.811  78.692  1.00  0.00
ATOM   1557  ND1 HIS   231      24.356  59.282  79.169  1.00  0.00
ATOM   1558  CD2 HIS   231      22.743  60.736  79.607  1.00  0.00
ATOM   1559  CE1 HIS   231      24.617  59.868  80.352  1.00  0.00
ATOM   1560  NE2 HIS   231      23.655  60.751  80.664  1.00  0.00
ATOM   1561  N   THR   232      19.607  60.570  77.805  1.00  0.00
ATOM   1562  CA  THR   232      18.892  61.569  78.604  1.00  0.00
ATOM   1563  C   THR   232      17.645  61.011  79.311  1.00  0.00
ATOM   1564  O   THR   232      17.346  61.442  80.422  1.00  0.00
ATOM   1565  CB  THR   232      18.547  62.808  77.747  1.00  0.00
ATOM   1566  OG1 THR   232      19.198  62.765  76.490  1.00  0.00
ATOM   1567  CG2 THR   232      18.930  64.117  78.442  1.00  0.00
ATOM   1568  N   MET   233      16.945  60.020  78.741  1.00  0.00
ATOM   1569  CA  MET   233      15.827  59.361  79.424  1.00  0.00
ATOM   1570  C   MET   233      16.312  58.716  80.721  1.00  0.00
ATOM   1571  O   MET   233      15.601  58.758  81.722  1.00  0.00
ATOM   1572  CB  MET   233      15.119  58.364  78.482  1.00  0.00
ATOM   1573  CG  MET   233      14.522  57.116  79.139  1.00  0.00
ATOM   1574  SD  MET   233      15.752  55.809  79.411  1.00  0.00
ATOM   1575  CE  MET   233      14.654  54.445  79.819  1.00  0.00
ATOM   1576  N   LYS   234      17.531  58.171  80.746  1.00  0.00
ATOM   1577  CA  LYS   234      18.080  57.516  81.925  1.00  0.00
ATOM   1578  C   LYS   234      18.329  58.552  83.018  1.00  0.00
ATOM   1579  O   LYS   234      18.248  58.195  84.190  1.00  0.00
ATOM   1580  CB  LYS   234      19.352  56.714  81.570  1.00  0.00
ATOM   1581  CG  LYS   234      19.079  55.668  80.468  1.00  0.00
ATOM   1582  CD  LYS   234      20.337  55.014  79.887  1.00  0.00
ATOM   1583  CE  LYS   234      19.893  53.978  78.839  1.00  0.00
ATOM   1584  NZ  LYS   234      20.936  53.698  77.825  1.00  0.00
ATOM   1585  N   ASN   235      18.582  59.822  82.672  1.00  0.00
ATOM   1586  CA  ASN   235      18.682  60.911  83.645  1.00  0.00
ATOM   1587  C   ASN   235      17.323  61.101  84.318  1.00  0.00
ATOM   1588  O   ASN   235      17.251  61.070  85.550  1.00  0.00
ATOM   1589  CB  ASN   235      19.144  62.249  83.026  1.00  0.00
ATOM   1590  CG  ASN   235      20.467  62.244  82.266  1.00  0.00
ATOM   1591  OD1 ASN   235      20.696  63.114  81.440  1.00  0.00
ATOM   1592  ND2 ASN   235      21.365  61.304  82.520  1.00  0.00
ATOM   1593  N   THR   236      16.263  61.279  83.522  1.00  0.00
ATOM   1594  CA  THR   236      14.888  61.453  83.982  1.00  0.00
ATOM   1595  C   THR   236      14.446  60.257  84.831  1.00  0.00
ATOM   1596  O   THR   236      13.947  60.449  85.937  1.00  0.00
ATOM   1597  CB  THR   236      13.976  61.672  82.759  1.00  0.00
ATOM   1598  OG1 THR   236      14.530  62.691  81.946  1.00  0.00
ATOM   1599  CG2 THR   236      12.556  62.082  83.157  1.00  0.00
ATOM   1600  N   GLY   237      14.673  59.032  84.344  1.00  0.00
ATOM   1601  CA  GLY   237      14.399  57.788  85.042  1.00  0.00
ATOM   1602  C   GLY   237      15.063  57.798  86.411  1.00  0.00
ATOM   1603  O   GLY   237      14.366  57.815  87.416  1.00  0.00
ATOM   1604  N   ARG   238      16.399  57.864  86.456  1.00  0.00
ATOM   1605  CA  ARG   238      17.195  57.966  87.685  1.00  0.00
ATOM   1606  C   ARG   238      16.621  59.006  88.647  1.00  0.00
ATOM   1607  O   ARG   238      16.675  58.797  89.856  1.00  0.00
ATOM   1608  CB  ARG   238      18.646  58.300  87.273  1.00  0.00
ATOM   1609  CG  ARG   238      19.625  58.775  88.372  1.00  0.00
ATOM   1610  CD  ARG   238      20.549  59.897  87.867  1.00  0.00
ATOM   1611  NE  ARG   238      19.790  61.096  87.447  1.00  0.00
ATOM   1612  CZ  ARG   238      20.286  62.214  86.910  1.00  0.00
ATOM   1613  NH1 ARG   238      21.584  62.330  86.640  1.00  0.00
ATOM   1614  NH2 ARG   238      19.486  63.231  86.617  1.00  0.00
ATOM   1615  N   ASN   239      16.155  60.149  88.130  1.00  0.00
ATOM   1616  CA  ASN   239      15.694  61.259  88.953  1.00  0.00
ATOM   1617  C   ASN   239      14.534  60.879  89.859  1.00  0.00
ATOM   1618  O   ASN   239      14.456  61.430  90.950  1.00  0.00
ATOM   1619  CB  ASN   239      15.299  62.478  88.105  1.00  0.00
ATOM   1620  CG  ASN   239      16.134  63.676  88.502  1.00  0.00
ATOM   1621  OD1 ASN   239      17.035  64.051  87.755  1.00  0.00
ATOM   1622  ND2 ASN   239      15.921  64.222  89.688  1.00  0.00
ATOM   1623  N   VAL   240      13.656  59.989  89.399  1.00  0.00
ATOM   1624  CA  VAL   240      12.515  59.464  90.132  1.00  0.00
ATOM   1625  C   VAL   240      12.301  58.034  89.628  1.00  0.00
ATOM   1626  O   VAL   240      11.505  57.778  88.719  1.00  0.00
ATOM   1627  CB  VAL   240      11.258  60.360  89.985  1.00  0.00
ATOM   1628  CG1 VAL   240      11.182  61.430  91.083  1.00  0.00
ATOM   1629  CG2 VAL   240      11.153  61.064  88.618  1.00  0.00
ATOM   1630  N   ASN   241      13.051  57.097  90.196  1.00  0.00
ATOM   1631  CA  ASN   241      12.813  55.662  90.114  1.00  0.00
ATOM   1632  C   ASN   241      12.882  55.124  91.542  1.00  0.00
ATOM   1633  O   ASN   241      13.577  54.151  91.833  1.00  0.00
ATOM   1634  CB  ASN   241      13.792  54.981  89.152  1.00  0.00
ATOM   1635  CG  ASN   241      13.192  53.675  88.664  1.00  0.00
ATOM   1636  OD1 ASN   241      12.552  53.652  87.610  1.00  0.00
ATOM   1637  ND2 ASN   241      13.348  52.605  89.421  1.00  0.00
ATOM   1638  N   ASP   242      12.180  55.838  92.415  1.00  0.00
ATOM   1639  CA  ASP   242      12.267  55.884  93.865  1.00  0.00
ATOM   1640  C   ASP   242      10.811  55.954  94.359  1.00  0.00
ATOM   1641  O   ASP   242       9.868  55.864  93.555  1.00  0.00
ATOM   1642  CB  ASP   242      13.025  57.158  94.322  1.00  0.00
ATOM   1643  CG  ASP   242      14.382  57.437  93.662  1.00  0.00
ATOM   1644  OD1 ASP   242      15.439  57.374  94.328  1.00  0.00
ATOM   1645  OD2 ASP   242      14.425  57.870  92.484  1.00  0.00
ATOM   1646  N   ARG   243      10.605  56.196  95.650  1.00  0.00
ATOM   1647  CA  ARG   243       9.530  57.044  96.142  1.00  0.00
ATOM   1648  C   ARG   243      10.172  58.005  97.124  1.00  0.00
ATOM   1649  O   ARG   243      11.257  57.639  97.633  1.00  0.00
ATOM   1650  CB  ARG   243       8.389  56.252  96.800  1.00  0.00
ATOM   1651  CG  ARG   243       7.507  55.484  95.806  1.00  0.00
ATOM   1652  CD  ARG   243       6.847  56.415  94.774  1.00  0.00
ATOM   1653  NE  ARG   243       5.919  55.702  93.885  1.00  0.00
ATOM   1654  CZ  ARG   243       6.222  54.813  92.938  1.00  0.00
ATOM   1655  NH1 ARG   243       7.473  54.480  92.634  1.00  0.00
ATOM   1656  NH2 ARG   243       5.234  54.240  92.273  1.00  0.00
TER
END
