
#######################################################
#                                                     #
#                        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  155 (  155),  selected  155 , name T0321TS599_4-D2
# Molecule2: number of CA atoms  148 ( 1130),  selected  148 , name T0321_D2.pdb
# PARAMETERS: T0321TS599_4-D2.T0321_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V      97      V      97           -
LGA    I      98      I      98           -
LGA    F      99      F      99           -
LGA    S     100      S     100           -
LGA    D     101      D     101           -
LGA    A     102      A     102           -
LGA    K     103      N     110           -
LGA    R     104      D     111           -
LGA    V     105      P     112           -
LGA    E     106      F     113           -
LGA    D     107      I     114           -
LGA    R     108      M     115           -
LGA    M     109      S     116           -
LGA    N     110      Q     117           -
LGA    D     111      N     118           -
LGA    P     112      E     119           -
LGA    F     113      V     120           -
LGA    I     114      K     121           -
LGA    M     115      -       -           -
LGA    S     116      -       -           -
LGA    Q     117      -       -           -
LGA    N     118      -       -           -
LGA    E     119      -       -           -
LGA    V     120      -       -           -
LGA    K     121      -       -           -
LGA    G     122      -       -           -
LGA    K     123      -       -           -
LGA    K     124      -       -           -
LGA    V     125      -       -           -
LGA    G     126      -       -           -
LGA    V     127      -       -           -
LGA    V     128      -       -           -
LGA    G     129      -       -           -
LGA    H     130      -       -           -
LGA    F     131      -       -           -
LGA    P     132      -       -           -
LGA    H     133      -       -           -
LGA    L     134      -       -           -
LGA    E     135      -       -           -
LGA    S     136      -       -           -
LGA    L     137      -       -           -
LGA    L     138      -       -           -
LGA    E     139      -       -           -
LGA    P     140      -       -           -
LGA    I     141      G     122          3.677
LGA    C     142      K     123          1.997
LGA    D     143      K     124          1.182
LGA    L     144      V     125          0.319
LGA    S     145      G     126          0.928
LGA    I     146      V     127          1.197
LGA    L     147      V     128          1.862
LGA    E     148      G     129          2.306
LGA    W     149      -       -           -
LGA    S     150      H     130          4.281
LGA    P     151      F     131           -
LGA    E     152      P     132           -
LGA    -       -      H     133           -
LGA    -       -      L     134           -
LGA    -       -      E     135           -
LGA    -       -      S     136           -
LGA    -       -      L     137           -
LGA    -       -      L     138           -
LGA    -       -      E     139           -
LGA    -       -      P     140           -
LGA    -       -      I     141           -
LGA    -       -      C     142           -
LGA    -       -      D     143           -
LGA    -       -      L     144           -
LGA    -       -      S     145           -
LGA    -       -      I     146           -
LGA    -       -      L     147           -
LGA    -       -      E     148           -
LGA    E     153      W     149          5.242
LGA    G     154      S     150          1.805
LGA    -       -      P     151           -
LGA    -       -      E     152           -
LGA    -       -      E     153           -
LGA    -       -      G     154           -
LGA    -       -      D     155           -
LGA    D     155      Y     156           #
LGA    Y     156      P     157          1.734
LGA    P     157      L     158          4.776
LGA    L     158      P     159          1.965
LGA    P     159      -       -           -
LGA    A     160      A     160          1.462
LGA    S     161      S     161          1.044
LGA    E     162      E     162          1.055
LGA    F     163      F     163          1.339
LGA    I     164      I     164          1.010
LGA    L     165      L     165          0.829
LGA    P     166      P     166          0.303
LGA    E     167      E     167          0.427
LGA    C     168      C     168          0.541
LGA    D     169      D     169          0.508
LGA    Y     170      Y     170          0.565
LGA    V     171      V     171          0.245
LGA    Y     172      Y     172          1.449
LGA    I     173      I     173          1.873
LGA    T     174      T     174          2.928
LGA    C     175      C     175          1.710
LGA    A     176      A     176           #
LGA    S     177      S     177           -
LGA    V     178      V     178           -
LGA    V     179      V     179           -
LGA    D     180      D     180           -
LGA    K     181      K     181           -
LGA    T     182      T     182           -
LGA    L     183      L     183           -
LGA    P     184      P     184           -
LGA    R     185      R     185           -
LGA    L     186      L     186           -
LGA    L     187      L     187           -
LGA    E     188      E     188           -
LGA    L     189      L     189           -
LGA    S     190      S     190           -
LGA    R     191      R     191           -
LGA    N     192      N     192           -
LGA    -       -      A     193           -
LGA    A     193      R     194          4.679
LGA    R     194      R     195          3.103
LGA    R     195      -       -           -
LGA    I     196      I     196          0.350
LGA    T     197      T     197          4.876
LGA    L     198      L     198          3.732
LGA    V     199      V     199           #
LGA    G     200      G     200           #
LGA    P     201      P     201           -
LGA    G     202      -       -           -
LGA    T     203      -       -           -
LGA    P     204      -       -           -
LGA    L     205      -       -           -
LGA    A     206      -       -           -
LGA    P     207      -       -           -
LGA    V     208      -       -           -
LGA    L     209      -       -           -
LGA    F     210      -       -           -
LGA    E     211      -       -           -
LGA    H     212      -       -           -
LGA    G     213      -       -           -
LGA    L     214      -       -           -
LGA    Q     215      -       -           -
LGA    E     216      -       -           -
LGA    L     217      -       -           -
LGA    S     218      G     202           #
LGA    G     219      T     203          4.859
LGA    F     220      P     204           #
LGA    M     221      L     205           #
LGA    -       -      A     206           -
LGA    -       -      P     207           -
LGA    -       -      V     208           -
LGA    -       -      L     209           -
LGA    V     222      F     210           #
LGA    -       -      E     211           -
LGA    -       -      H     212           -
LGA    K     223      G     213          3.484
LGA    D     224      L     214          4.282
LGA    N     225      -       -           -
LGA    A     226      -       -           -
LGA    R     227      -       -           -
LGA    A     228      Q     215           #
LGA    F     229      E     216           -
LGA    R     230      L     217           -
LGA    I     231      S     218           -
LGA    V     232      G     219           -
LGA    A     233      F     220           -
LGA    G     234      M     221           -
LGA    A     235      V     222           -
LGA    E     236      K     223           -
LGA    K     237      D     224           -
LGA    V     238      N     225           -
LGA    K     239      A     226           -
LGA    I     240      R     227           -
LGA    Y     241      A     228           -
LGA    S     242      F     229           -
LGA    A     243      R     230           -
LGA    G     244      I     231           -
LGA    Q     245      V     232           -
LGA    K     246      A     233           -
LGA    V     247      G     234           -
LGA    T     248      A     235           -
LGA    I     249      E     236           -
LGA    K     250      K     237           -
LGA    K     251      V     238           -
LGA    -       -      K     239           -
LGA    -       -      I     240           -
LGA    -       -      Y     241           -
LGA    -       -      S     242           -
LGA    -       -      A     243           -
LGA    -       -      G     244           -
LGA    -       -      Q     245           -
LGA    -       -      K     246           -
LGA    -       -      V     247           -
LGA    -       -      T     248           -
LGA    -       -      I     249           -
LGA    -       -      K     250           -
LGA    -       -      K     251           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  155  148    5.0     38    2.61    52.63     18.721     1.403

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.659042 * X  +   0.647250 * Y  +   0.383055 * Z  +  20.036963
  Y_new =  -0.183775 * X  +   0.355288 * Y  +  -0.916514 * Z  +  42.247353
  Z_new =  -0.729308 * X  +  -0.674417 * Y  +  -0.115202 * Z  +  66.608536 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.739980    1.401613  [ DEG:   -99.6935     80.3065 ]
  Theta =   0.817310    2.324282  [ DEG:    46.8284    133.1716 ]
  Phi   =  -2.869650    0.271943  [ DEG:  -164.4188     15.5812 ]
 
# 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: T0321TS599_4-D2                               
REMARK     2: T0321_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS599_4-D2.T0321_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  155  148   5.0   38   2.61   52.63  18.721
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS599_4-D2
PFRMAT TS                                                                       
TARGET T0321                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM     97  CA  VAL    97      38.603  48.667  62.787  1.00  0.00              
ATOM     98  CA  ILE    98      41.719  47.314  65.396  1.00  0.00              
ATOM     99  CA  PHE    99      44.446  49.896  65.596  1.00  0.00              
ATOM    100  CA  SER   100      47.754  48.188  65.744  1.00  0.00              
ATOM    101  CA  ASP   101      49.557  50.187  68.332  1.00  0.00              
ATOM    102  CA  ALA   102      48.296  53.632  68.718  1.00  0.00              
ATOM    103  CA  LYS   103      44.772  54.152  69.887  1.00  0.00              
ATOM    104  CA  ARG   104      43.713  57.022  67.622  1.00  0.00              
ATOM    105  CA  VAL   105      42.473  59.786  69.963  1.00  0.00              
ATOM    106  CA  GLU   106      39.443  61.405  68.312  1.00  0.00              
ATOM    107  CA  ASP   107      39.308  64.918  69.771  1.00  0.00              
ATOM    108  CA  ARG   108      35.544  65.321  70.443  1.00  0.00              
ATOM    109  CA  MET   109      34.952  62.058  72.385  1.00  0.00              
ATOM    110  CA  ASN   110      38.337  61.844  74.121  1.00  0.00              
ATOM    111  CA  ASP   111      37.248  61.480  77.706  1.00  0.00              
ATOM    112  CA  PRO   112      34.889  58.788  76.815  1.00  0.00              
ATOM    113  CA  PHE   113      37.421  56.891  74.769  1.00  0.00              
ATOM    114  CA  ILE   114      40.060  56.934  77.502  1.00  0.00              
ATOM    115  CA  MET   115      37.604  55.746  80.022  1.00  0.00              
ATOM    116  CA  SER   116      36.564  52.914  77.775  1.00  0.00              
ATOM    117  CA  GLN   117      40.097  51.755  77.035  1.00  0.00              
ATOM    118  CA  ASN   118      40.870  51.547  80.790  1.00  0.00              
ATOM    119  CA  GLU   119      37.769  49.538  81.677  1.00  0.00              
ATOM    120  CA  VAL   120      38.763  46.416  79.824  1.00  0.00              
ATOM    121  CA  LYS   121      41.965  45.416  81.616  1.00  0.00              
ATOM    122  CA  GLY   122      41.279  41.815  82.555  1.00  0.00              
ATOM    123  CA  LYS   123      38.554  41.144  80.084  1.00  0.00              
ATOM    124  CA  LYS   124      38.558  38.052  77.833  1.00  0.00              
ATOM    125  CA  VAL   125      37.964  38.555  74.768  1.00  0.00              
ATOM    126  CA  GLY   126      36.506  35.421  72.127  1.00  0.00              
ATOM    127  CA  VAL   127      37.105  35.525  68.923  1.00  0.00              
ATOM    128  CA  VAL   128      34.792  32.914  66.533  1.00  0.00              
ATOM    129  CA  GLY   129      36.098  31.653  63.658  1.00  0.00              
ATOM    130  CA  HIS   130      34.415  28.543  61.560  1.00  0.00              
ATOM    131  CA  PHE   131      35.421  25.380  63.494  1.00  0.00              
ATOM    132  CA  PRO   132      32.441  23.199  64.035  1.00  0.00              
ATOM    133  CA  HIS   133      32.336  23.552  67.878  1.00  0.00              
ATOM    134  CA  LEU   134      32.191  27.264  67.370  1.00  0.00              
ATOM    135  CA  GLU   135      29.536  27.167  64.933  1.00  0.00              
ATOM    136  CA  SER   136      27.230  25.165  67.121  1.00  0.00              
ATOM    137  CA  LEU   137      27.723  27.582  69.908  1.00  0.00              
ATOM    138  CA  LEU   138      27.146  30.521  67.864  1.00  0.00              
ATOM    139  CA  GLU   139      23.703  29.327  66.482  1.00  0.00              
ATOM    140  CA  PRO   140      22.469  28.443  69.937  1.00  0.00              
ATOM    141  CA  ILE   141      23.246  31.718  71.502  1.00  0.00              
ATOM    142  CA  CYS   142      22.645  34.274  68.946  1.00  0.00              
ATOM    143  CA  ASP   143      20.492  35.539  66.151  1.00  0.00              
ATOM    144  CA  LEU   144      18.665  38.066  67.063  1.00  0.00              
ATOM    145  CA  SER   145      16.462  40.434  64.567  1.00  0.00              
ATOM    146  CA  ILE   146      15.116  43.455  65.559  1.00  0.00              
ATOM    147  CA  LEU   147      11.895  45.207  63.421  1.00  0.00              
ATOM    148  CA  GLU   148      10.990  48.635  64.174  1.00  0.00              
ATOM    149  CA  TRP   149       8.563  50.619  62.197  1.00  0.00              
ATOM    150  CA  SER   150      10.458  53.915  62.355  1.00  0.00              
ATOM    151  CA  PRO   151      10.877  55.539  59.061  1.00  0.00              
ATOM    152  CA  GLU   152      14.653  55.219  58.545  1.00  0.00              
ATOM    153  CA  GLU   153      14.620  54.250  54.909  1.00  0.00              
ATOM    154  CA  GLY   154      16.224  50.803  55.211  1.00  0.00              
ATOM    155  CA  ASP   155      15.718  48.739  52.013  1.00  0.00              
ATOM    156  CA  TYR   156      15.685  45.634  52.906  1.00  0.00              
ATOM    157  CA  PRO   157      15.805  42.914  49.952  1.00  0.00              
ATOM    158  CA  LEU   158      13.508  40.149  50.262  1.00  0.00              
ATOM    159  CA  PRO   159      16.142  37.541  50.146  1.00  0.00              
ATOM    160  CA  ALA   160      17.917  38.985  53.142  1.00  0.00              
ATOM    161  CA  SER   161      14.776  39.323  55.228  1.00  0.00              
ATOM    162  CA  GLU   162      13.712  35.612  54.734  1.00  0.00              
ATOM    163  CA  PHE   163      17.264  34.400  55.524  1.00  0.00              
ATOM    164  CA  ILE   164      17.443  36.498  58.637  1.00  0.00              
ATOM    165  CA  LEU   165      14.074  35.387  59.962  1.00  0.00              
ATOM    166  CA  PRO   166      14.979  31.752  59.443  1.00  0.00              
ATOM    167  CA  GLU   167      18.170  31.938  61.526  1.00  0.00              
ATOM    168  CA  CYS   168      16.979  34.180  64.320  1.00  0.00              
ATOM    169  CA  ASP   169      16.361  32.831  67.706  1.00  0.00              
ATOM    170  CA  TYR   170      14.229  35.983  69.185  1.00  0.00              
ATOM    171  CA  VAL   171      12.623  38.015  66.776  1.00  0.00              
ATOM    172  CA  TYR   172      11.368  41.868  68.513  1.00  0.00              
ATOM    173  CA  ILE   173       8.534  43.393  66.356  1.00  0.00              
ATOM    174  CA  THR   174       7.560  46.832  67.290  1.00  0.00              
ATOM    175  CA  CYS   175       4.378  47.889  65.786  1.00  0.00              
ATOM    176  CA  ALA   176       3.095  50.597  67.772  1.00  0.00              
ATOM    177  CA  SER   177       0.006  48.758  69.031  1.00  0.00              
ATOM    178  CA  VAL   178       1.662  45.511  69.708  1.00  0.00              
ATOM    179  CA  VAL   179       4.649  46.831  71.709  1.00  0.00              
ATOM    180  CA  ASP   180       3.378  49.755  73.706  1.00  0.00              
ATOM    181  CA  LYS   181      -0.033  48.441  74.602  1.00  0.00              
ATOM    182  CA  THR   182       1.126  44.970  74.878  1.00  0.00              
ATOM    183  CA  LEU   183       3.456  44.986  77.500  1.00  0.00              
ATOM    184  CA  PRO   184       2.076  42.166  78.917  1.00  0.00              
ATOM    185  CA  ARG   185       2.386  40.412  75.923  1.00  0.00              
ATOM    186  CA  LEU   186       5.779  41.135  75.520  1.00  0.00              
ATOM    187  CA  LEU   187       6.515  39.700  78.771  1.00  0.00              
ATOM    188  CA  GLU   188       4.907  36.705  78.178  1.00  0.00              
ATOM    189  CA  LEU   189       6.959  36.081  75.101  1.00  0.00              
ATOM    190  CA  SER   190      10.298  36.757  76.881  1.00  0.00              
ATOM    191  CA  ARG   191       9.548  34.410  79.718  1.00  0.00              
ATOM    192  CA  ASN   192       8.450  31.505  77.597  1.00  0.00              
ATOM    193  CA  ALA   193      11.252  31.343  75.063  1.00  0.00              
ATOM    194  CA  ARG   194       9.138  31.106  71.901  1.00  0.00              
ATOM    195  CA  ARG   195      10.134  33.043  69.331  1.00  0.00              
ATOM    196  CA  ILE   196       8.116  36.571  68.362  1.00  0.00              
ATOM    197  CA  THR   197       8.104  37.888  65.223  1.00  0.00              
ATOM    198  CA  LEU   198       7.408  41.888  64.972  1.00  0.00              
ATOM    199  CA  VAL   199       6.315  43.624  62.042  1.00  0.00              
ATOM    200  CA  GLY   200       6.152  47.177  61.725  1.00  0.00              
ATOM    201  CA  PRO   201       5.825  49.072  58.412  1.00  0.00              
ATOM    202  CA  GLY   202       9.093  50.774  57.723  1.00  0.00              
ATOM    203  CA  THR   203      10.532  50.169  54.277  1.00  0.00              
ATOM    204  CA  PRO   204      10.586  46.377  53.869  1.00  0.00              
ATOM    205  CA  LEU   205       7.398  45.027  55.361  1.00  0.00              
ATOM    206  CA  ALA   206       5.002  47.681  54.053  1.00  0.00              
ATOM    207  CA  PRO   207       6.280  47.656  50.457  1.00  0.00              
ATOM    208  CA  VAL   208       5.996  43.896  50.242  1.00  0.00              
ATOM    209  CA  LEU   209       2.545  43.974  51.584  1.00  0.00              
ATOM    210  CA  PHE   210       1.355  46.592  49.291  1.00  0.00              
ATOM    211  CA  GLU   211       2.732  44.909  46.260  1.00  0.00              
ATOM    212  CA  HIS   212       1.007  41.687  47.266  1.00  0.00              
ATOM    213  CA  GLY   213      -2.375  43.282  47.780  1.00  0.00              
ATOM    214  CA  LEU   214      -2.492  43.529  51.507  1.00  0.00              
ATOM    215  CA  GLN   215      -4.621  46.416  52.526  1.00  0.00              
ATOM    216  CA  GLU   216      -3.169  48.131  55.423  1.00  0.00              
ATOM    217  CA  LEU   217      -1.609  46.384  58.430  1.00  0.00              
ATOM    218  CA  SER   218      -1.804  48.188  61.556  1.00  0.00              
ATOM    219  CA  GLY   219       0.647  46.825  63.729  1.00  0.00              
ATOM    220  CA  PHE   220       1.338  43.140  63.175  1.00  0.00              
ATOM    221  CA  MET   221       2.482  40.980  65.867  1.00  0.00              
ATOM    222  CA  VAL   222       3.208  37.101  65.135  1.00  0.00              
ATOM    223  CA  LYS   223       3.042  34.933  67.951  1.00  0.00              
ATOM    224  CA  ASP   224       3.655  31.326  67.698  1.00  0.00              
ATOM    225  CA  ASN   225       7.279  30.374  66.967  1.00  0.00              
ATOM    226  CA  ALA   226       6.361  27.432  65.091  1.00  0.00              
ATOM    227  CA  ARG   227       4.075  29.273  62.683  1.00  0.00              
ATOM    228  CA  ALA   228       6.554  31.935  61.863  1.00  0.00              
ATOM    229  CA  PHE   229       9.256  29.501  61.209  1.00  0.00              
ATOM    230  CA  ARG   230       7.154  27.276  58.913  1.00  0.00              
ATOM    231  CA  ILE   231       6.072  30.273  56.941  1.00  0.00              
ATOM    232  CA  VAL   232       9.687  31.372  56.623  1.00  0.00              
ATOM    233  CA  ALA   233      11.195  28.051  55.778  1.00  0.00              
ATOM    234  CA  GLY   234       8.781  27.132  53.031  1.00  0.00              
ATOM    235  CA  ALA   235       9.056  30.508  51.288  1.00  0.00              
ATOM    236  CA  GLU   236       5.498  31.505  52.182  1.00  0.00              
ATOM    237  CA  LYS   237       5.697  35.185  52.999  1.00  0.00              
ATOM    238  CA  VAL   238       3.438  37.178  50.536  1.00  0.00              
ATOM    239  CA  LYS   239       0.503  34.677  50.678  1.00  0.00              
ATOM    240  CA  ILE   240       0.499  34.529  54.472  1.00  0.00              
ATOM    241  CA  TYR   241       0.601  38.287  54.987  1.00  0.00              
ATOM    242  CA  SER   242      -2.263  39.017  52.492  1.00  0.00              
ATOM    243  CA  ALA   243      -4.668  36.496  54.075  1.00  0.00              
ATOM    244  CA  GLY   244      -4.154  37.838  57.627  1.00  0.00              
ATOM    245  CA  GLN   245      -4.269  41.489  56.700  1.00  0.00              
ATOM    246  CA  LYS   246      -5.602  44.132  58.886  1.00  0.00              
ATOM    247  CA  VAL   247      -7.032  47.350  57.520  1.00  0.00              
ATOM    248  CA  THR   248      -6.516  50.603  59.476  1.00  0.00              
ATOM    249  CA  ILE   249      -8.188  53.602  58.366  1.00  0.00              
ATOM    250  CA  LYS   250      -7.410  56.869  56.117  1.00  0.00              
ATOM    251  CA  LYS   251      -7.575  59.510  53.629  1.00  0.00              
TER                                                                             
END
