
#######################################################
#                                                     #
#                        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   33 (  164),  selected   33 , name T0372TS261_1_4-D2
# Molecule2: number of CA atoms  172 ( 1400),  selected  172 , name T0372_D2.pdb
# PARAMETERS: T0372TS261_1_4-D2.T0372_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    R     118      R     118           -
LGA    A     119      A     119           -
LGA    Y     120      Y     120           -
LGA    A     121      A     121           -
LGA    -       -      D     122           -
LGA    -       -      Y     123           -
LGA    -       -      I     124           -
LGA    -       -      Y     125           -
LGA    -       -      L     126           -
LGA    -       -      R     127           -
LGA    -       -      S     128           -
LGA    -       -      D     129           -
LGA    -       -      L     130           -
LGA    -       -      A     131           -
LGA    -       -      T     132           -
LGA    -       -      L     133           -
LGA    -       -      K     134           -
LGA    -       -      G     135           -
LGA    -       -      K     136           -
LGA    -       -      K     137           -
LGA    -       -      F     138           -
LGA    -       -      Q     139           -
LGA    -       -      A     140           -
LGA    -       -      K     141           -
LGA    -       -      R     142           -
LGA    -       -      N     143           -
LGA    -       -      H     144           -
LGA    -       -      I     145           -
LGA    -       -      N     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      N     150           -
LGA    -       -      T     151           -
LGA    -       -      Y     152           -
LGA    -       -      P     153           -
LGA    -       -      D     154           -
LGA    -       -      Y     155           -
LGA    -       -      E     156           -
LGA    D     122      Y     157           #
LGA    Y     123      T     158          4.332
LGA    -       -      P     159           -
LGA    -       -      I     160           -
LGA    -       -      T     161           -
LGA    -       -      P     162           -
LGA    -       -      D     163           -
LGA    I     124      R     164          3.487
LGA    Y     125      I     165          2.373
LGA    L     126      -       -           -
LGA    R     127      Q     166          1.462
LGA    S     128      E     167          1.271
LGA    D     129      C     168          0.823
LGA    L     130      L     169          0.969
LGA    A     131      D     170          0.982
LGA    T     132      L     171          0.695
LGA    L     133      E     172          1.088
LGA    K     134      A     173          1.534
LGA    G     135      E     174          0.941
LGA    K     136      W     175          0.925
LGA    K     137      C     176          1.395
LGA    -       -      K     177           -
LGA    -       -      V     178           -
LGA    -       -      N     179           -
LGA    -       -      N     180           -
LGA    F     138      C     181          5.159
LGA    -       -      D     182           -
LGA    -       -      Q     183           -
LGA    -       -      Q     184           -
LGA    -       -      E     185           -
LGA    -       -      G     186           -
LGA    -       -      T     187           -
LGA    Q     139      G     188          4.237
LGA    -       -      N     189           -
LGA    -       -      E     190           -
LGA    A     140      R     191          1.817
LGA    K     141      R     192          2.981
LGA    -       -      A     193           -
LGA    -       -      L     194           -
LGA    R     142      I     195          3.083
LGA    N     143      Y     196          1.490
LGA    H     144      A     197          2.361
LGA    I     145      L     198          1.874
LGA    -       -      H     199           -
LGA    N     146      N     200          3.666
LGA    R     147      F     201          4.843
LGA    F     148      E     202           -
LGA    -       -      A     203           -
LGA    -       -      L     204           -
LGA    -       -      G     205           -
LGA    R     149      L     206          4.825
LGA    N     150      T     207          3.225
LGA    -       -      G     208           -
LGA    -       -      G     209           -
LGA    -       -      I     210           -
LGA    -       -      L     211           -
LGA    -       -      H     212           -
LGA    -       -      V     213           -
LGA    -       -      N     214           -
LGA    -       -      G     215           -
LGA    -       -      K     216           -
LGA    -       -      I     217           -
LGA    -       -      V     218           -
LGA    -       -      A     219           -
LGA    -       -      F     220           -
LGA    -       -      T     221           -
LGA    -       -      F     222           -
LGA    -       -      G     223           -
LGA    -       -      M     224           -
LGA    -       -      P     225           -
LGA    -       -      I     226           -
LGA    -       -      N     227           -
LGA    -       -      H     228           -
LGA    -       -      E     229           -
LGA    -       -      T     230           -
LGA    -       -      F     231           -
LGA    -       -      G     232           -
LGA    -       -      V     233           -
LGA    -       -      H     234           -
LGA    -       -      V     235           -
LGA    -       -      E     236           -
LGA    -       -      K     237           -
LGA    -       -      A     238           -
LGA    -       -      D     239           -
LGA    -       -      T     240           -
LGA    -       -      S     241           -
LGA    -       -      I     242           -
LGA    -       -      D     243           -
LGA    -       -      G     244           -
LGA    -       -      A     245           -
LGA    -       -      Y     246           -
LGA    -       -      A     247           -
LGA    -       -      M     248           -
LGA    -       -      I     249           -
LGA    -       -      N     250           -
LGA    -       -      Y     251           -
LGA    -       -      E     252           -
LGA    -       -      F     253           -
LGA    -       -      A     254           -
LGA    -       -      N     255           -
LGA    -       -      R     256           -
LGA    -       -      I     257           -
LGA    -       -      P     258           -
LGA    -       -      E     259           -
LGA    -       -      Q     260           -
LGA    -       -      Y     261           -
LGA    -       -      I     262           -
LGA    -       -      Y     263           -
LGA    -       -      I     264           -
LGA    -       -      N     265           -
LGA    -       -      R     266           -
LGA    -       -      E     267           -
LGA    -       -      E     268           -
LGA    -       -      D     269           -
LGA    -       -      L     270           -
LGA    -       -      G     271           -
LGA    -       -      I     272           -
LGA    -       -      E     273           -
LGA    -       -      G     274           -
LGA    -       -      L     275           -
LGA    -       -      R     276           -
LGA    -       -      K     277           -
LGA    -       -      A     278           -
LGA    -       -      K     279           -
LGA    -       -      L     280           -
LGA    -       -      S     281           -
LGA    -       -      Y     282           -
LGA    -       -      Q     283           -
LGA    -       -      P     284           -
LGA    -       -      V     285           -
LGA    -       -      T     286           -
LGA    -       -      I     287           -
LGA    -       -      L     288           -
LGA    -       -      E     289           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   33  172    5.0     26    2.76     7.69     11.208     0.908

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.856232 * X  +  -0.117212 * Y  +   0.503119 * Z  +  40.150120
  Y_new =   0.397115 * X  +   0.473561 * Y  +   0.786155 * Z  +  -1.411947
  Z_new =  -0.330405 * X  +   0.872927 * Y  +  -0.358931 * Z  +  47.478832 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.960904   -1.180688  [ DEG:   112.3515    -67.6485 ]
  Theta =   0.336732    2.804860  [ DEG:    19.2933    160.7067 ]
  Phi   =   2.707327   -0.434265  [ DEG:   155.1184    -24.8816 ]
 
# 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: T0372TS261_1_4-D2                             
REMARK     2: T0372_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS261_1_4-D2.T0372_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   33  172   5.0   26   2.76    7.69  11.208
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS261_1_4-D2
REMARK PARENT number 4
PFRMAT TS
TARGET T0372
PARENT 1hqv_A
ATOM   1282  N   ARG   118      52.149  33.334  33.379  1.00  4.95
ATOM   1283  CA  ARG   118      53.356  32.567  33.688  1.00  4.95
ATOM   1284  C   ARG   118      54.465  33.171  34.515  1.00  4.95
ATOM   1285  O   ARG   118      55.161  32.447  35.208  1.00  4.95
ATOM   1286  CB  ARG   118      53.986  32.015  32.408  1.00  4.95
ATOM   1287  N   ALA   119      54.671  34.476  34.430  1.00  5.36
ATOM   1288  CA  ALA   119      55.740  35.064  35.214  1.00  5.36
ATOM   1289  C   ALA   119      55.174  35.498  36.560  1.00  5.36
ATOM   1290  O   ALA   119      55.832  36.172  37.340  1.00  5.36
ATOM   1291  CB  ALA   119      56.402  36.233  34.456  1.00  5.36
ATOM   1292  N   TYR   120      53.943  35.083  36.823  1.00  4.09
ATOM   1293  CA  TYR   120      53.279  35.388  38.082  1.00  4.09
ATOM   1294  C   TYR   120      53.228  36.860  38.448  1.00  4.09
ATOM   1295  O   TYR   120      53.367  37.227  39.617  1.00  4.09
ATOM   1296  CB  TYR   120      53.965  34.602  39.187  1.00  4.09
ATOM   1297  N   ALA   121      52.988  37.703  37.453  1.00  5.29
ATOM   1298  CA  ALA   121      52.924  39.141  37.669  1.00  5.29
ATOM   1299  C   ALA   121      51.534  39.670  38.000  1.00  5.29
ATOM   1300  O   ALA   121      51.405  40.783  38.498  1.00  5.29
ATOM   1301  CB  ALA   121      53.440  39.868  36.434  1.00  5.29
ATOM   1302  N   ASP   122      50.493  38.886  37.730  1.00  5.45
ATOM   1303  CA  ASP   122      49.143  39.346  38.003  1.00  5.45
ATOM   1304  C   ASP   122      48.531  40.034  36.793  1.00  5.45
ATOM   1305  O   ASP   122      47.378  40.463  36.819  1.00  5.45
ATOM   1306  CB  ASP   122      49.170  40.286  39.221  1.00  5.45
ATOM   1307  N   TYR   123      49.309  40.134  35.724  1.00  3.71
ATOM   1308  CA  TYR   123      48.869  40.764  34.490  1.00  3.71
ATOM   1309  C   TYR   123      49.309  39.877  33.334  1.00  3.71
ATOM   1310  O   TYR   123      50.350  39.227  33.415  1.00  3.71
ATOM   1311  CB  TYR   123      49.526  42.136  34.344  1.00  3.71
ATOM   1312  N   ILE   124      48.521  39.858  32.262  1.00  3.04
ATOM   1313  CA  ILE   124      48.834  39.053  31.083  1.00  3.04
ATOM   1314  C   ILE   124      49.510  39.902  30.013  1.00  3.04
ATOM   1315  O   ILE   124      48.904  40.828  29.488  1.00  3.04
ATOM   1316  CB  ILE   124      47.538  38.431  30.486  1.00  3.04
ATOM   1317  N   TYR   125      50.762  39.601  29.688  1.00  4.97
ATOM   1318  CA  TYR   125      51.439  40.374  28.656  1.00  4.97
ATOM   1319  C   TYR   125      51.154  39.743  27.306  1.00  4.97
ATOM   1320  O   TYR   125      50.379  38.794  27.210  1.00  4.97
ATOM   1321  CB  TYR   125      52.960  40.453  28.900  1.00  4.97
ATOM   1322  N   LEU   126      51.781  40.274  26.263  1.00  6.54
ATOM   1323  CA  LEU   126      51.588  39.788  24.902  1.00  6.54
ATOM   1324  C   LEU   126      51.996  38.326  24.711  1.00  6.54
ATOM   1325  O   LEU   126      51.266  37.549  24.107  1.00  6.54
ATOM   1326  CB  LEU   126      52.358  40.686  23.932  1.00  6.54
ATOM   1327  N   ARG   127      53.161  37.943  25.216  1.00  5.75
ATOM   1328  CA  ARG   127      53.590  36.566  25.069  1.00  5.75
ATOM   1329  C   ARG   127      52.624  35.616  25.791  1.00  5.75
ATOM   1330  O   ARG   127      52.294  34.541  25.285  1.00  5.75
ATOM   1331  CB  ARG   127      55.023  36.394  25.592  1.00  5.75
ATOM   1332  N   SER   128      52.166  36.015  26.970  1.00  5.77
ATOM   1333  CA  SER   128      51.235  35.185  27.717  1.00  5.77
ATOM   1334  C   SER   128      49.892  35.155  26.989  1.00  5.77
ATOM   1335  O   SER   128      49.235  34.118  26.924  1.00  5.77
ATOM   1336  CB  SER   128      51.062  35.730  29.136  1.00  5.77
ATOM   1337  N   ASP   129      49.490  36.294  26.437  1.00  4.99
ATOM   1338  CA  ASP   129      48.228  36.382  25.714  1.00  4.99
ATOM   1339  C   ASP   129      48.234  35.486  24.481  1.00  4.99
ATOM   1340  O   ASP   129      47.211  34.910  24.123  1.00  4.99
ATOM   1341  CB  ASP   129      47.950  37.826  25.296  1.00  4.99
ATOM   1342  N   LEU   130      49.376  35.380  23.820  1.00  8.59
ATOM   1343  CA  LEU   130      49.467  34.527  22.645  1.00  8.59
ATOM   1344  C   LEU   130      49.277  33.087  23.085  1.00  8.59
ATOM   1345  O   LEU   130      48.674  32.273  22.380  1.00  8.59
ATOM   1346  CB  LEU   130      50.833  34.674  21.978  1.00  8.59
ATOM   1347  N   ALA   131      49.805  32.780  24.261  1.00  9.24
ATOM   1348  CA  ALA   131      49.704  31.446  24.822  1.00  9.24
ATOM   1349  C   ALA   131      48.265  31.149  25.207  1.00  9.24
ATOM   1350  O   ALA   131      47.765  30.057  24.961  1.00  9.24
ATOM   1351  CB  ALA   131      50.596  31.337  26.057  1.00  9.24
ATOM   1352  N   THR   132      47.604  32.123  25.824  1.00  3.45
ATOM   1353  CA  THR   132      46.218  31.939  26.230  1.00  3.45
ATOM   1354  C   THR   132      45.372  31.627  25.015  1.00  3.45
ATOM   1355  O   THR   132      44.707  30.597  24.974  1.00  3.45
ATOM   1356  CB  THR   132      45.690  33.190  26.911  1.00  3.45
ATOM   1357  N   LEU   133      45.414  32.515  24.022  1.00  7.39
ATOM   1358  CA  LEU   133      44.626  32.344  22.809  1.00  7.39
ATOM   1359  C   LEU   133      45.007  31.104  22.016  1.00  7.39
ATOM   1360  O   LEU   133      44.147  30.414  21.475  1.00  7.39
ATOM   1361  CB  LEU   133      44.730  33.592  21.927  1.00  7.39
ATOM   1362  N   LYS   134      46.294  30.815  21.926  1.00  5.96
ATOM   1363  CA  LYS   134      46.698  29.616  21.213  1.00  5.96
ATOM   1364  C   LYS   134      46.047  28.440  21.954  1.00  5.96
ATOM   1365  O   LYS   134      45.489  27.539  21.343  1.00  5.96
ATOM   1366  CB  LYS   134      48.218  29.483  21.222  1.00  5.96
ATOM   1367  N   GLY   135      46.097  28.483  23.281  1.00  5.50
ATOM   1368  CA  GLY   135      45.511  27.428  24.085  1.00  5.50
ATOM   1369  C   GLY   135      43.998  27.324  23.952  1.00  5.50
ATOM   1370  O   GLY   135      43.426  26.278  24.251  1.00  5.50
ATOM   1371  N   LYS   136      43.342  28.398  23.518  1.00  6.47
ATOM   1372  CA  LYS   136      41.891  28.386  23.338  1.00  6.47
ATOM   1373  C   LYS   136      41.527  27.847  21.957  1.00  6.47
ATOM   1374  O   LYS   136      40.367  27.594  21.674  1.00  6.47
ATOM   1375  CB  LYS   136      41.321  29.800  23.475  1.00  6.47
ATOM   1376  N   LYS   137      42.520  27.698  21.091  1.00  5.59
ATOM   1377  CA  LYS   137      42.243  27.190  19.762  1.00  5.59
ATOM   1378  C   LYS   137      42.397  28.220  18.658  1.00  5.59
ATOM   1379  O   LYS   137      42.275  27.877  17.487  1.00  5.59
ATOM   1380  CB  LYS   137      40.822  26.602  19.756  1.00  5.59
ATOM   1381  N   PHE   138      42.659  29.475  19.025  1.00  4.26
ATOM   1382  CA  PHE   138      42.841  30.552  18.051  1.00  4.26
ATOM   1383  C   PHE   138      44.191  30.440  17.355  1.00  4.26
ATOM   1384  O   PHE   138      45.168  30.018  17.956  1.00  4.26
ATOM   1385  CB  PHE   138      42.774  31.923  18.727  1.00  4.26
ATOM   1386  N   GLN   139      44.232  30.831  16.087  1.00  5.07
ATOM   1387  CA  GLN   139      45.456  30.800  15.294  1.00  5.07
ATOM   1388  C   GLN   139      45.581  32.204  14.699  1.00  5.07
ATOM   1389  O   GLN   139      45.252  32.437  13.534  1.00  5.07
ATOM   1390  CB  GLN   139      45.334  29.751  14.176  1.00  5.07
ATOM   1391  N   ALA   140      46.052  33.133  15.521  1.00  5.46
ATOM   1392  CA  ALA   140      46.200  34.529  15.128  1.00  5.46
ATOM   1393  C   ALA   140      47.657  34.951  14.994  1.00  5.46
ATOM   1394  O   ALA   140      48.534  34.443  15.693  1.00  5.46
ATOM   1395  CB  ALA   140      45.501  35.418  16.160  1.00  5.46
ATOM   1396  N   LYS   141      47.910  35.894  14.093  1.00  5.19
ATOM   1397  CA  LYS   141      49.263  36.380  13.875  1.00  5.19
ATOM   1398  C   LYS   141      49.724  37.186  15.083  1.00  5.19
ATOM   1399  O   LYS   141      48.918  37.594  15.919  1.00  5.19
ATOM   1400  CB  LYS   141      49.320  37.248  12.609  1.00  5.19
ATOM   1401  N   ARG   142      51.030  37.397  15.171  1.00  4.97
ATOM   1402  CA  ARG   142      51.624  38.157  16.260  1.00  4.97
ATOM   1403  C   ARG   142      51.057  39.579  16.311  1.00  4.97
ATOM   1404  O   ARG   142      50.531  40.011  17.335  1.00  4.97
ATOM   1405  CB  ARG   142      53.140  38.202  16.072  1.00  4.97
ATOM   1406  N   ASN   143      51.151  40.291  15.191  1.00  5.17
ATOM   1407  CA  ASN   143      50.665  41.666  15.087  1.00  5.17
ATOM   1408  C   ASN   143      49.289  41.872  15.720  1.00  5.17
ATOM   1409  O   ASN   143      49.041  42.892  16.370  1.00  5.17
ATOM   1410  CB  ASN   143      50.600  42.099  13.617  1.00  5.17
ATOM   1411  N   HIS   144      48.393  40.908  15.527  1.00  2.67
ATOM   1412  CA  HIS   144      47.044  41.019  16.070  1.00  2.67
ATOM   1413  C   HIS   144      46.993  41.160  17.587  1.00  2.67
ATOM   1414  O   HIS   144      46.111  41.839  18.122  1.00  2.67
ATOM   1415  CB  HIS   144      46.189  39.819  15.657  1.00  2.67
ATOM   1416  N   ILE   145      47.926  40.527  18.288  1.00  4.52
ATOM   1417  CA  ILE   145      47.930  40.617  19.747  1.00  4.52
ATOM   1418  C   ILE   145      48.222  42.032  20.258  1.00  4.52
ATOM   1419  O   ILE   145      47.825  42.393  21.367  1.00  4.52
ATOM   1420  CB  ILE   145      48.911  39.604  20.335  1.00  4.52
ATOM   1421  N   ASN   146      48.908  42.838  19.452  1.00  3.50
ATOM   1422  CA  ASN   146      49.189  44.215  19.849  1.00  3.50
ATOM   1423  C   ASN   146      47.859  44.955  19.826  1.00  3.50
ATOM   1424  O   ASN   146      47.525  45.710  20.746  1.00  3.50
ATOM   1425  CB  ASN   146      50.138  44.896  18.862  1.00  3.50
ATOM   1426  N   ARG   147      47.108  44.721  18.754  1.00  5.45
ATOM   1427  CA  ARG   147      45.810  45.344  18.557  1.00  5.45
ATOM   1428  C   ARG   147      44.872  44.958  19.686  1.00  5.45
ATOM   1429  O   ARG   147      44.196  45.803  20.269  1.00  5.45
ATOM   1430  CB  ARG   147      45.196  44.900  17.212  1.00  5.45
ATOM   1431  N   PHE   148      44.849  43.668  19.995  1.00  3.91
ATOM   1432  CA  PHE   148      44.000  43.140  21.045  1.00  3.91
ATOM   1433  C   PHE   148      44.283  43.807  22.396  1.00  3.91
ATOM   1434  O   PHE   148      43.357  44.198  23.113  1.00  3.91
ATOM   1435  CB  PHE   148      44.205  41.630  21.139  1.00  3.91
ATOM   1436  N   ARG   149      45.561  43.937  22.739  1.00  6.92
ATOM   1437  CA  ARG   149      45.945  44.565  23.997  1.00  6.92
ATOM   1438  C   ARG   149      45.525  46.030  24.018  1.00  6.92
ATOM   1439  O   ARG   149      44.763  46.468  24.881  1.00  6.92
ATOM   1440  CB  ARG   149      47.460  44.510  24.205  1.00  6.92
ATOM   1441  N   ASN   150      46.045  46.783  23.058  1.00  4.86
ATOM   1442  CA  ASN   150      45.746  48.200  22.930  1.00  4.86
ATOM   1443  C   ASN   150      44.240  48.435  23.062  1.00  4.86
ATOM   1444  O   ASN   150      43.792  49.387  23.711  1.00  4.86
ATOM   1445  CB  ASN   150      46.240  48.678  21.567  1.00  4.86
TER
END
