
#######################################################
#                                                     #
#                        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   22 (  169),  selected   22 , name T0330TS464_3_1-D1
# Molecule2: number of CA atoms  153 ( 1188),  selected  153 , name T0330_D1.pdb
# PARAMETERS: T0330TS464_3_1-D1.T0330_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    D       9      S       2           -
LGA    I      10      R       3           -
LGA    D      11      T       4           -
LGA    -       -      L       5           -
LGA    -       -      V       6           -
LGA    -       -      L       7           -
LGA    -       -      F       8           -
LGA    -       -      D       9           -
LGA    -       -      I      10           -
LGA    -       -      D      11           -
LGA    -       -      G      12           -
LGA    -       -      T      13           -
LGA    -       -      L      14           -
LGA    -       -      L      15           -
LGA    -       -      K      16           -
LGA    -       -      T      92           -
LGA    -       -      L      93           -
LGA    -       -      L      94           -
LGA    -       -      E      95           -
LGA    -       -      G      96           -
LGA    -       -      V      97           -
LGA    -       -      R      98           -
LGA    -       -      E      99           -
LGA    -       -      L     100           -
LGA    -       -      L     101           -
LGA    -       -      D     102           -
LGA    -       -      A     103           -
LGA    -       -      L     104           -
LGA    -       -      S     105           -
LGA    -       -      S     106           -
LGA    -       -      R     107           -
LGA    -       -      S     108           -
LGA    -       -      D     109           -
LGA    -       -      V     110           -
LGA    -       -      L     111           -
LGA    -       -      L     112           -
LGA    -       -      G     113           -
LGA    -       -      L     114           -
LGA    -       -      L     115           -
LGA    -       -      T     116           -
LGA    -       -      G     117           -
LGA    -       -      N     118           -
LGA    -       -      F     119           -
LGA    -       -      E     120           -
LGA    -       -      A     121           -
LGA    -       -      S     122           -
LGA    -       -      G     123           -
LGA    -       -      R     124           -
LGA    -       -      H     125           -
LGA    -       -      K     126           -
LGA    -       -      L     127           -
LGA    -       -      K     128           -
LGA    -       -      L     129           -
LGA    -       -      P     130           -
LGA    -       -      G     131           -
LGA    -       -      I     132           -
LGA    -       -      D     133           -
LGA    -       -      H     134           -
LGA    -       -      Y     135           -
LGA    -       -      F     136           -
LGA    -       -      P     137           -
LGA    -       -      F     138           -
LGA    -       -      G     139           -
LGA    -       -      A     140           -
LGA    -       -      F     141           -
LGA    -       -      A     142           -
LGA    -       -      D     143           -
LGA    -       -      D     144           -
LGA    -       -      A     145           -
LGA    -       -      L     146           -
LGA    -       -      D     147           -
LGA    -       -      R     148           -
LGA    -       -      N     149           -
LGA    -       -      E     150           -
LGA    -       -      L     151           -
LGA    -       -      P     152           -
LGA    -       -      H     153           -
LGA    -       -      I     154           -
LGA    -       -      A     155           -
LGA    -       -      L     156           -
LGA    -       -      E     157           -
LGA    -       -      R     158           -
LGA    -       -      A     159           -
LGA    -       -      R     160           -
LGA    -       -      R     161           -
LGA    -       -      M     162           -
LGA    -       -      T     163           -
LGA    G     211      G     164          4.513
LGA    T     212      A     165          2.283
LGA    L     213      N     166          1.497
LGA    F     214      Y     167          2.582
LGA    K     215      S     168          1.583
LGA    N     216      P     169          0.984
LGA    -       -      S     170           -
LGA    -       -      Q     171           -
LGA    -       -      I     172           -
LGA    -       -      V     173           -
LGA    -       -      I     174           -
LGA    -       -      I     175           -
LGA    -       -      G     176           -
LGA    -       -      D     177           -
LGA    -       -      T     178           -
LGA    -       -      E     179           -
LGA    -       -      H     180           -
LGA    -       -      D     181           -
LGA    -       -      I     182           -
LGA    -       -      R     183           -
LGA    -       -      C     184           -
LGA    -       -      A     185           -
LGA    -       -      R     186           -
LGA    -       -      E     187           -
LGA    -       -      L     188           -
LGA    F     217      D     189           #
LGA    A     218      A     190          4.107
LGA    E     219      R     191          2.543
LGA    T     220      S     192          3.368
LGA    D     221      I     193          2.341
LGA    E     222      A     194          0.967
LGA    V     223      V     195           #
LGA    -       -      A     196           -
LGA    -       -      T     197           -
LGA    -       -      G     198           -
LGA    -       -      N     199           -
LGA    -       -      F     200           -
LGA    -       -      T     201           -
LGA    -       -      M     202           -
LGA    -       -      E     203           -
LGA    -       -      E     204           -
LGA    L     224      L     205          4.302
LGA    A     225      A     206          3.393
LGA    S     226      R     207          2.198
LGA    I     227      H     208           -
LGA    L     228      K     209           -
LGA    T     229      P     210           -
LGA    -       -      G     211           -
LGA    -       -      T     212           -
LGA    -       -      L     213           -
LGA    -       -      F     214           -
LGA    -       -      K     215           -
LGA    -       -      N     216           -
LGA    -       -      F     217           -
LGA    -       -      A     218           -
LGA    -       -      E     219           -
LGA    -       -      T     220           -
LGA    -       -      D     221           -
LGA    -       -      E     222           -
LGA    -       -      V     223           -
LGA    -       -      L     224           -
LGA    -       -      A     225           -
LGA    -       -      S     226           -
LGA    -       -      I     227           -
LGA    -       -      L     228           -
LGA    -       -      T     229           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   22  153    5.0     14    2.85    28.57      6.338     0.474

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.131280 * X  +   0.625220 * Y  +   0.769328 * Z  +  23.955801
  Y_new =  -0.186821 * X  +   0.746537 * Y  +  -0.638577 * Z  +  51.082397
  Z_new =  -0.973583 * X  +  -0.227559 * Y  +   0.018799 * Z  +  39.244297 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.488370    1.653222  [ DEG:   -85.2773     94.7227 ]
  Theta =   1.340430    1.801163  [ DEG:    76.8010    103.1990 ]
  Phi   =  -2.183333    0.958259  [ DEG:  -125.0958     54.9042 ]
 
# 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: T0330TS464_3_1-D1                             
REMARK     2: T0330_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0330TS464_3_1-D1.T0330_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   22  153   5.0   14   2.85   28.57   6.338
REMARK  ---------------------------------------------------------- 
MOLECULE T0330TS464_3_1-D1
REMARK PARENT number 1
PFRMAT TS
TARGET T0330
PARENT N/A
ATOM     67  N   ASP     9      70.215  41.636 -21.229  1.00  0.00
ATOM     68  CA  ASP     9      71.248  42.331 -21.931  1.00  0.00
ATOM     69  CB  ASP     9      70.744  43.614 -22.628  1.00  0.00
ATOM     70  CG  ASP     9      70.107  44.551 -21.606  1.00  0.00
ATOM     71  OD1 ASP     9      69.338  44.056 -20.739  1.00  0.00
ATOM     72  OD2 ASP     9      70.377  45.779 -21.687  1.00  0.00
ATOM     73  C   ASP     9      72.326  42.668 -20.953  1.00  0.00
ATOM     74  O   ASP     9      72.547  43.827 -20.605  1.00  0.00
ATOM     75  N   ILE    10      73.045  41.633 -20.483  1.00  0.00
ATOM     76  CA  ILE    10      74.106  41.872 -19.554  1.00  0.00
ATOM     77  CB  ILE    10      73.888  41.227 -18.218  1.00  0.00
ATOM     78  CG2 ILE    10      72.620  41.835 -17.596  1.00  0.00
ATOM     79  CG1 ILE    10      73.836  39.696 -18.364  1.00  0.00
ATOM     80  CD1 ILE    10      73.916  38.955 -17.030  1.00  0.00
ATOM     81  C   ILE    10      75.344  41.278 -20.134  1.00  0.00
ATOM     82  O   ILE    10      75.333  40.151 -20.626  1.00  0.00
ATOM     83  N   ASP    11      76.448  42.046 -20.110  1.00  0.00
ATOM     84  CA  ASP    11      77.684  41.540 -20.621  1.00  0.00
ATOM     85  CB  ASP    11      78.694  42.639 -20.995  1.00  0.00
ATOM     86  CG  ASP    11      78.164  43.373 -22.218  1.00  0.00
ATOM     87  OD1 ASP    11      77.303  42.792 -22.932  1.00  0.00
ATOM     88  OD2 ASP    11      78.609  44.528 -22.452  1.00  0.00
ATOM     89  C   ASP    11      78.300  40.716 -19.540  1.00  0.00
ATOM     90  O   ASP    11      77.888  40.782 -18.383  1.00  0.00
ATOM   1084  N   GLY   211      20.730  62.897  29.308  1.00  0.00
ATOM   1085  CA  GLY   211      21.704  62.506  30.279  1.00  0.00
ATOM   1086  C   GLY   211      22.919  63.335  30.045  1.00  0.00
ATOM   1087  O   GLY   211      22.896  64.294  29.275  1.00  0.00
ATOM   1088  N   THR   212      24.024  62.974  30.721  1.00  0.00
ATOM   1089  CA  THR   212      25.244  63.704  30.567  1.00  0.00
ATOM   1090  CB  THR   212      26.200  63.522  31.710  1.00  0.00
ATOM   1091  OG1 THR   212      26.590  62.161  31.811  1.00  0.00
ATOM   1092  CG2 THR   212      25.508  63.975  33.007  1.00  0.00
ATOM   1093  C   THR   212      25.909  63.186  29.339  1.00  0.00
ATOM   1094  O   THR   212      25.345  62.374  28.609  1.00  0.00
ATOM   1095  N   LEU   213      27.137  63.664  29.071  1.00  0.00
ATOM   1096  CA  LEU   213      27.832  63.223  27.903  1.00  0.00
ATOM   1097  CB  LEU   213      29.160  63.977  27.681  1.00  0.00
ATOM   1098  CG  LEU   213      29.857  63.715  26.328  1.00  0.00
ATOM   1099  CD1 LEU   213      30.410  62.290  26.223  1.00  0.00
ATOM   1100  CD2 LEU   213      28.936  64.086  25.155  1.00  0.00
ATOM   1101  C   LEU   213      28.101  61.771  28.128  1.00  0.00
ATOM   1102  O   LEU   213      28.331  61.341  29.256  1.00  0.00
ATOM   1103  N   PHE   214      28.055  60.968  27.049  1.00  0.00
ATOM   1104  CA  PHE   214      28.209  59.552  27.200  1.00  0.00
ATOM   1105  CB  PHE   214      28.167  58.780  25.871  1.00  0.00
ATOM   1106  CG  PHE   214      29.434  59.284  24.968  1.00  0.00
ATOM   1107  CD1 PHE   214      30.819  59.275  24.588  1.00  0.00
ATOM   1108  CD2 PHE   214      29.559  60.210  23.933  1.00  0.00
ATOM   1109  CE1 PHE   214      29.772  59.981  24.124  1.00  0.00
ATOM   1110  CE2 PHE   214      30.952  59.938  23.834  1.00  0.00
ATOM   1111  CZ  PHE   214      30.587  59.111  24.832  1.00  0.00
ATOM   1112  C   PHE   214      29.523  59.273  27.847  1.00  0.00
ATOM   1113  O   PHE   214      30.541  59.883  27.527  1.00  0.00
ATOM   1114  N   LYS   215      29.515  58.332  28.806  1.00  0.00
ATOM   1115  CA  LYS   215      30.717  57.969  29.490  1.00  0.00
ATOM   1116  CB  LYS   215      30.591  58.012  31.023  1.00  0.00
ATOM   1117  CG  LYS   215      30.482  59.438  31.565  1.00  0.00
ATOM   1118  CD  LYS   215      30.004  59.528  33.015  1.00  0.00
ATOM   1119  CE  LYS   215      28.481  59.493  33.156  1.00  0.00
ATOM   1120  NZ  LYS   215      28.101  59.585  34.583  1.00  0.00
ATOM   1121  C   LYS   215      31.039  56.575  29.079  1.00  0.00
ATOM   1122  O   LYS   215      30.234  55.904  28.435  1.00  0.00
ATOM   1123  N   ASN   216      32.250  56.107  29.429  1.00  0.00
ATOM   1124  CA  ASN   216      32.648  54.792  29.026  1.00  0.00
ATOM   1125  CB  ASN   216      34.094  54.438  29.416  1.00  0.00
ATOM   1126  CG  ASN   216      35.037  55.313  28.603  1.00  0.00
ATOM   1127  OD1 ASN   216      34.662  55.859  27.566  1.00  0.00
ATOM   1128  ND2 ASN   216      36.302  55.446  29.083  1.00  0.00
ATOM   1129  C   ASN   216      31.753  53.812  29.703  1.00  0.00
ATOM   1130  O   ASN   216      31.339  54.008  30.845  1.00  0.00
ATOM   1131  N   PHE   217      31.413  52.729  28.981  1.00  0.00
ATOM   1132  CA  PHE   217      30.591  51.697  29.534  1.00  0.00
ATOM   1133  CB  PHE   217      29.305  51.434  28.734  1.00  0.00
ATOM   1134  CG  PHE   217      28.419  50.349  29.578  1.00  0.00
ATOM   1135  CD1 PHE   217      27.476  49.985  30.598  1.00  0.00
ATOM   1136  CD2 PHE   217      28.299  48.962  29.520  1.00  0.00
ATOM   1137  CE1 PHE   217      28.163  49.241  29.711  1.00  0.00
ATOM   1138  CE2 PHE   217      27.356  48.978  30.586  1.00  0.00
ATOM   1139  CZ  PHE   217      27.637  50.288  30.452  1.00  0.00
ATOM   1140  C   PHE   217      31.421  50.462  29.473  1.00  0.00
ATOM   1141  O   PHE   217      32.344  50.371  28.665  1.00  0.00
ATOM   1142  N   ALA   218      31.137  49.476  30.343  1.00  0.00
ATOM   1143  CA  ALA   218      31.972  48.314  30.325  1.00  0.00
ATOM   1144  CB  ALA   218      31.550  47.261  31.362  1.00  0.00
ATOM   1145  C   ALA   218      31.862  47.684  28.975  1.00  0.00
ATOM   1146  O   ALA   218      32.875  47.408  28.337  1.00  0.00
ATOM   1147  N   GLU   219      30.619  47.479  28.495  1.00  0.00
ATOM   1148  CA  GLU   219      30.413  46.886  27.203  1.00  0.00
ATOM   1149  CB  GLU   219      31.313  45.673  26.907  1.00  0.00
ATOM   1150  CG  GLU   219      31.172  44.523  27.904  1.00  0.00
ATOM   1151  CD  GLU   219      32.125  43.423  27.457  1.00  0.00
ATOM   1152  OE1 GLU   219      32.048  43.016  26.274  1.00  0.00
ATOM   1153  OE2 GLU   219      32.954  42.980  28.306  1.00  0.00
ATOM   1154  C   GLU   219      28.994  46.435  27.135  1.00  0.00
ATOM   1155  O   GLU   219      28.216  46.637  28.065  1.00  0.00
ATOM   1156  N   THR   220      28.614  45.809  26.005  1.00  0.00
ATOM   1157  CA  THR   220      27.267  45.346  25.865  1.00  0.00
ATOM   1158  CB  THR   220      26.905  44.964  24.460  1.00  0.00
ATOM   1159  OG1 THR   220      25.517  44.675  24.369  1.00  0.00
ATOM   1160  CG2 THR   220      27.738  43.738  24.052  1.00  0.00
ATOM   1161  C   THR   220      27.126  44.137  26.728  1.00  0.00
ATOM   1162  O   THR   220      28.088  43.694  27.353  1.00  0.00
ATOM   1163  N   ASP   221      25.902  43.581  26.802  1.00  0.00
ATOM   1164  CA  ASP   221      25.686  42.457  27.663  1.00  0.00
ATOM   1165  CB  ASP   221      24.242  41.930  27.608  1.00  0.00
ATOM   1166  CG  ASP   221      24.074  40.880  28.699  1.00  0.00
ATOM   1167  OD1 ASP   221      25.090  40.545  29.366  1.00  0.00
ATOM   1168  OD2 ASP   221      22.923  40.403  28.884  1.00  0.00
ATOM   1169  C   ASP   221      26.586  41.358  27.213  1.00  0.00
ATOM   1170  O   ASP   221      27.277  40.744  28.025  1.00  0.00
ATOM   1171  N   GLU   222      26.622  41.087  25.896  1.00  0.00
ATOM   1172  CA  GLU   222      27.497  40.051  25.442  1.00  0.00
ATOM   1173  CB  GLU   222      27.265  39.631  23.979  1.00  0.00
ATOM   1174  CG  GLU   222      27.368  40.783  22.977  1.00  0.00
ATOM   1175  CD  GLU   222      26.053  41.549  23.009  1.00  0.00
ATOM   1176  OE1 GLU   222      25.127  41.104  23.740  1.00  0.00
ATOM   1177  OE2 GLU   222      25.953  42.587  22.302  1.00  0.00
ATOM   1178  C   GLU   222      28.884  40.577  25.574  1.00  0.00
ATOM   1179  O   GLU   222      29.139  41.756  25.332  1.00  0.00
ATOM   1180  N   VAL   223      29.827  39.713  25.988  1.00  0.00
ATOM   1181  CA  VAL   223      31.164  40.188  26.161  1.00  0.00
ATOM   1182  CB  VAL   223      31.632  40.130  27.585  1.00  0.00
ATOM   1183  CG1 VAL   223      30.718  41.026  28.439  1.00  0.00
ATOM   1184  CG2 VAL   223      31.652  38.659  28.031  1.00  0.00
ATOM   1185  C   VAL   223      32.068  39.297  25.379  1.00  0.00
ATOM   1186  O   VAL   223      31.836  38.094  25.275  1.00  0.00
ATOM   1187  N   LEU   224      33.120  39.886  24.781  1.00  0.00
ATOM   1188  CA  LEU   224      34.073  39.090  24.071  1.00  0.00
ATOM   1189  CB  LEU   224      34.396  39.621  22.663  1.00  0.00
ATOM   1190  CG  LEU   224      33.194  39.596  21.701  1.00  0.00
ATOM   1191  CD1 LEU   224      32.076  40.537  22.179  1.00  0.00
ATOM   1192  CD2 LEU   224      33.631  39.875  20.254  1.00  0.00
ATOM   1193  C   LEU   224      35.331  39.164  24.866  1.00  0.00
ATOM   1194  O   LEU   224      35.842  40.251  25.133  1.00  0.00
ATOM   1195  N   ALA   225      35.858  38.002  25.290  1.00  0.00
ATOM   1196  CA  ALA   225      37.062  38.033  26.060  1.00  0.00
ATOM   1197  CB  ALA   225      36.822  38.246  27.567  1.00  0.00
ATOM   1198  C   ALA   225      37.736  36.715  25.906  1.00  0.00
ATOM   1199  O   ALA   225      37.124  35.733  25.491  1.00  0.00
ATOM   1200  N   SER   226      39.044  36.677  26.223  1.00  0.00
ATOM   1201  CA  SER   226      39.774  35.448  26.148  1.00  0.00
ATOM   1202  CB  SER   226      40.998  35.513  25.221  1.00  0.00
ATOM   1203  OG  SER   226      41.663  34.259  25.202  1.00  0.00
ATOM   1204  C   SER   226      40.277  35.188  27.528  1.00  0.00
ATOM   1205  O   SER   226      40.579  36.118  28.275  1.00  0.00
ATOM   1206  N   ILE   227      40.364  33.903  27.915  1.00  0.00
ATOM   1207  CA  ILE   227      40.833  33.612  29.235  1.00  0.00
ATOM   1208  CB  ILE   227      39.902  32.734  30.020  1.00  0.00
ATOM   1209  CG2 ILE   227      40.600  32.366  31.340  1.00  0.00
ATOM   1210  CG1 ILE   227      38.543  33.430  30.215  1.00  0.00
ATOM   1211  CD1 ILE   227      38.638  34.749  30.981  1.00  0.00
ATOM   1212  C   ILE   227      42.121  32.873  29.104  1.00  0.00
ATOM   1213  O   ILE   227      42.194  31.838  28.443  1.00  0.00
ATOM   1214  N   LEU   228      43.185  33.414  29.723  1.00  0.00
ATOM   1215  CA  LEU   228      44.455  32.757  29.688  1.00  0.00
ATOM   1216  CB  LEU   228      45.581  33.614  29.086  1.00  0.00
ATOM   1217  CG  LEU   228      45.371  33.953  27.598  1.00  0.00
ATOM   1218  CD1 LEU   228      44.117  34.818  27.393  1.00  0.00
ATOM   1219  CD2 LEU   228      46.635  34.580  26.986  1.00  0.00
ATOM   1220  C   LEU   228      44.825  32.479  31.104  1.00  0.00
ATOM   1221  O   LEU   228      44.573  33.293  31.992  1.00  0.00
ATOM   1222  N   THR   229      45.419  31.299  31.361  1.00  0.00
ATOM   1223  CA  THR   229      45.814  31.001  32.703  1.00  0.00
ATOM   1224  CB  THR   229      45.300  29.680  33.202  1.00  0.00
ATOM   1225  OG1 THR   229      45.668  29.491  34.561  1.00  0.00
ATOM   1226  CG2 THR   229      45.862  28.548  32.327  1.00  0.00
ATOM   1227  C   THR   229      47.307  30.969  32.726  1.00  0.00
ATOM   1228  O   THR   229      47.955  30.278  31.943  1.00  0.00
TER
END
