
#######################################################
#                                                     #
#                        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   10 (   79),  selected   10 , name T0318TS021_3_1-D2
# Molecule2: number of CA atoms  335 ( 2465),  selected  335 , name T0318_D2.pdb
# PARAMETERS: T0318TS021_3_1-D2.T0318_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T     156           -
LGA    -       -      N     157           -
LGA    -       -      E     158           -
LGA    -       -      D     159           -
LGA    -       -      A     160           -
LGA    -       -      V     161           -
LGA    -       -      F     162           -
LGA    -       -      L     163           -
LGA    -       -      T     164           -
LGA    -       -      D     165           -
LGA    -       -      L     166           -
LGA    -       -      S     167           -
LGA    -       -      E     168           -
LGA    -       -      S     169           -
LGA    -       -      V     170           -
LGA    -       -      R     171           -
LGA    -       -      E     172           -
LGA    -       -      T     173           -
LGA    -       -      A     174           -
LGA    -       -      R     175           -
LGA    -       -      L     176           -
LGA    -       -      I     177           -
LGA    -       -      D     178           -
LGA    -       -      T     179           -
LGA    -       -      P     180           -
LGA    -       -      A     181           -
LGA    -       -      N     182           -
LGA    -       -      I     183           -
LGA    -       -      L     184           -
LGA    -       -      T     185           -
LGA    -       -      T     186           -
LGA    -       -      D     187           -
LGA    -       -      A     188           -
LGA    -       -      L     189           -
LGA    -       -      V     190           -
LGA    -       -      D     191           -
LGA    -       -      E     192           -
LGA    -       -      A     193           -
LGA    -       -      V     194           -
LGA    -       -      K     195           -
LGA    -       -      V     196           -
LGA    -       -      G     197           -
LGA    -       -      N     198           -
LGA    -       -      A     199           -
LGA    -       -      T     200           -
LGA    -       -      G     201           -
LGA    -       -      S     202           -
LGA    -       -      K     203           -
LGA    -       -      I     204           -
LGA    -       -      T     205           -
LGA    -       -      V     206           -
LGA    -       -      I     207           -
LGA    -       -      R     208           -
LGA    -       -      G     209           -
LGA    -       -      E     210           -
LGA    -       -      E     211           -
LGA    -       -      L     212           -
LGA    -       -      L     213           -
LGA    -       -      K     214           -
LGA    -       -      A     215           -
LGA    -       -      G     216           -
LGA    -       -      F     217           -
LGA    -       -      G     218           -
LGA    -       -      G     219           -
LGA    -       -      I     220           -
LGA    -       -      Y     221           -
LGA    -       -      H     222           -
LGA    -       -      V     223           -
LGA    -       -      G     224           -
LGA    -       -      K     225           -
LGA    -       -      A     226           -
LGA    -       -      G     227           -
LGA    -       -      P     228           -
LGA    -       -      T     229           -
LGA    -       -      P     230           -
LGA    -       -      P     231           -
LGA    -       -      A     232           -
LGA    -       -      F     233           -
LGA    -       -      V     234           -
LGA    -       -      V     235           -
LGA    -       -      L     236           -
LGA    -       -      S     237           -
LGA    -       -      H     238           -
LGA    -       -      E     239           -
LGA    -       -      V     240           -
LGA    -       -      P     241           -
LGA    -       -      G     242           -
LGA    -       -      S     243           -
LGA    -       -      T     244           -
LGA    -       -      E     245           -
LGA    -       -      H     246           -
LGA    -       -      I     247           -
LGA    -       -      A     248           -
LGA    -       -      L     249           -
LGA    -       -      V     250           -
LGA    -       -      G     251           -
LGA    -       -      K     252           -
LGA    -       -      G     253           -
LGA    -       -      V     254           -
LGA    -       -      V     255           -
LGA    -       -      Y     256           -
LGA    -       -      D     257           -
LGA    -       -      T     258           -
LGA    -       -      G     259           -
LGA    -       -      G     260           -
LGA    -       -      L     261           -
LGA    -       -      Q     262           -
LGA    -       -      I     263           -
LGA    -       -      K     264           -
LGA    -       -      T     265           -
LGA    -       -      K     266           -
LGA    -       -      T     267           -
LGA    -       -      G     268           -
LGA    -       -      M     269           -
LGA    -       -      P     270           -
LGA    -       -      N     271           -
LGA    -       -      M     272           -
LGA    -       -      K     273           -
LGA    -       -      R     274           -
LGA    -       -      D     275           -
LGA    -       -      M     276           -
LGA    -       -      G     277           -
LGA    -       -      G     278           -
LGA    -       -      A     279           -
LGA    -       -      A     280           -
LGA    -       -      G     281           -
LGA    -       -      M     282           -
LGA    -       -      L     283           -
LGA    -       -      E     284           -
LGA    -       -      A     285           -
LGA    -       -      Y     286           -
LGA    -       -      S     287           -
LGA    -       -      A     288           -
LGA    -       -      L     289           -
LGA    -       -      V     290           -
LGA    -       -      K     291           -
LGA    -       -      H     292           -
LGA    -       -      G     293           -
LGA    -       -      F     294           -
LGA    -       -      S     295           -
LGA    -       -      Q     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      H     299           -
LGA    -       -      A     300           -
LGA    -       -      C     301           -
LGA    -       -      L     302           -
LGA    -       -      C     303           -
LGA    -       -      I     304           -
LGA    -       -      V     305           -
LGA    -       -      E     306           -
LGA    -       -      N     307           -
LGA    -       -      N     308           -
LGA    -       -      V     309           -
LGA    -       -      S     310           -
LGA    -       -      P     311           -
LGA    -       -      I     312           -
LGA    -       -      A     313           -
LGA    -       -      N     314           -
LGA    -       -      K     315           -
LGA    -       -      P     316           -
LGA    -       -      D     317           -
LGA    -       -      D     318           -
LGA    -       -      I     319           -
LGA    -       -      I     320           -
LGA    -       -      K     321           -
LGA    -       -      M     322           -
LGA    -       -      L     323           -
LGA    -       -      S     324           -
LGA    -       -      G     325           -
LGA    -       -      K     326           -
LGA    -       -      T     327           -
LGA    -       -      V     328           -
LGA    -       -      E     329           -
LGA    -       -      I     330           -
LGA    -       -      N     331           -
LGA    -       -      N     332           -
LGA    -       -      T     333           -
LGA    -       -      D     334           -
LGA    -       -      A     335           -
LGA    -       -      E     336           -
LGA    -       -      G     337           -
LGA    -       -      R     338           -
LGA    T     156      L     339          2.829
LGA    N     157      I     340          0.686
LGA    E     158      L     341          1.091
LGA    D     159      A     342          0.860
LGA    A     160      D     343          0.890
LGA    V     161      G     344          0.696
LGA    F     162      V     345          0.553
LGA    L     163      F     346          0.511
LGA    T     164      Y     347          0.593
LGA    D     165      A     348          2.161
LGA    -       -      K     349           -
LGA    -       -      E     350           -
LGA    -       -      T     351           -
LGA    -       -      L     352           -
LGA    -       -      K     353           -
LGA    -       -      A     354           -
LGA    -       -      T     355           -
LGA    -       -      T     356           -
LGA    -       -      I     357           -
LGA    -       -      F     358           -
LGA    -       -      D     359           -
LGA    -       -      M     360           -
LGA    -       -      A     361           -
LGA    -       -      T     362           -
LGA    -       -      L     363           -
LGA    -       -      T     364           -
LGA    -       -      G     365           -
LGA    -       -      A     366           -
LGA    -       -      Q     367           -
LGA    -       -      A     368           -
LGA    -       -      W     369           -
LGA    -       -      L     370           -
LGA    -       -      S     371           -
LGA    -       -      G     372           -
LGA    -       -      R     373           -
LGA    -       -      L     374           -
LGA    -       -      H     375           -
LGA    -       -      G     376           -
LGA    -       -      A     377           -
LGA    -       -      A     378           -
LGA    -       -      M     379           -
LGA    -       -      T     380           -
LGA    -       -      N     381           -
LGA    -       -      D     382           -
LGA    -       -      E     383           -
LGA    -       -      Q     384           -
LGA    -       -      L     385           -
LGA    -       -      E     386           -
LGA    -       -      N     387           -
LGA    -       -      E     388           -
LGA    -       -      I     389           -
LGA    -       -      I     390           -
LGA    -       -      K     391           -
LGA    -       -      A     392           -
LGA    -       -      G     393           -
LGA    -       -      K     394           -
LGA    -       -      A     395           -
LGA    -       -      S     396           -
LGA    -       -      G     397           -
LGA    -       -      D     398           -
LGA    -       -      L     399           -
LGA    -       -      V     400           -
LGA    -       -      A     401           -
LGA    -       -      P     402           -
LGA    -       -      M     403           -
LGA    -       -      L     404           -
LGA    -       -      F     405           -
LGA    -       -      A     406           -
LGA    -       -      P     407           -
LGA    -       -      D     408           -
LGA    -       -      L     409           -
LGA    -       -      F     410           -
LGA    -       -      F     411           -
LGA    -       -      G     412           -
LGA    -       -      D     413           -
LGA    -       -      L     414           -
LGA    -       -      K     415           -
LGA    -       -      S     416           -
LGA    -       -      S     417           -
LGA    -       -      I     418           -
LGA    -       -      A     419           -
LGA    -       -      D     420           -
LGA    -       -      M     421           -
LGA    -       -      K     422           -
LGA    -       -      N     423           -
LGA    -       -      S     424           -
LGA    -       -      N     425           -
LGA    -       -      L     426           -
LGA    -       -      G     427           -
LGA    -       -      K     428           -
LGA    -       -      M     429           -
LGA    -       -      D     430           -
LGA    -       -      G     431           -
LGA    -       -      P     432           -
LGA    -       -      P     433           -
LGA    -       -      S     434           -
LGA    -       -      A     435           -
LGA    -       -      V     436           -
LGA    -       -      A     437           -
LGA    -       -      G     438           -
LGA    -       -      L     439           -
LGA    -       -      L     440           -
LGA    -       -      I     441           -
LGA    -       -      G     442           -
LGA    -       -      A     443           -
LGA    -       -      H     444           -
LGA    -       -      I     445           -
LGA    -       -      G     446           -
LGA    -       -      F     447           -
LGA    -       -      G     448           -
LGA    -       -      E     449           -
LGA    -       -      G     450           -
LGA    -       -      L     451           -
LGA    -       -      R     452           -
LGA    -       -      W     453           -
LGA    -       -      L     454           -
LGA    -       -      H     455           -
LGA    -       -      L     456           -
LGA    -       -      D     457           -
LGA    -       -      I     458           -
LGA    -       -      A     459           -
LGA    -       -      A     460           -
LGA    -       -      P     461           -
LGA    -       -      A     462           -
LGA    -       -      E     463           -
LGA    -       -      V     464           -
LGA    -       -      G     465           -
LGA    -       -      D     466           -
LGA    -       -      R     467           -
LGA    -       -      G     468           -
LGA    -       -      T     469           -
LGA    -       -      G     470           -
LGA    -       -      Y     471           -
LGA    -       -      G     472           -
LGA    -       -      P     473           -
LGA    -       -      A     474           -
LGA    -       -      L     475           -
LGA    -       -      F     476           -
LGA    -       -      S     477           -
LGA    -       -      T     478           -
LGA    -       -      L     479           -
LGA    -       -      L     480           -
LGA    -       -      G     481           -
LGA    -       -      K     482           -
LGA    -       -      Y     483           -
LGA    -       -      T     484           -
LGA    -       -      S     485           -
LGA    -       -      V     486           -
LGA    -       -      P     487           -
LGA    -       -      M     488           -
LGA    -       -      L     489           -
LGA    -       -      K     490           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   10  335    5.0     10    1.31     0.00      2.853     0.707

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.478828 * X  +  -0.509028 * Y  +  -0.715272 * Z  +  32.254856
  Y_new =  -0.244933 * X  +  -0.704935 * Y  +   0.665639 * Z  +  51.356617
  Z_new =  -0.843049 * X  +   0.493921 * Y  +   0.212865 * Z  +  -0.206846 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.163880   -1.977712  [ DEG:    66.6854   -113.3146 ]
  Theta =   1.002927    2.138666  [ DEG:    57.4635    122.5365 ]
  Phi   =  -2.668766    0.472826  [ DEG:  -152.9090     27.0910 ]
 
# 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: T0318TS021_3_1-D2                             
REMARK     2: T0318_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0318TS021_3_1-D2.T0318_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   10  335   5.0   10   1.31    0.00   2.853
REMARK  ---------------------------------------------------------- 
MOLECULE T0318TS021_3_1-D2
REMARK PARENT number 1
PFRMAT TS
TARGET T0318
PARENT N/A
ATOM   1209  N   THR   156      -7.293  56.359   8.261  1.00332.23       1SG1210
ATOM   1210  CA  THR   156      -6.953  55.566   9.405  1.00332.23       1SG1211
ATOM   1211  CB  THR   156      -7.738  54.298   9.487  1.00332.23       1SG1212
ATOM   1212  OG1 THR   156      -7.193  53.461  10.488  1.00332.23       1SG1213
ATOM   1213  CG2 THR   156      -7.744  53.610   8.116  1.00332.23       1SG1214
ATOM   1214  C   THR   156      -5.509  55.216   9.287  1.00332.23       1SG1215
ATOM   1215  O   THR   156      -5.127  54.453   8.405  1.00332.23       1SG1216
ATOM   1216  N   ASN   157      -4.644  55.768  10.153  1.00236.00       1SG1217
ATOM   1217  CA  ASN   157      -3.274  55.400   9.975  1.00236.00       1SG1218
ATOM   1218  CB  ASN   157      -2.328  56.320  10.773  1.00236.00       1SG1219
ATOM   1219  CG  ASN   157      -2.782  56.365  12.229  1.00236.00       1SG1220
ATOM   1220  OD1 ASN   157      -2.266  55.650  13.085  1.00236.00       1SG1221
ATOM   1221  ND2 ASN   157      -3.786  57.235  12.518  1.00236.00       1SG1222
ATOM   1222  C   ASN   157      -3.015  53.962  10.338  1.00236.00       1SG1223
ATOM   1223  O   ASN   157      -2.776  53.124   9.470  1.00236.00       1SG1224
ATOM   1224  N   GLU   158      -3.098  53.635  11.643  1.00 94.60       1SG1225
ATOM   1225  CA  GLU   158      -2.793  52.329  12.153  1.00 94.60       1SG1226
ATOM   1226  CB  GLU   158      -2.576  52.318  13.674  1.00 94.60       1SG1227
ATOM   1227  CG  GLU   158      -1.321  53.080  14.104  1.00 94.60       1SG1228
ATOM   1228  CD  GLU   158      -1.211  53.002  15.619  1.00 94.60       1SG1229
ATOM   1229  OE1 GLU   158      -2.093  52.357  16.247  1.00 94.60       1SG1230
ATOM   1230  OE2 GLU   158      -0.238  53.585  16.170  1.00 94.60       1SG1231
ATOM   1231  C   GLU   158      -3.891  51.377  11.858  1.00 94.60       1SG1232
ATOM   1232  O   GLU   158      -3.658  50.242  11.445  1.00 94.60       1SG1233
ATOM   1233  N   ASP   159      -5.137  51.832  12.051  1.00139.57       1SG1234
ATOM   1234  CA  ASP   159      -6.220  50.918  11.895  1.00139.57       1SG1235
ATOM   1235  CB  ASP   159      -7.587  51.455  12.352  1.00139.57       1SG1236
ATOM   1236  CG  ASP   159      -7.566  51.509  13.872  1.00139.57       1SG1237
ATOM   1237  OD1 ASP   159      -6.553  51.049  14.462  1.00139.57       1SG1238
ATOM   1238  OD2 ASP   159      -8.565  52.000  14.464  1.00139.57       1SG1239
ATOM   1239  C   ASP   159      -6.285  50.481  10.471  1.00139.57       1SG1240
ATOM   1240  O   ASP   159      -6.648  49.342  10.196  1.00139.57       1SG1241
ATOM   1241  N   ALA   160      -5.898  51.348   9.519  1.00115.69       1SG1242
ATOM   1242  CA  ALA   160      -6.043  50.985   8.137  1.00115.69       1SG1243
ATOM   1243  CB  ALA   160      -5.454  52.028   7.173  1.00115.69       1SG1244
ATOM   1244  C   ALA   160      -5.278  49.734   7.854  1.00115.69       1SG1245
ATOM   1245  O   ALA   160      -5.797  48.822   7.211  1.00115.69       1SG1246
ATOM   1246  N   VAL   161      -4.039  49.639   8.365  1.00138.64       1SG1247
ATOM   1247  CA  VAL   161      -3.197  48.537   7.999  1.00138.64       1SG1248
ATOM   1248  CB  VAL   161      -1.823  48.615   8.605  1.00138.64       1SG1249
ATOM   1249  CG1 VAL   161      -1.934  48.555  10.137  1.00138.64       1SG1250
ATOM   1250  CG2 VAL   161      -0.969  47.488   8.003  1.00138.64       1SG1251
ATOM   1251  C   VAL   161      -3.807  47.228   8.394  1.00138.64       1SG1252
ATOM   1252  O   VAL   161      -3.867  46.304   7.583  1.00138.64       1SG1253
ATOM   1253  N   PHE   162      -4.307  47.111   9.637  1.00 75.09       1SG1254
ATOM   1254  CA  PHE   162      -4.822  45.845  10.072  1.00 75.09       1SG1255
ATOM   1255  CB  PHE   162      -5.332  45.867  11.522  1.00 75.09       1SG1256
ATOM   1256  CG  PHE   162      -4.168  46.132  12.413  1.00 75.09       1SG1257
ATOM   1257  CD1 PHE   162      -3.789  47.423  12.695  1.00 75.09       1SG1258
ATOM   1258  CD2 PHE   162      -3.455  45.092  12.965  1.00 75.09       1SG1259
ATOM   1259  CE1 PHE   162      -2.717  47.675  13.518  1.00 75.09       1SG1260
ATOM   1260  CE2 PHE   162      -2.382  45.338  13.788  1.00 75.09       1SG1261
ATOM   1261  CZ  PHE   162      -2.010  46.632  14.066  1.00 75.09       1SG1262
ATOM   1262  C   PHE   162      -5.983  45.489   9.209  1.00 75.09       1SG1263
ATOM   1263  O   PHE   162      -6.103  44.363   8.727  1.00 75.09       1SG1264
ATOM   1264  N   LEU   163      -6.861  46.475   8.982  1.00159.10       1SG1265
ATOM   1265  CA  LEU   163      -8.059  46.286   8.226  1.00159.10       1SG1266
ATOM   1266  CB  LEU   163      -8.909  47.566   8.250  1.00159.10       1SG1267
ATOM   1267  CG  LEU   163      -9.619  47.779   9.611  1.00159.10       1SG1268
ATOM   1268  CD1 LEU   163      -8.678  47.626  10.814  1.00159.10       1SG1269
ATOM   1269  CD2 LEU   163     -10.379  49.112   9.627  1.00159.10       1SG1270
ATOM   1270  C   LEU   163      -7.695  45.891   6.831  1.00159.10       1SG1271
ATOM   1271  O   LEU   163      -8.311  44.994   6.257  1.00159.10       1SG1272
ATOM   1272  N   THR   164      -6.664  46.524   6.245  1.00241.62       1SG1273
ATOM   1273  CA  THR   164      -6.298  46.137   4.916  1.00241.62       1SG1274
ATOM   1274  CB  THR   164      -5.380  47.106   4.230  1.00241.62       1SG1275
ATOM   1275  OG1 THR   164      -5.247  46.765   2.859  1.00241.62       1SG1276
ATOM   1276  CG2 THR   164      -4.007  47.066   4.921  1.00241.62       1SG1277
ATOM   1277  C   THR   164      -5.586  44.832   5.030  1.00241.62       1SG1278
ATOM   1278  O   THR   164      -5.246  44.391   6.127  1.00241.62       1SG1279
ATOM   1279  N   ASP   165      -5.367  44.154   3.892  1.00 98.94       1SG1280
ATOM   1280  CA  ASP   165      -4.699  42.889   3.943  1.00 98.94       1SG1281
ATOM   1281  CB  ASP   165      -4.718  42.136   2.601  1.00 98.94       1SG1282
ATOM   1282  CG  ASP   165      -4.138  40.744   2.816  1.00 98.94       1SG1283
ATOM   1283  OD1 ASP   165      -3.643  40.466   3.942  1.00 98.94       1SG1284
ATOM   1284  OD2 ASP   165      -4.181  39.936   1.849  1.00 98.94       1SG1285
ATOM   1285  C   ASP   165      -3.244  43.156   4.304  1.00 98.94       1SG1286
ATOM   1286  O   ASP   165      -2.789  42.607   5.343  1.00 98.94       1SG1287
ATOM   1287  OXT ASP   165      -2.570  43.902   3.546  1.00 98.94       1SG1288
TER
END
