
#######################################################
#                                                     #
#                        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   17 (  134),  selected   17 , name T0356TS418_1_1-D1
# Molecule2: number of CA atoms  124 (  963),  selected  124 , name T0356_D1.pdb
# PARAMETERS: T0356TS418_1_1-D1.T0356_D1.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       7           -
LGA    -       -      D       8           -
LGA    -       -      L       9           -
LGA    -       -      R      10           -
LGA    D     314      D      11          3.003
LGA    A     315      F      12          3.380
LGA    I     316      L      13          2.685
LGA    Y     317      T      14          2.802
LGA    H     318      L      15          2.733
LGA    -       -      L      16           -
LGA    -       -      E      17           -
LGA    S     319      Q      18          1.410
LGA    T     320      Q      19          2.467
LGA    Y     321      G      20          4.039
LGA    -       -      E      21           -
LGA    T     322      L      22          3.790
LGA    G     323      K      23          4.293
LGA    R     324      R      24          4.514
LGA    -       -      I      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      P      28           -
LGA    -       -      V      29           -
LGA    -       -      D      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      I      35           -
LGA    -       -      T      36           -
LGA    -       -      E      37           -
LGA    -       -      I      38           -
LGA    -       -      A      39           -
LGA    -       -      D      40           -
LGA    -       -      R      41           -
LGA    -       -      T      42           -
LGA    -       -      L      43           -
LGA    -       -      R      44           -
LGA    -       -      A      45           -
LGA    -       -      G      46           -
LGA    -       -      G      47           -
LGA    -       -      P      48           -
LGA    -       -      A      49           -
LGA    P     325      L      50          2.688
LGA    -       -      L      51           -
LGA    -       -      F      52           -
LGA    -       -      E      53           -
LGA    -       -      N      54           -
LGA    -       -      P      55           -
LGA    -       -      K      56           -
LGA    -       -      G      57           -
LGA    -       -      Y      58           -
LGA    -       -      S      59           -
LGA    -       -      M      60           -
LGA    -       -      P      61           -
LGA    -       -      V      62           -
LGA    -       -      L      63           -
LGA    -       -      C      64           -
LGA    P     326      N      65          3.805
LGA    D     327      L      66          3.301
LGA    E     328      F      67          1.904
LGA    -       -      G      68           -
LGA    -       -      T      69           -
LGA    -       -      P      70           -
LGA    -       -      K      71           -
LGA    P     329      R      72          1.423
LGA    A     330      V      73          4.234
LGA    -       -      A      74           -
LGA    -       -      M      75           -
LGA    -       -      G      76           -
LGA    -       -      M      77           -
LGA    -       -      G      78           -
LGA    -       -      Q      79           -
LGA    -       -      E      80           -
LGA    -       -      D      81           -
LGA    -       -      V      82           -
LGA    -       -      S      83           -
LGA    -       -      A      84           -
LGA    -       -      L      85           -
LGA    -       -      R      86           -
LGA    -       -      E      87           -
LGA    -       -      V      88           -
LGA    -       -      G      89           -
LGA    -       -      K      90           -
LGA    -       -      L      91           -
LGA    -       -      L      92           -
LGA    -       -      A      93           -
LGA    -       -      F      94           -
LGA    -       -      L      95           -
LGA    -       -      K      96           -
LGA    -       -      D     314           -
LGA    -       -      A     315           -
LGA    -       -      I     316           -
LGA    -       -      Y     317           -
LGA    -       -      H     318           -
LGA    -       -      S     319           -
LGA    -       -      T     320           -
LGA    -       -      Y     321           -
LGA    -       -      T     322           -
LGA    -       -      G     323           -
LGA    -       -      R     324           -
LGA    -       -      P     325           -
LGA    -       -      P     326           -
LGA    -       -      D     327           -
LGA    -       -      E     328           -
LGA    -       -      P     329           -
LGA    -       -      A     330           -
LGA    -       -      V     331           -
LGA    -       -      L     332           -
LGA    -       -      G     333           -
LGA    -       -      V     334           -
LGA    -       -      A     335           -
LGA    -       -      L     336           -
LGA    -       -      N     337           -
LGA    -       -      E     338           -
LGA    -       -      V     339           -
LGA    -       -      F     340           -
LGA    -       -      V     341           -
LGA    -       -      P     342           -
LGA    -       -      I     343           -
LGA    -       -      L     344           -
LGA    -       -      Q     345           -
LGA    -       -      K     346           -
LGA    -       -      Q     347           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   17  124    5.0     17    3.22    11.76      8.362     0.511

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.696920 * X  +   0.421142 * Y  +   0.580468 * Z  +  51.719265
  Y_new =  -0.194128 * X  +   0.668406 * Y  +  -0.718016 * Z  +  66.111931
  Z_new =  -0.690375 * X  +  -0.613084 * Y  +  -0.384070 * Z  + 145.930176 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.130442    1.011151  [ DEG:  -122.0653     57.9347 ]
  Theta =   0.762007    2.379586  [ DEG:    43.6598    136.3402 ]
  Phi   =  -2.869928    0.271664  [ DEG:  -164.4348     15.5652 ]
 
# 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: T0356TS418_1_1-D1                             
REMARK     2: T0356_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS418_1_1-D1.T0356_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   17  124   5.0   17   3.22   11.76   8.362
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS418_1_1-D1
REMARK PARENT number 1
PFRMAT TS
TARGET T0356
PARENT 1eje_A
ATOM   1375  N   ASP   314      71.258  81.192  85.923  1.00 58.14       1SG1376
ATOM   1376  CA  ASP   314      69.912  81.521  85.575  1.00 58.14       1SG1377
ATOM   1377  CB  ASP   314      69.844  82.489  84.381  1.00 58.14       1SG1378
ATOM   1378  CG  ASP   314      70.466  83.810  84.814  1.00 58.14       1SG1379
ATOM   1379  OD1 ASP   314      69.887  84.475  85.715  1.00 58.14       1SG1380
ATOM   1380  OD2 ASP   314      71.531  84.174  84.247  1.00 58.14       1SG1381
ATOM   1381  C   ASP   314      69.210  80.260  85.195  1.00 58.14       1SG1382
ATOM   1382  O   ASP   314      68.181  80.303  84.522  1.00 58.14       1SG1383
ATOM   1383  N   ALA   315      69.734  79.096  85.618  1.00 50.57       1SG1384
ATOM   1384  CA  ALA   315      69.053  77.891  85.259  1.00 50.57       1SG1385
ATOM   1385  CB  ALA   315      69.779  76.622  85.741  1.00 50.57       1SG1386
ATOM   1386  C   ALA   315      67.735  77.934  85.944  1.00 50.57       1SG1387
ATOM   1387  O   ALA   315      66.686  77.761  85.326  1.00 50.57       1SG1388
ATOM   1388  N   ILE   316      67.767  78.198  87.261  1.00 68.13       1SG1389
ATOM   1389  CA  ILE   316      66.541  78.309  87.980  1.00 68.13       1SG1390
ATOM   1390  CB  ILE   316      66.546  77.429  89.202  1.00 68.13       1SG1391
ATOM   1391  CG2 ILE   316      65.200  77.551  89.934  1.00 68.13       1SG1392
ATOM   1392  CG1 ILE   316      66.872  75.981  88.803  1.00 68.13       1SG1393
ATOM   1393  CD1 ILE   316      67.238  75.096  89.994  1.00 68.13       1SG1394
ATOM   1394  C   ILE   316      66.508  79.736  88.410  1.00 68.13       1SG1395
ATOM   1395  O   ILE   316      66.166  80.071  89.544  1.00 68.13       1SG1396
ATOM   1396  N   TYR   317      66.885  80.645  87.498  1.00123.08       1SG1397
ATOM   1397  CA  TYR   317      66.793  82.008  87.904  1.00123.08       1SG1398
ATOM   1398  CB  TYR   317      68.114  82.668  88.348  1.00123.08       1SG1399
ATOM   1399  CG  TYR   317      68.427  82.199  89.732  1.00123.08       1SG1400
ATOM   1400  CD1 TYR   317      67.731  82.717  90.803  1.00123.08       1SG1401
ATOM   1401  CD2 TYR   317      69.413  81.272  89.973  1.00123.08       1SG1402
ATOM   1402  CE1 TYR   317      68.001  82.307  92.087  1.00123.08       1SG1403
ATOM   1403  CE2 TYR   317      69.690  80.857  91.258  1.00123.08       1SG1404
ATOM   1404  CZ  TYR   317      68.980  81.375  92.316  1.00123.08       1SG1405
ATOM   1405  OH  TYR   317      69.257  80.954  93.635  1.00123.08       1SG1406
ATOM   1406  C   TYR   317      66.230  82.826  86.800  1.00123.08       1SG1407
ATOM   1407  O   TYR   317      66.733  82.811  85.678  1.00123.08       1SG1408
ATOM   1408  N   HIS   318      65.144  83.548  87.126  1.00255.55       1SG1409
ATOM   1409  CA  HIS   318      64.491  84.499  86.281  1.00255.55       1SG1410
ATOM   1410  ND1 HIS   318      64.948  82.062  83.853  1.00255.55       1SG1411
ATOM   1411  CG  HIS   318      64.599  83.387  83.997  1.00255.55       1SG1412
ATOM   1412  CB  HIS   318      63.713  83.917  85.087  1.00255.55       1SG1413
ATOM   1413  NE2 HIS   318      65.990  83.176  82.234  1.00255.55       1SG1414
ATOM   1414  CD2 HIS   318      65.241  84.052  83.000  1.00255.55       1SG1415
ATOM   1415  CE1 HIS   318      65.783  81.994  82.785  1.00255.55       1SG1416
ATOM   1416  C   HIS   318      63.493  85.152  87.170  1.00255.55       1SG1417
ATOM   1417  O   HIS   318      63.151  84.618  88.223  1.00255.55       1SG1418
ATOM   1418  N   SER   319      63.004  86.342  86.793  1.00 45.18       1SG1419
ATOM   1419  CA  SER   319      62.030  86.940  87.644  1.00 45.18       1SG1420
ATOM   1420  CB  SER   319      61.558  88.315  87.144  1.00 45.18       1SG1421
ATOM   1421  OG  SER   319      60.881  88.178  85.902  1.00 45.18       1SG1422
ATOM   1422  C   SER   319      60.858  86.016  87.640  1.00 45.18       1SG1423
ATOM   1423  O   SER   319      60.230  85.772  88.670  1.00 45.18       1SG1424
ATOM   1424  N   THR   320      60.553  85.453  86.458  1.00 27.30       1SG1425
ATOM   1425  CA  THR   320      59.431  84.575  86.320  1.00 27.30       1SG1426
ATOM   1426  CB  THR   320      59.242  84.126  84.901  1.00 27.30       1SG1427
ATOM   1427  OG1 THR   320      59.086  85.254  84.053  1.00 27.30       1SG1428
ATOM   1428  CG2 THR   320      57.996  83.226  84.825  1.00 27.30       1SG1429
ATOM   1429  C   THR   320      59.656  83.349  87.154  1.00 27.30       1SG1430
ATOM   1430  O   THR   320      58.776  82.936  87.905  1.00 27.30       1SG1431
ATOM   1431  N   TYR   321      60.856  82.745  87.060  1.00174.16       1SG1432
ATOM   1432  CA  TYR   321      61.119  81.528  87.771  1.00174.16       1SG1433
ATOM   1433  CB  TYR   321      62.403  80.839  87.291  1.00174.16       1SG1434
ATOM   1434  CG  TYR   321      61.994  80.507  85.899  1.00174.16       1SG1435
ATOM   1435  CD1 TYR   321      61.242  79.385  85.638  1.00174.16       1SG1436
ATOM   1436  CD2 TYR   321      62.328  81.336  84.857  1.00174.16       1SG1437
ATOM   1437  CE1 TYR   321      60.839  79.097  84.357  1.00174.16       1SG1438
ATOM   1438  CE2 TYR   321      61.930  81.060  83.573  1.00174.16       1SG1439
ATOM   1439  CZ  TYR   321      61.183  79.936  83.325  1.00174.16       1SG1440
ATOM   1440  OH  TYR   321      60.773  79.648  82.007  1.00174.16       1SG1441
ATOM   1441  C   TYR   321      61.101  81.790  89.242  1.00174.16       1SG1442
ATOM   1442  O   TYR   321      60.639  80.955  90.018  1.00174.16       1SG1443
ATOM   1443  N   THR   322      61.636  82.955  89.656  1.00165.00       1SG1444
ATOM   1444  CA  THR   322      61.609  83.415  91.016  1.00165.00       1SG1445
ATOM   1445  CB  THR   322      60.258  83.891  91.490  1.00165.00       1SG1446
ATOM   1446  OG1 THR   322      60.390  84.541  92.747  1.00165.00       1SG1447
ATOM   1447  CG2 THR   322      59.284  82.708  91.619  1.00165.00       1SG1448
ATOM   1448  C   THR   322      62.130  82.379  91.956  1.00165.00       1SG1449
ATOM   1449  O   THR   322      61.587  82.186  93.043  1.00165.00       1SG1450
ATOM   1450  N   GLY   323      63.206  81.679  91.558  1.00 30.25       1SG1451
ATOM   1451  CA  GLY   323      63.843  80.762  92.455  1.00 30.25       1SG1452
ATOM   1452  C   GLY   323      63.138  79.450  92.414  1.00 30.25       1SG1453
ATOM   1453  O   GLY   323      63.580  78.488  93.039  1.00 30.25       1SG1454
ATOM   1454  N   ARG   324      62.019  79.364  91.681  1.00104.05       1SG1455
ATOM   1455  CA  ARG   324      61.380  78.088  91.659  1.00104.05       1SG1456
ATOM   1456  CB  ARG   324      59.914  78.140  91.196  1.00104.05       1SG1457
ATOM   1457  CG  ARG   324      59.029  78.837  92.235  1.00104.05       1SG1458
ATOM   1458  CD  ARG   324      57.543  78.927  91.881  1.00104.05       1SG1459
ATOM   1459  NE  ARG   324      56.855  79.513  93.068  1.00104.05       1SG1460
ATOM   1460  CZ  ARG   324      55.732  80.273  92.922  1.00104.05       1SG1461
ATOM   1461  NH1 ARG   324      55.225  80.507  91.674  1.00104.05       1SG1462
ATOM   1462  NH2 ARG   324      55.116  80.799  94.021  1.00104.05       1SG1463
ATOM   1463  C   ARG   324      62.195  77.244  90.746  1.00104.05       1SG1464
ATOM   1464  O   ARG   324      62.480  77.614  89.608  1.00104.05       1SG1465
ATOM   1465  N   PRO   325      62.544  76.093  91.239  1.00148.37       1SG1466
ATOM   1466  CA  PRO   325      63.467  75.210  90.592  1.00148.37       1SG1467
ATOM   1467  CD  PRO   325      61.884  75.489  92.387  1.00148.37       1SG1468
ATOM   1468  CB  PRO   325      63.538  73.964  91.483  1.00148.37       1SG1469
ATOM   1469  CG  PRO   325      62.227  73.992  92.294  1.00148.37       1SG1470
ATOM   1470  C   PRO   325      63.138  74.945  89.157  1.00148.37       1SG1471
ATOM   1471  O   PRO   325      64.086  74.746  88.399  1.00148.37       1SG1472
ATOM   1472  N   PRO   326      61.915  74.904  88.729  1.00159.41       1SG1473
ATOM   1473  CA  PRO   326      61.739  74.652  87.327  1.00159.41       1SG1474
ATOM   1474  CD  PRO   326      60.874  74.268  89.517  1.00159.41       1SG1475
ATOM   1475  CB  PRO   326      60.332  74.088  87.163  1.00159.41       1SG1476
ATOM   1476  CG  PRO   326      60.039  73.445  88.527  1.00159.41       1SG1477
ATOM   1477  C   PRO   326      61.982  75.852  86.469  1.00159.41       1SG1478
ATOM   1478  O   PRO   326      61.643  76.964  86.871  1.00159.41       1SG1479
ATOM   1479  N   ASP   327      62.575  75.635  85.283  1.00113.80       1SG1480
ATOM   1480  CA  ASP   327      62.730  76.649  84.284  1.00113.80       1SG1481
ATOM   1481  CB  ASP   327      64.104  77.337  84.309  1.00113.80       1SG1482
ATOM   1482  CG  ASP   327      64.121  78.466  83.286  1.00113.80       1SG1483
ATOM   1483  OD1 ASP   327      63.267  78.468  82.359  1.00113.80       1SG1484
ATOM   1484  OD2 ASP   327      65.008  79.350  83.418  1.00113.80       1SG1485
ATOM   1485  C   ASP   327      62.638  75.884  83.004  1.00113.80       1SG1486
ATOM   1486  O   ASP   327      63.644  75.631  82.345  1.00113.80       1SG1487
ATOM   1487  N   GLU   328      61.413  75.496  82.613  1.00120.38       1SG1488
ATOM   1488  CA  GLU   328      61.297  74.651  81.464  1.00120.38       1SG1489
ATOM   1489  CB  GLU   328      59.920  73.955  81.316  1.00120.38       1SG1490
ATOM   1490  CG  GLU   328      58.677  74.846  81.313  1.00120.38       1SG1491
ATOM   1491  CD  GLU   328      57.461  73.939  81.341  1.00120.38       1SG1492
ATOM   1492  OE1 GLU   328      57.319  73.193  82.347  1.00120.38       1SG1493
ATOM   1493  OE2 GLU   328      56.664  73.971  80.365  1.00120.38       1SG1494
ATOM   1494  C   GLU   328      61.714  75.337  80.196  1.00120.38       1SG1495
ATOM   1495  O   GLU   328      62.317  74.681  79.350  1.00120.38       1SG1496
ATOM   1496  N   PRO   329      61.453  76.599  79.977  1.00 93.51       1SG1497
ATOM   1497  CA  PRO   329      61.868  77.178  78.730  1.00 93.51       1SG1498
ATOM   1498  CD  PRO   329      60.275  77.263  80.507  1.00 93.51       1SG1499
ATOM   1499  CB  PRO   329      61.164  78.529  78.634  1.00 93.51       1SG1500
ATOM   1500  CG  PRO   329      59.885  78.323  79.465  1.00 93.51       1SG1501
ATOM   1501  C   PRO   329      63.352  77.259  78.597  1.00 93.51       1SG1502
ATOM   1502  O   PRO   329      63.846  77.258  77.470  1.00 93.51       1SG1503
ATOM   1503  N   ALA   330      64.085  77.334  79.723  1.00 18.81       1SG1504
ATOM   1504  CA  ALA   330      65.506  77.480  79.634  1.00 18.81       1SG1505
ATOM   1505  CB  ALA   330      66.186  77.656  81.003  1.00 18.81       1SG1506
ATOM   1506  C   ALA   330      66.089  76.231  78.987  1.00 18.81       1SG1507
ATOM   1507  O   ALA   330      66.363  75.256  79.735  1.00 18.81       1SG1508
ATOM   1508  OXT ALA   330      66.276  76.238  77.742  1.00 18.81       1SG1509
TER
END
