
#######################################################
#                                                     #
#                        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   24 (  119),  selected   24 , name T0295TS239_3_2
# Molecule2: number of CA atoms  275 ( 2193),  selected  275 , name T0295
# PARAMETERS: T0295TS239_3_2.T0295  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      H       1           -
LGA    -       -      L       2           -
LGA    -       -      L       3           -
LGA    -       -      K       4           -
LGA    -       -      N       5           -
LGA    -       -      P       6           -
LGA    -       -      G       7           -
LGA    -       -      I       8           -
LGA    -       -      L       9           -
LGA    -       -      D      10           -
LGA    -       -      K      11           -
LGA    -       -      I      12           -
LGA    -       -      I      13           -
LGA    -       -      Y      14           -
LGA    -       -      A      15           -
LGA    -       -      A      16           -
LGA    -       -      K      17           -
LGA    -       -      I      18           -
LGA    -       -      K      19           -
LGA    -       -      S      20           -
LGA    -       -      S      21           -
LGA    -       -      D      22           -
LGA    -       -      I      23           -
LGA    -       -      V      24           -
LGA    -       -      L      25           -
LGA    -       -      E      26           -
LGA    -       -      I      27           -
LGA    -       -      G      28           -
LGA    -       -      C      29           -
LGA    -       -      G      30           -
LGA    -       -      T      31           -
LGA    -       -      G      32           -
LGA    -       -      N      33           -
LGA    -       -      L      34           -
LGA    -       -      T      35           -
LGA    -       -      V      36           -
LGA    -       -      K      37           -
LGA    -       -      L      38           -
LGA    -       -      L      39           -
LGA    -       -      P      40           -
LGA    -       -      L      41           -
LGA    -       -      A      42           -
LGA    -       -      K      43           -
LGA    -       -      K      44           -
LGA    -       -      V      45           -
LGA    -       -      I      46           -
LGA    -       -      T      47           -
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      I      50           -
LGA    -       -      D      51           -
LGA    -       -      S      52           -
LGA    -       -      R      53           -
LGA    -       -      M      54           -
LGA    -       -      I      55           -
LGA    -       -      S      56           -
LGA    -       -      E      57           -
LGA    -       -      V      58           -
LGA    -       -      K      59           -
LGA    -       -      K      60           -
LGA    -       -      R      61           -
LGA    -       -      C      62           -
LGA    -       -      L      63           -
LGA    -       -      Y      64           -
LGA    -       -      E      65           -
LGA    -       -      G      66           -
LGA    -       -      Y      67           -
LGA    -       -      N      68           -
LGA    -       -      N      69           -
LGA    -       -      L      70           -
LGA    -       -      E      71           -
LGA    -       -      V      72           -
LGA    -       -      Y      73           -
LGA    -       -      E      74           -
LGA    -       -      G      75           -
LGA    -       -      D      76           -
LGA    -       -      A      77           -
LGA    -       -      I      78           -
LGA    -       -      K      79           -
LGA    -       -      T      80           -
LGA    -       -      V      81           -
LGA    -       -      F      82           -
LGA    -       -      P      83           -
LGA    -       -      K      84           -
LGA    -       -      F      85           -
LGA    -       -      D      86           -
LGA    -       -      V      87           -
LGA    -       -      C      88           -
LGA    -       -      T      89           -
LGA    -       -      A      90           -
LGA    -       -      N      91           -
LGA    -       -      I      92           -
LGA    -       -      P      93           -
LGA    -       -      Y      94           -
LGA    -       -      K      95           -
LGA    -       -      I      96           -
LGA    -       -      S      97           -
LGA    -       -      S      98           -
LGA    -       -      P      99           -
LGA    -       -      L     100           -
LGA    -       -      I     101           -
LGA    -       -      F     102           -
LGA    -       -      K     103           -
LGA    -       -      L     104           -
LGA    -       -      I     105           -
LGA    -       -      S     106           -
LGA    -       -      H     107           -
LGA    -       -      R     108           -
LGA    -       -      P     109           -
LGA    -       -      L     110           -
LGA    -       -      F     111           -
LGA    -       -      K     112           -
LGA    -       -      C     113           -
LGA    -       -      A     114           -
LGA    -       -      V     115           -
LGA    -       -      L     116           -
LGA    -       -      M     117           -
LGA    -       -      F     118           -
LGA    -       -      Q     119           -
LGA    -       -      K     120           -
LGA    -       -      E     121           -
LGA    -       -      F     122           -
LGA    -       -      A     123           -
LGA    -       -      E     124           -
LGA    -       -      R     125           -
LGA    -       -      M     126           -
LGA    -       -      L     127           -
LGA    -       -      A     128           -
LGA    -       -      N     129           -
LGA    -       -      V     130           -
LGA    -       -      G     131           -
LGA    -       -      D     132           -
LGA    -       -      S     133           -
LGA    -       -      N     134           -
LGA    -       -      Y     135           -
LGA    -       -      S     136           -
LGA    -       -      R     137           -
LGA    -       -      L     138           -
LGA    -       -      T     139           -
LGA    -       -      I     140           -
LGA    -       -      N     141           -
LGA    -       -      V     142           -
LGA    -       -      K     143           -
LGA    -       -      L     144           -
LGA    -       -      F     145           -
LGA    -       -      C     146           -
LGA    -       -      K     147           -
LGA    -       -      V     148           -
LGA    -       -      T     149           -
LGA    -       -      K     150           -
LGA    -       -      V     151           -
LGA    -       -      C     152           -
LGA    -       -      N     153           -
LGA    -       -      V     154           -
LGA    -       -      N     155           -
LGA    -       -      R     156           -
LGA    -       -      S     157           -
LGA    -       -      S     158           -
LGA    -       -      F     159           -
LGA    -       -      N     160           -
LGA    -       -      P     161           -
LGA    -       -      P     162           -
LGA    -       -      P     163           -
LGA    -       -      K     164           -
LGA    -       -      V     165           -
LGA    -       -      D     166           -
LGA    -       -      S     167           -
LGA    -       -      V     168           -
LGA    -       -      I     169           -
LGA    -       -      V     170           -
LGA    -       -      K     171           -
LGA    -       -      L     172           -
LGA    -       -      I     173           -
LGA    -       -      P     174           -
LGA    -       -      K     175           -
LGA    -       -      E     176           -
LGA    -       -      S     177           -
LGA    -       -      S     178           -
LGA    -       -      F     179           -
LGA    -       -      L     180           -
LGA    -       -      T     181           -
LGA    -       -      N     182           -
LGA    -       -      F     183           -
LGA    -       -      D     184           -
LGA    -       -      E     185           -
LGA    -       -      W     186           -
LGA    -       -      D     187           -
LGA    -       -      N     188           -
LGA    -       -      L     189           -
LGA    -       -      L     190           -
LGA    -       -      R     191           -
LGA    -       -      I     192           -
LGA    -       -      C     193           -
LGA    -       -      F     194           -
LGA    -       -      S     195           -
LGA    -       -      R     196           -
LGA    -       -      K     197           -
LGA    -       -      R     198           -
LGA    -       -      K     199           -
LGA    -       -      T     200           -
LGA    S     252      L     201          4.814
LGA    I     253      H     202          0.740
LGA    N     254      A     203          2.408
LGA    L     255      I     204          2.443
LGA    -       -      F     205           -
LGA    -       -      K     206           -
LGA    D     256      R     207          0.733
LGA    E     257      N     208          0.459
LGA    N     258      A     209          0.156
LGA    D     259      V     210          0.180
LGA    F     260      L     211          0.487
LGA    L     261      N     212          0.577
LGA    K     262      M     213          0.465
LGA    L     263      L     214          0.539
LGA    L     264      E     215          0.565
LGA    L     265      H     216          0.544
LGA    E     266      N     217          0.582
LGA    F     267      Y     218          0.602
LGA    N     268      K     219          0.441
LGA    K     269      N     220          0.440
LGA    K     270      W     221          0.717
LGA    G     271      C     222          0.553
LGA    -       -      T     223           -
LGA    -       -      L     224           -
LGA    -       -      N     225           -
LGA    -       -      K     226           -
LGA    -       -      Q     227           -
LGA    I     272      V     228           #
LGA    H     273      P     229          1.628
LGA    F     274      V     230          2.084
LGA    F     275      N     231          1.620
LGA    -       -      F     232           -
LGA    -       -      P     233           -
LGA    -       -      F     234           -
LGA    -       -      K     235           -
LGA    -       -      K     236           -
LGA    -       -      Y     237           -
LGA    -       -      C     238           -
LGA    -       -      L     239           -
LGA    -       -      D     240           -
LGA    -       -      V     241           -
LGA    -       -      L     242           -
LGA    -       -      E     243           -
LGA    -       -      H     244           -
LGA    -       -      L     245           -
LGA    -       -      D     246           -
LGA    -       -      M     247           -
LGA    -       -      C     248           -
LGA    -       -      E     249           -
LGA    -       -      K     250           -
LGA    -       -      R     251           -
LGA    -       -      S     252           -
LGA    -       -      I     253           -
LGA    -       -      N     254           -
LGA    -       -      L     255           -
LGA    -       -      D     256           -
LGA    -       -      E     257           -
LGA    -       -      N     258           -
LGA    -       -      D     259           -
LGA    -       -      F     260           -
LGA    -       -      L     261           -
LGA    -       -      K     262           -
LGA    -       -      L     263           -
LGA    -       -      L     264           -
LGA    -       -      L     265           -
LGA    -       -      E     266           -
LGA    -       -      F     267           -
LGA    -       -      N     268           -
LGA    -       -      K     269           -
LGA    -       -      K     270           -
LGA    -       -      G     271           -
LGA    -       -      I     272           -
LGA    -       -      H     273           -
LGA    -       -      F     274           -
LGA    -       -      F     275           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   24  275    5.0     23    1.47     4.35      8.164     1.468

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.078586 * X  +   0.233759 * Y  +  -0.969114 * Z  +  25.455582
  Y_new =   0.917005 * X  +   0.398284 * Y  +   0.021709 * Z  +  21.763622
  Z_new =   0.391058 * X  +  -0.886976 * Y  +  -0.245657 * Z  +  -5.904781 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.840984    1.300608  [ DEG:  -105.4806     74.5194 ]
  Theta =  -0.401780   -2.739812  [ DEG:   -23.0203   -156.9797 ]
  Phi   =   1.656286   -1.485307  [ DEG:    94.8982    -85.1018 ]
 
# 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: T0295TS239_3_2                                
REMARK     2: T0295                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0295TS239_3_2.T0295 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   24  275   5.0   23   1.47    4.35   8.164
REMARK  ---------------------------------------------------------- 
MOLECULE T0295TS239_3_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0295
PARENT 1zq9_A
ATOM   1249  N   SER   252      22.215  19.187 -10.138  1.00  9.99
ATOM   1250  CA  SER   252      22.176  20.445 -10.885  1.00  9.99
ATOM   1251  C   SER   252      21.379  20.344 -12.196  1.00  9.99
ATOM   1252  O   SER   252      20.686  21.262 -12.562  1.00  9.99
ATOM   1253  CB  SER   252      23.577  20.925 -11.156  1.00  9.99
ATOM   1254  N   ILE   253      21.452  19.217 -12.883  1.00  9.99
ATOM   1255  CA  ILE   253      20.761  19.048 -14.163  1.00  9.99
ATOM   1256  C   ILE   253      19.233  19.200 -14.084  1.00  9.99
ATOM   1257  O   ILE   253      18.587  19.379 -15.104  1.00  9.99
ATOM   1258  CB  ILE   253      21.077  17.673 -14.774  1.00  9.99
ATOM   1259  N   ASN   254      18.672  19.042 -12.883  1.00  9.99
ATOM   1260  CA  ASN   254      17.232  19.174 -12.683  1.00  9.99
ATOM   1261  C   ASN   254      16.845  20.442 -11.897  1.00  9.99
ATOM   1262  O   ASN   254      15.691  20.617 -11.515  1.00  9.99
ATOM   1263  CB  ASN   254      16.698  17.922 -11.982  1.00  9.99
ATOM   1264  N   LEU   255      17.806  21.335 -11.674  1.00  9.99
ATOM   1265  CA  LEU   255      17.550  22.479 -10.826  1.00  9.99
ATOM   1266  C   LEU   255      17.409  23.702 -11.738  1.00  9.99
ATOM   1267  O   LEU   255      18.204  23.876 -12.683  1.00  9.99
ATOM   1268  CB  LEU   255      18.694  22.671  -9.811  1.00  9.99
ATOM   1269  N   ASP   256      16.414  24.538 -11.443  1.00  9.99
ATOM   1270  CA  ASP   256      16.139  25.750 -12.206  1.00  9.99
ATOM   1271  C   ASP   256      16.736  26.984 -11.534  1.00  9.99
ATOM   1272  O   ASP   256      17.442  26.858 -10.527  1.00  9.99
ATOM   1273  CB  ASP   256      14.625  25.901 -12.452  1.00  9.99
ATOM   1274  N   GLU   257      16.490  28.170 -12.094  1.00  9.99
ATOM   1275  CA  GLU   257      17.079  29.393 -11.546  1.00  9.99
ATOM   1276  C   GLU   257      16.583  29.701 -10.118  1.00  9.99
ATOM   1277  O   GLU   257      17.379  30.064  -9.269  1.00  9.99
ATOM   1278  CB  GLU   257      16.853  30.615 -12.475  1.00  9.99
ATOM   1279  N   ASN   258      15.284  29.568  -9.878  1.00  9.99
ATOM   1280  CA  ASN   258      14.714  29.741  -8.531  1.00  9.99
ATOM   1281  C   ASN   258      15.523  28.904  -7.516  1.00  9.99
ATOM   1282  O   ASN   258      15.926  29.407  -6.463  1.00  9.99
ATOM   1283  CB  ASN   258      13.247  29.301  -8.503  1.00  9.99
ATOM   1284  N   ASP   259      15.754  27.630  -7.856  1.00  9.99
ATOM   1285  CA  ASP   259      16.507  26.690  -7.014  1.00  9.99
ATOM   1286  C   ASP   259      17.920  27.152  -6.701  1.00  9.99
ATOM   1287  O   ASP   259      18.343  27.088  -5.562  1.00  9.99
ATOM   1288  CB  ASP   259      16.598  25.303  -7.673  1.00  9.99
ATOM   1289  N   PHE   260      18.668  27.570  -7.725  1.00  9.99
ATOM   1290  CA  PHE   260      20.030  27.989  -7.488  1.00  9.99
ATOM   1291  C   PHE   260      20.098  29.312  -6.730  1.00  9.99
ATOM   1292  O   PHE   260      20.990  29.511  -5.901  1.00  9.99
ATOM   1293  CB  PHE   260      20.807  28.039  -8.800  1.00  9.99
ATOM   1294  N   LEU   261      19.136  30.200  -6.970  1.00  9.99
ATOM   1295  CA  LEU   261      19.097  31.446  -6.181  1.00  9.99
ATOM   1296  C   LEU   261      18.904  31.102  -4.698  1.00  9.99
ATOM   1297  O   LEU   261      19.615  31.623  -3.834  1.00  9.99
ATOM   1298  CB  LEU   261      18.004  32.426  -6.672  1.00  9.99
ATOM   1299  N   LYS   262      17.939  30.234  -4.406  1.00  9.99
ATOM   1300  CA  LYS   262      17.714  29.779  -3.017  1.00  9.99
ATOM   1301  C   LYS   262      18.984  29.173  -2.382  1.00  9.99
ATOM   1302  O   LYS   262      19.351  29.493  -1.228  1.00  9.99
ATOM   1303  CB  LYS   262      16.564  28.773  -2.949  1.00  9.99
ATOM   1304  N   LEU   263      19.625  28.276  -3.127  1.00  9.99
ATOM   1305  CA  LEU   263      20.855  27.640  -2.689  1.00  9.99
ATOM   1306  C   LEU   263      21.959  28.653  -2.432  1.00  9.99
ATOM   1307  O   LEU   263      22.650  28.559  -1.419  1.00  9.99
ATOM   1308  CB  LEU   263      21.336  26.609  -3.712  1.00  9.99
ATOM   1309  N   LEU   264      22.140  29.592  -3.356  1.00  9.99
ATOM   1310  CA  LEU   264      23.187  30.606  -3.217  1.00  9.99
ATOM   1311  C   LEU   264      22.921  31.434  -1.963  1.00  9.99
ATOM   1312  O   LEU   264      23.816  31.633  -1.134  1.00  9.99
ATOM   1313  CB  LEU   264      23.255  31.504  -4.448  1.00  9.99
ATOM   1314  N   LEU   265      21.681  31.911  -1.845  1.00  9.99
ATOM   1315  CA  LEU   265      21.235  32.669  -0.653  1.00  9.99
ATOM   1316  C   LEU   265      21.565  31.917   0.627  1.00  9.99
ATOM   1317  O   LEU   265      22.093  32.496   1.591  1.00  9.99
ATOM   1318  CB  LEU   265      19.720  32.977  -0.733  1.00  9.99
ATOM   1319  N   GLU   266      21.289  30.619   0.627  1.00  9.99
ATOM   1320  CA  GLU   266      21.485  29.792   1.803  1.00  9.99
ATOM   1321  C   GLU   266      22.943  29.554   2.169  1.00  9.99
ATOM   1322  O   GLU   266      23.264  29.373   3.343  1.00  9.99
ATOM   1323  CB  GLU   266      20.762  28.454   1.573  1.00  9.99
ATOM   1324  N   PHE   267      23.825  29.495   1.164  1.00  9.99
ATOM   1325  CA  PHE   267      25.263  29.434   1.434  1.00  9.99
ATOM   1326  C   PHE   267      25.746  30.766   2.001  1.00  9.99
ATOM   1327  O   PHE   267      26.470  30.776   2.985  1.00  9.99
ATOM   1328  CB  PHE   267      26.062  29.086   0.164  1.00  9.99
ATOM   1329  N   ASN   268      25.328  31.870   1.379  1.00  9.99
ATOM   1330  CA  ASN   268      25.750  33.230   1.724  1.00  9.99
ATOM   1331  C   ASN   268      25.355  33.621   3.160  1.00  9.99
ATOM   1332  O   ASN   268      26.138  34.242   3.885  1.00  9.99
ATOM   1333  CB  ASN   268      25.175  34.264   0.730  1.00  9.99
ATOM   1334  N   LYS   269      24.142  33.261   3.548  1.00  9.99
ATOM   1335  CA  LYS   269      23.630  33.491   4.892  1.00  9.99
ATOM   1336  C   LYS   269      24.498  32.820   5.966  1.00  9.99
ATOM   1337  O   LYS   269      24.457  33.225   7.125  1.00  9.99
ATOM   1338  CB  LYS   269      22.213  32.988   4.992  1.00  9.99
ATOM   1339  N   LYS   270      25.251  31.783   5.586  1.00  9.99
ATOM   1340  CA  LYS   270      26.093  31.067   6.519  1.00  9.99
ATOM   1341  C   LYS   270      27.583  31.379   6.351  1.00  9.99
ATOM   1342  O   LYS   270      28.417  30.682   6.920  1.00  9.99
ATOM   1343  CB  LYS   270      25.867  29.571   6.388  1.00  9.99
ATOM   1344  N   GLY   271      27.906  32.406   5.573  1.00  9.99
ATOM   1345  CA  GLY   271      29.299  32.835   5.417  1.00  9.99
ATOM   1346  C   GLY   271      30.082  32.186   4.296  1.00  9.99
ATOM   1347  O   GLY   271      31.277  32.445   4.145  1.00  9.99
ATOM   1348  N   ILE   272      29.417  31.351   3.504  1.00  9.99
ATOM   1349  CA  ILE   272      30.073  30.738   2.322  1.00  9.99
ATOM   1350  C   ILE   272      29.798  31.554   1.074  1.00  9.99
ATOM   1351  O   ILE   272      28.641  31.684   0.624  1.00  9.99
ATOM   1352  CB  ILE   272      29.731  29.236   2.162  1.00  9.99
ATOM   1353  N   HIS   273      30.875  32.142   0.565  1.00  9.99
ATOM   1354  CA  HIS   273      30.855  32.983  -0.616  1.00  9.99
ATOM   1355  C   HIS   273      31.760  32.394  -1.709  1.00  9.99
ATOM   1356  O   HIS   273      32.947  32.125  -1.444  1.00  9.99
ATOM   1357  CB  HIS   273      31.287  34.407  -0.241  1.00  9.99
ATOM   1358  N   PHE   274      31.204  32.219  -2.915  1.00  9.99
ATOM   1359  CA  PHE   274      31.899  31.546  -4.038  1.00  9.99
ATOM   1360  C   PHE   274      32.705  32.509  -4.905  1.00  9.99
ATOM   1361  O   PHE   274      32.327  33.660  -5.094  1.00  9.99
ATOM   1362  CB  PHE   274      30.892  30.797  -4.929  1.00  9.99
ATOM   1363  N   PHE   275      33.821  32.026  -5.446  1.00  9.99
ATOM   1364  CA  PHE   275      34.645  32.802  -6.388  1.00  9.99
ATOM   1365  C   PHE   275      34.613  32.139  -7.767  1.00  9.99
ATOM   1366  O   PHE   275      34.055  31.034  -7.891  1.00  9.99
ATOM   1367  CB  PHE   275      36.081  32.846  -5.893  1.00  9.99
TER
END
