
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0289TS599_5
# Molecule2: number of CA atoms  307 ( 2431),  selected  307 , name T0289
# PARAMETERS: T0289TS599_5.T0289  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      C       4           -
LGA    -       -      V       5           -
LGA    -       -      A       6           -
LGA    -       -      E       7           -
LGA    -       -      E       8           -
LGA    -       -      P       9           -
LGA    -       -      I      10           -
LGA    -       -      K      11           -
LGA    -       -      K      12           -
LGA    -       -      I      13           -
LGA    -       -      A      14           -
LGA    -       -      I      15           -
LGA    -       -      F      16           -
LGA    -       -      G      17           -
LGA    -       -      G      18           -
LGA    -       -      T      19           -
LGA    -       -      H      20           -
LGA    -       -      G      21           -
LGA    -       -      N      22           -
LGA    -       -      E      23           -
LGA    -       -      L      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      V      27           -
LGA    -       -      F      28           -
LGA    -       -      L      29           -
LGA    -       -      V      30           -
LGA    -       -      T      31           -
LGA    -       -      H      32           -
LGA    -       -      W      33           -
LGA    -       -      L      34           -
LGA    -       -      K      35           -
LGA    -       -      N      36           -
LGA    -       -      G      37           -
LGA    -       -      A      38           -
LGA    -       -      E      39           -
LGA    -       -      V      40           -
LGA    -       -      H      41           -
LGA    -       -      R      42           -
LGA    -       -      A      43           -
LGA    -       -      G      44           -
LGA    -       -      L      45           -
LGA    -       -      E      46           -
LGA    -       -      V      47           -
LGA    -       -      K      48           -
LGA    -       -      P      49           -
LGA    -       -      F      50           -
LGA    -       -      I      51           -
LGA    -       -      T      52           -
LGA    -       -      N      53           -
LGA    -       -      P      54           -
LGA    -       -      R      55           -
LGA    -       -      A      56           -
LGA    -       -      V      57           -
LGA    -       -      E      58           -
LGA    -       -      K      59           -
LGA    -       -      C      60           -
LGA    -       -      T      61           -
LGA    -       -      R      62           -
LGA    -       -      Y      63           -
LGA    -       -      I      64           -
LGA    -       -      D      65           -
LGA    -       -      C      66           -
LGA    -       -      D      67           -
LGA    -       -      L      68           -
LGA    -       -      N      69           -
LGA    -       -      R      70           -
LGA    -       -      V      71           -
LGA    -       -      F      72           -
LGA    -       -      D      73           -
LGA    -       -      L      74           -
LGA    -       -      E      75           -
LGA    -       -      N      76           -
LGA    -       -      L      77           -
LGA    -       -      S      78           -
LGA    -       -      K      79           -
LGA    -       -      E      80           -
LGA    -       -      M      81           -
LGA    -       -      S      82           -
LGA    -       -      E      83           -
LGA    -       -      D      84           -
LGA    -       -      L      85           -
LGA    -       -      P      86           -
LGA    -       -      Y      87           -
LGA    -       -      E      88           -
LGA    -       -      V      89           -
LGA    -       -      R      90           -
LGA    -       -      R      91           -
LGA    -       -      A      92           -
LGA    -       -      Q      93           -
LGA    -       -      E      94           -
LGA    -       -      I      95           -
LGA    -       -      N      96           -
LGA    -       -      H      97           -
LGA    -       -      L      98           -
LGA    -       -      F      99           -
LGA    -       -      G     100           -
LGA    -       -      P     101           -
LGA    -       -      K     102           -
LGA    -       -      N     103           -
LGA    -       -      S     104           -
LGA    -       -      D     105           -
LGA    -       -      D     106           -
LGA    -       -      A     107           -
LGA    -       -      Y     108           -
LGA    -       -      D     109           -
LGA    -       -      V     110           -
LGA    -       -      V     111           -
LGA    -       -      F     112           -
LGA    G     211      D     113          2.230
LGA    K     212      L     114          2.075
LGA    E     213      H     115          2.789
LGA    F     214      N     116          2.648
LGA    P     215      T     117          3.931
LGA    P     216      -       -           -
LGA    C     217      -       -           -
LGA    A     218      T     118          0.917
LGA    I     219      S     119          1.515
LGA    D     220      N     120           #
LGA    V     221      M     121           -
LGA    -       -      G     122           -
LGA    -       -      C     123           -
LGA    -       -      T     124           -
LGA    -       -      L     125           -
LGA    -       -      I     126           -
LGA    -       -      L     127           -
LGA    -       -      E     128           -
LGA    -       -      D     129           -
LGA    -       -      S     130           -
LGA    -       -      R     131           -
LGA    -       -      N     132           -
LGA    -       -      D     133           -
LGA    -       -      F     134           -
LGA    -       -      L     135           -
LGA    -       -      I     136           -
LGA    -       -      Q     137           -
LGA    -       -      M     138           -
LGA    -       -      F     139           -
LGA    -       -      H     140           -
LGA    -       -      Y     141           -
LGA    -       -      I     142           -
LGA    -       -      K     143           -
LGA    -       -      T     144           -
LGA    -       -      C     145           -
LGA    -       -      M     146           -
LGA    -       -      A     147           -
LGA    -       -      P     148           -
LGA    -       -      L     149           -
LGA    -       -      P     150           -
LGA    -       -      C     151           -
LGA    -       -      S     152           -
LGA    -       -      V     153           -
LGA    -       -      Y     154           -
LGA    -       -      L     155           -
LGA    -       -      I     156           -
LGA    -       -      E     157           -
LGA    -       -      H     158           -
LGA    -       -      P     159           -
LGA    -       -      S     160           -
LGA    -       -      L     161           -
LGA    -       -      K     162           -
LGA    -       -      Y     163           -
LGA    -       -      A     164           -
LGA    -       -      T     165           -
LGA    -       -      T     166           -
LGA    -       -      R     167           -
LGA    -       -      S     168           -
LGA    -       -      I     169           -
LGA    -       -      A     170           -
LGA    -       -      K     171           -
LGA    -       -      Y     172           -
LGA    -       -      P     173           -
LGA    -       -      V     174           -
LGA    -       -      G     175           -
LGA    -       -      I     176           -
LGA    -       -      E     177           -
LGA    -       -      V     178           -
LGA    -       -      G     179           -
LGA    -       -      P     180           -
LGA    -       -      Q     181           -
LGA    -       -      P     182           -
LGA    -       -      H     183           -
LGA    -       -      G     184           -
LGA    -       -      V     185           -
LGA    -       -      L     186           -
LGA    -       -      R     187           -
LGA    -       -      A     188           -
LGA    -       -      D     189           -
LGA    -       -      I     190           -
LGA    -       -      L     191           -
LGA    -       -      D     192           -
LGA    -       -      Q     193           -
LGA    -       -      M     194           -
LGA    -       -      R     195           -
LGA    -       -      R     196           -
LGA    -       -      M     197           -
LGA    -       -      L     198           -
LGA    -       -      K     199           -
LGA    -       -      H     200           -
LGA    -       -      A     201           -
LGA    -       -      L     202           -
LGA    -       -      D     203           -
LGA    -       -      F     204           -
LGA    -       -      I     205           -
LGA    -       -      Q     206           -
LGA    -       -      R     207           -
LGA    -       -      F     208           -
LGA    -       -      N     209           -
LGA    -       -      E     210           -
LGA    -       -      G     211           -
LGA    -       -      K     212           -
LGA    -       -      E     213           -
LGA    -       -      F     214           -
LGA    -       -      P     215           -
LGA    -       -      P     216           -
LGA    -       -      C     217           -
LGA    -       -      A     218           -
LGA    -       -      I     219           -
LGA    -       -      D     220           -
LGA    -       -      V     221           -
LGA    -       -      Y     222           -
LGA    -       -      K     223           -
LGA    -       -      I     224           -
LGA    -       -      M     225           -
LGA    Y     222      E     226           #
LGA    K     223      K     227          5.167
LGA    I     224      -       -           -
LGA    M     225      -       -           -
LGA    E     226      V     228          1.135
LGA    K     227      D     229          4.957
LGA    V     228      Y     230          4.321
LGA    D     229      P     231          2.313
LGA    Y     230      R     232          3.488
LGA    P     231      N     233          4.613
LGA    -       -      E     234           -
LGA    -       -      S     235           -
LGA    -       -      G     236           -
LGA    -       -      D     237           -
LGA    R     232      V     238          2.747
LGA    N     233      A     239           -
LGA    E     234      -       -           -
LGA    S     235      -       -           -
LGA    G     236      -       -           -
LGA    D     237      -       -           -
LGA    V     238      A     240           #
LGA    A     239      V     241          3.566
LGA    A     240      I     242          0.864
LGA    V     241      H     243          1.836
LGA    I     242      P     244          3.150
LGA    H     243      N     245          3.130
LGA    P     244      L     246           -
LGA    N     245      Q     247           -
LGA    L     246      D     248           -
LGA    Q     247      -       -           -
LGA    D     248      -       -           -
LGA    Q     249      -       -           -
LGA    D     250      Q     249           #
LGA    W     251      D     250          4.177
LGA    -       -      W     251           -
LGA    K     252      K     252          3.363
LGA    P     253      P     253          2.020
LGA    L     254      L     254          1.174
LGA    H     255      H     255          1.123
LGA    P     256      P     256          1.721
LGA    G     257      G     257          1.237
LGA    D     258      D     258          0.499
LGA    P     259      P     259          1.292
LGA    V     260      V     260          1.879
LGA    F     261      F     261          2.317
LGA    V     262      V     262          3.282
LGA    S     263      -       -           -
LGA    L     264      -       -           -
LGA    D     265      -       -           -
LGA    G     266      -       -           -
LGA    K     267      -       -           -
LGA    V     268      S     263          1.084
LGA    I     269      L     264           -
LGA    -       -      D     265           -
LGA    -       -      G     266           -
LGA    -       -      K     267           -
LGA    P     270      V     268          2.364
LGA    L     271      I     269          1.919
LGA    G     272      P     270          1.539
LGA    -       -      L     271           -
LGA    G     273      G     272          1.085
LGA    D     274      G     273          3.235
LGA    C     275      D     274          3.537
LGA    T     276      C     275          3.067
LGA    -       -      T     276           -
LGA    V     277      V     277          3.115
LGA    Y     278      Y     278          3.849
LGA    P     279      P     279          2.090
LGA    V     280      V     280          1.659
LGA    F     281      F     281          3.271
LGA    V     282      -       -           -
LGA    N     283      -       -           -
LGA    E     284      -       -           -
LGA    A     285      -       -           -
LGA    A     286      -       -           -
LGA    Y     287      -       -           -
LGA    Y     288      -       -           -
LGA    E     289      -       -           -
LGA    K     290      -       -           -
LGA    K     291      -       -           -
LGA    E     292      -       -           -
LGA    A     293      -       -           -
LGA    F     294      -       -           -
LGA    A     295      -       -           -
LGA    K     296      -       -           -
LGA    T     297      -       -           -
LGA    T     298      -       -           -
LGA    K     299      -       -           -
LGA    L     300      V     282          5.076
LGA    T     301      N     283          2.585
LGA    L     302      E     284          3.672
LGA    N     303      A     285          2.751
LGA    -       -      A     286           -
LGA    A     304      Y     287          4.135
LGA    K     305      Y     288          4.516
LGA    S     306      E     289          5.468
LGA    I     307      K     290          2.850
LGA    R     308      K     291          4.139
LGA    S     309      -       -           -
LGA    T     310      -       -           -
LGA    L     311      E     292           #
LGA    H     312      A     293           -
LGA    -       -      F     294           -
LGA    -       -      A     295           -
LGA    -       -      K     296           -
LGA    -       -      T     297           -
LGA    -       -      T     298           -
LGA    -       -      K     299           -
LGA    -       -      L     300           -
LGA    -       -      T     301           -
LGA    -       -      L     302           -
LGA    -       -      N     303           -
LGA    -       -      A     304           -
LGA    -       -      K     305           -
LGA    -       -      S     306           -
LGA    -       -      I     307           -
LGA    -       -      R     308           -
LGA    -       -      S     309           -
LGA    -       -      T     310           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102  307    5.0     54    3.02    33.33      9.952     1.730

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.565228 * X  +   0.760344 * Y  +   0.319992 * Z  +  10.772311
  Y_new =   0.176983 * X  +  -0.490637 * Y  +   0.853201 * Z  +  36.398701
  Z_new =   0.805726 * X  +  -0.425620 * Y  +  -0.411890 * Z  +  24.992092 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.339802    0.801791  [ DEG:  -134.0608     45.9392 ]
  Theta =  -0.936900   -2.204692  [ DEG:   -53.6804   -126.3196 ]
  Phi   =   0.303447   -2.838145  [ DEG:    17.3863   -162.6137 ]
 
# 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: T0289TS599_5                                  
REMARK     2: T0289                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0289TS599_5.T0289 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102  307   5.0   54   3.02   33.33   9.952
REMARK  ---------------------------------------------------------- 
MOLECULE T0289TS599_5
PFRMAT TS                                                                       
TARGET T0289                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM    211  CA  GLY   211      22.598  37.305   5.043  1.00  0.00              
ATOM    212  CA  LYS   212      24.129  40.645   5.967  1.00  0.00              
ATOM    213  CA  GLU   213      21.582  43.274   8.049  1.00  0.00              
ATOM    214  CA  PHE   214      23.287  44.694  10.988  1.00  0.00              
ATOM    215  CA  PRO   215      25.201  47.926  11.203  1.00  0.00              
ATOM    216  CA  PRO   216      28.964  47.756  11.361  1.00  0.00              
ATOM    217  CA  CYS   217      29.256  49.066  14.955  1.00  0.00              
ATOM    218  CA  ALA   218      26.739  46.848  16.631  1.00  0.00              
ATOM    219  CA  ILE   219      27.870  44.641  19.441  1.00  0.00              
ATOM    220  CA  ASP   220      25.747  41.602  20.435  1.00  0.00              
ATOM    221  CA  VAL   221      26.670  39.555  23.511  1.00  0.00              
ATOM    222  CA  TYR   222      25.208  36.137  23.956  1.00  0.00              
ATOM    223  CA  LYS   223      26.041  34.285  27.147  1.00  0.00              
ATOM    224  CA  ILE   224      25.806  37.714  28.888  1.00  0.00              
ATOM    225  CA  MET   225      22.588  39.239  27.671  1.00  0.00              
ATOM    226  CA  GLU   226      20.836  35.831  27.949  1.00  0.00              
ATOM    227  CA  LYS   227      21.787  35.508  31.582  1.00  0.00              
ATOM    228  CA  VAL   228      21.249  38.749  33.172  1.00  0.00              
ATOM    229  CA  ASP   229      17.783  40.205  33.161  1.00  0.00              
ATOM    230  CA  TYR   230      18.351  43.834  32.365  1.00  0.00              
ATOM    231  CA  PRO   231      15.665  46.416  32.966  1.00  0.00              
ATOM    232  CA  ARG   232      15.586  48.287  29.605  1.00  0.00              
ATOM    233  CA  ASN   233      16.032  52.013  29.755  1.00  0.00              
ATOM    234  CA  GLU   234      13.668  54.504  28.111  1.00  0.00              
ATOM    235  CA  SER   235      15.412  54.304  24.714  1.00  0.00              
ATOM    236  CA  GLY   236      15.387  50.544  24.744  1.00  0.00              
ATOM    237  CA  ASP   237      19.037  49.873  24.612  1.00  0.00              
ATOM    238  CA  VAL   238      20.837  47.665  26.935  1.00  0.00              
ATOM    239  CA  ALA   239      24.178  48.788  27.889  1.00  0.00              
ATOM    240  CA  ALA   240      26.756  46.244  28.883  1.00  0.00              
ATOM    241  CA  VAL   241      29.880  47.380  30.376  1.00  0.00              
ATOM    242  CA  ILE   242      32.898  45.210  30.365  1.00  0.00              
ATOM    243  CA  HIS   243      35.175  45.604  33.350  1.00  0.00              
ATOM    244  CA  PRO   244      38.525  47.264  32.522  1.00  0.00              
ATOM    245  CA  ASN   245      40.657  44.662  34.365  1.00  0.00              
ATOM    246  CA  LEU   246      39.776  41.898  31.937  1.00  0.00              
ATOM    247  CA  GLN   247      40.943  44.033  28.995  1.00  0.00              
ATOM    248  CA  ASP   248      43.046  41.252  27.591  1.00  0.00              
ATOM    249  CA  GLN   249      41.447  40.815  24.218  1.00  0.00              
ATOM    250  CA  ASP   250      39.457  37.624  25.072  1.00  0.00              
ATOM    251  CA  TRP   251      36.070  38.584  23.789  1.00  0.00              
ATOM    252  CA  LYS   252      35.037  35.216  22.250  1.00  0.00              
ATOM    253  CA  PRO   253      35.829  33.246  25.383  1.00  0.00              
ATOM    254  CA  LEU   254      34.268  34.965  28.443  1.00  0.00              
ATOM    255  CA  HIS   255      35.942  33.299  31.351  1.00  0.00              
ATOM    256  CA  PRO   256      34.628  32.267  34.709  1.00  0.00              
ATOM    257  CA  GLY   257      35.380  35.110  37.117  1.00  0.00              
ATOM    258  CA  ASP   258      35.128  37.889  34.575  1.00  0.00              
ATOM    259  CA  PRO   259      33.391  41.070  35.652  1.00  0.00              
ATOM    260  CA  VAL   260      30.467  42.200  33.609  1.00  0.00              
ATOM    261  CA  PHE   261      28.605  45.247  34.477  1.00  0.00              
ATOM    262  CA  VAL   262      25.117  45.610  33.573  1.00  0.00              
ATOM    263  CA  SER   263      23.582  49.003  33.491  1.00  0.00              
ATOM    264  CA  LEU   264      19.888  49.361  33.895  1.00  0.00              
ATOM    265  CA  ASP   265      18.665  52.968  34.153  1.00  0.00              
ATOM    266  CA  GLY   266      21.716  54.023  36.263  1.00  0.00              
ATOM    267  CA  LYS   267      21.630  51.102  38.640  1.00  0.00              
ATOM    268  CA  VAL   268      24.625  48.858  38.414  1.00  0.00              
ATOM    269  CA  ILE   269      24.208  45.145  38.381  1.00  0.00              
ATOM    270  CA  PRO   270      27.265  42.978  38.448  1.00  0.00              
ATOM    271  CA  LEU   271      27.160  39.517  36.897  1.00  0.00              
ATOM    272  CA  GLY   272      30.054  37.052  37.412  1.00  0.00              
ATOM    273  CA  GLY   273      28.453  33.632  37.230  1.00  0.00              
ATOM    274  CA  ASP   274      31.074  30.960  36.540  1.00  0.00              
ATOM    275  CA  CYS   275      29.695  29.302  33.502  1.00  0.00              
ATOM    276  CA  THR   276      32.162  30.057  30.654  1.00  0.00              
ATOM    277  CA  VAL   277      29.719  31.336  28.006  1.00  0.00              
ATOM    278  CA  TYR   278      30.372  34.530  26.220  1.00  0.00              
ATOM    279  CA  PRO   279      29.806  34.606  22.666  1.00  0.00              
ATOM    280  CA  VAL   280      30.568  37.901  21.076  1.00  0.00              
ATOM    281  CA  PHE   281      29.153  38.877  17.865  1.00  0.00              
ATOM    282  CA  VAL   282      30.720  41.873  16.228  1.00  0.00              
ATOM    283  CA  ASN   283      29.228  43.489  13.211  1.00  0.00              
ATOM    284  CA  GLU   284      31.800  44.773  10.681  1.00  0.00              
ATOM    285  CA  ALA   285      31.077  43.170   7.350  1.00  0.00              
ATOM    286  CA  ALA   286      33.771  40.415   7.129  1.00  0.00              
ATOM    287  CA  TYR   287      32.908  39.197  10.599  1.00  0.00              
ATOM    288  CA  TYR   288      29.139  39.095   9.704  1.00  0.00              
ATOM    289  CA  GLU   289      29.392  37.677   6.152  1.00  0.00              
ATOM    290  CA  LYS   290      31.929  34.835   6.502  1.00  0.00              
ATOM    291  CA  LYS   291      30.370  33.822   9.846  1.00  0.00              
ATOM    292  CA  GLU   292      33.187  34.969  12.150  1.00  0.00              
ATOM    293  CA  ALA   293      32.391  36.524  15.470  1.00  0.00              
ATOM    294  CA  PHE   294      34.735  39.076  16.942  1.00  0.00              
ATOM    295  CA  ALA   295      34.071  40.904  20.165  1.00  0.00              
ATOM    296  CA  LYS   296      36.062  44.020  21.158  1.00  0.00              
ATOM    297  CA  THR   297      34.083  46.971  22.381  1.00  0.00              
ATOM    298  CA  THR   298      34.856  48.412  25.847  1.00  0.00              
ATOM    299  CA  LYS   299      31.162  49.085  26.193  1.00  0.00              
ATOM    300  CA  LEU   300      29.013  46.590  24.592  1.00  0.00              
ATOM    301  CA  THR   301      25.658  47.628  23.107  1.00  0.00              
ATOM    302  CA  LEU   302      22.789  45.216  23.029  1.00  0.00              
ATOM    303  CA  ASN   303      19.511  46.227  21.339  1.00  0.00              
ATOM    304  CA  ALA   304      16.455  44.772  23.056  1.00  0.00              
ATOM    305  CA  LYS   305      14.367  44.205  19.913  1.00  0.00              
ATOM    306  CA  SER   306      17.250  42.314  18.250  1.00  0.00              
ATOM    307  CA  ILE   307      17.723  40.165  21.357  1.00  0.00              
ATOM    308  CA  ARG   308      14.077  39.274  21.630  1.00  0.00              
ATOM    309  CA  SER   309      13.921  38.292  17.933  1.00  0.00              
ATOM    310  CA  THR   310      17.327  35.989  18.735  1.00  0.00              
ATOM    311  CA  LEU   311      15.938  34.403  22.365  1.00  0.00              
ATOM    312  CA  HIS   312      16.629  34.517  18.605  1.00  0.00              
TER                                                                             
END
