
#######################################################
#                                                     #
#                        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  142 (  142),  selected  142 , name T0378TS168_1-D2
# Molecule2: number of CA atoms  142 ( 1079),  selected  142 , name T0378_D2.pdb
# PARAMETERS: T0378TS168_1-D2.T0378_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G     100      G     100          2.934
LGA    L     101      L     101          1.349
LGA    T     102      T     102          1.761
LGA    L     103      L     103          3.283
LGA    L     104      L     104          3.716
LGA    L     105      L     105          1.046
LGA    D     106      D     106          1.553
LGA    G     107      G     107          0.565
LGA    V     108      V     108          2.129
LGA    Q     109      Q     109          1.047
LGA    D     110      D     110          0.666
LGA    P     111      P     111          0.590
LGA    G     112      G     112          1.003
LGA    N     113      N     113          0.999
LGA    V     114      V     114          0.625
LGA    G     115      G     115          0.932
LGA    T     116      T     116          1.544
LGA    I     117      I     117          1.331
LGA    L     118      L     118          0.789
LGA    R     119      R     119          1.267
LGA    T     120      T     120          1.645
LGA    A     121      A     121          1.149
LGA    D     122      D     122          0.710
LGA    W     123      W     123          1.597
LGA    F     124      F     124          1.751
LGA    G     125      G     125          1.940
LGA    I     126      I     126          1.360
LGA    R     127      R     127          1.757
LGA    H     128      H     128          1.497
LGA    V     129      V     129          1.267
LGA    W     130      W     130          1.336
LGA    L     131      L     131          2.369
LGA    G     132      G     132          2.276
LGA    T     133      -       -           -
LGA    G     134      T     133          3.133
LGA    S     135      G     134          0.643
LGA    A     136      S     135          3.049
LGA    D     137      A     136          1.354
LGA    V     138      D     137          3.300
LGA    F     139      V     138          1.152
LGA    S     140      F     139          2.700
LGA    P     141      S     140          0.789
LGA    -       -      P     141           -
LGA    K     142      K     142          3.229
LGA    V     143      V     143          2.406
LGA    V     144      V     144          2.079
LGA    Q     145      Q     145          3.008
LGA    A     146      A     146          2.407
LGA    S     147      S     147          0.998
LGA    M     148      M     148          1.061
LGA    G     149      G     149          1.659
LGA    A     150      A     150          1.537
LGA    L     151      L     151          2.390
LGA    A     152      A     152          2.548
LGA    R     153      R     153          0.662
LGA    V     154      V     154          0.407
LGA    Q     155      Q     155          0.962
LGA    P     156      P     156          0.959
LGA    T     157      T     157          0.334
LGA    P     158      P     158          1.304
LGA    L     159      L     159          1.359
LGA    K     160      K     160          2.042
LGA    N     161      N     161          2.700
LGA    T     162      T     162          0.844
LGA    V     163      V     163          1.562
LGA    D     164      D     164          1.799
LGA    T     165      T     165          1.757
LGA    L     166      L     166          1.563
LGA    A     167      A     167          3.583
LGA    Y     168      Y     168          4.213
LGA    F     169      F     169          3.234
LGA    R     170      R     170          4.175
LGA    R     171      R     171           #
LGA    Q     172      Q     172          4.281
LGA    G     173      G     173           #
LGA    I     174      I     174          3.600
LGA    P     175      P     175           #
LGA    V     176      V     176           #
LGA    Y     177      Y     177          2.662
LGA    G     178      G     178          1.719
LGA    A     179      A     179          3.104
LGA    F     180      F     180           #
LGA    L     181      -       -           -
LGA    D     182      -       -           -
LGA    G     183      L     181           #
LGA    Q     184      D     182          3.392
LGA    S     185      G     183          1.568
LGA    L     186      Q     184          1.692
LGA    Y     187      S     185          3.626
LGA    E     188      L     186          1.199
LGA    A     189      Y     187          2.249
LGA    P     190      E     188          3.041
LGA    L     191      A     189          3.255
LGA    P     192      P     190          2.742
LGA    N     193      L     191          2.829
LGA    F     194      -       -           -
LGA    T     195      P     192          2.134
LGA    E     196      N     193           -
LGA    -       -      F     194           -
LGA    -       -      T     195           -
LGA    -       -      E     196           -
LGA    P     197      P     197           #
LGA    A     198      A     198          4.700
LGA    I     199      I     199          1.786
LGA    L     200      L     200          3.067
LGA    V     201      V     201          0.795
LGA    L     202      L     202          1.091
LGA    G     203      G     203          2.235
LGA    S     204      S     204          2.944
LGA    E     205      E     205          3.599
LGA    G     206      G     206          2.641
LGA    R     207      R     207          2.770
LGA    G     208      G     208          1.518
LGA    I     209      I     209          1.480
LGA    S     210      S     210          1.848
LGA    P     211      P     211          1.301
LGA    E     212      E     212          1.824
LGA    V     213      V     213          2.348
LGA    A     214      A     214          2.212
LGA    A     215      A     215          2.174
LGA    E     216      E     216          1.910
LGA    I     217      I     217          1.664
LGA    T     218      T     218          2.543
LGA    D     219      D     219          4.056
LGA    R     220      R     220          1.370
LGA    L     221      L     221          3.404
LGA    T     222      T     222          3.688
LGA    I     223      I     223          5.049
LGA    L     237      L     237          1.794
LGA    N     238      N     238          2.424
LGA    V     239      V     239          2.607
LGA    A     240      A     240          1.926
LGA    I     241      I     241          1.359
LGA    A     242      A     242          1.237
LGA    T     243      T     243          1.195
LGA    A     244      A     244          0.356
LGA    I     245      I     245          0.646
LGA    L     246      L     246          1.488
LGA    C     247      C     247          0.910
LGA    S     248      S     248          1.417
LGA    E     249      E     249          2.609
LGA    W     250      W     250          2.326
LGA    R     251      R     251          1.958
LGA    R     252      R     252          3.755
LGA    R     253      R     253          2.330
LGA    S     254      S     254          2.040

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  142  142    5.0    130    2.26    86.15     64.338     5.515

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.984243 * X  +  -0.176738 * Y  +  -0.005475 * Z  +  19.450993
  Y_new =   0.004753 * X  +   0.004513 * Y  +  -0.999979 * Z  +   9.062250
  Z_new =   0.176759 * X  +  -0.984248 * Y  +  -0.003602 * Z  +  44.842476 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.574456    1.567137  [ DEG:   -90.2097     89.7903 ]
  Theta =  -0.177692   -2.963901  [ DEG:   -10.1810   -169.8190 ]
  Phi   =   3.136764   -0.004829  [ DEG:   179.7233     -0.2767 ]
 
# 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: T0378TS168_1-D2                               
REMARK     2: T0378_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0378TS168_1-D2.T0378_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  142  142   5.0  130   2.26   86.15  64.338
REMARK  ---------------------------------------------------------- 
MOLECULE T0378TS168_1-D2
PFRMAT TS
TARGET T0378
MODEL 1
PARENT N/A
ATOM    100  CA  GLY   100      19.503  -8.765  47.042  1.00 25.00           C
ATOM    101  CA  LEU   101      19.988  -5.322  45.613  1.00 25.00           C
ATOM    102  CA  THR   102      21.504  -1.784  45.485  1.00 25.00           C
ATOM    103  CA  LEU   103      21.928   0.280  42.368  1.00 25.00           C
ATOM    104  CA  LEU   104      24.101   3.280  43.213  1.00 25.00           C
ATOM    105  CA  LEU   105      26.760   6.020  43.188  1.00 25.00           C
ATOM    106  CA  ASP   106      30.089   7.709  43.011  1.00 25.00           C
ATOM    107  CA  GLY   107      31.435  11.211  42.558  1.00 25.00           C
ATOM    108  CA  VAL   108      27.940  12.606  42.202  1.00 25.00           C
ATOM    109  CA  GLN   109      28.712  15.994  40.578  1.00 25.00           C
ATOM    110  CA  ASP   110      25.953  16.164  37.981  1.00 25.00           C
ATOM    111  CA  PRO   111      22.271  15.640  38.772  1.00 25.00           C
ATOM    112  CA  GLY   112      21.050  13.840  35.620  1.00 25.00           C
ATOM    113  CA  ASN   113      23.285  10.840  36.440  1.00 25.00           C
ATOM    114  CA  VAL   114      21.904  10.754  40.011  1.00 25.00           C
ATOM    115  CA  GLY   115      18.323  10.857  38.654  1.00 25.00           C
ATOM    116  CA  THR   116      19.122   7.978  36.258  1.00 25.00           C
ATOM    117  CA  ILE   117      20.600   5.948  39.150  1.00 25.00           C
ATOM    118  CA  LEU   118      17.462   6.604  41.246  1.00 25.00           C
ATOM    119  CA  ARG   119      15.249   5.479  38.329  1.00 25.00           C
ATOM    120  CA  THR   120      17.330   2.287  37.950  1.00 25.00           C
ATOM    121  CA  ALA   121      16.996   1.593  41.701  1.00 25.00           C
ATOM    122  CA  ASP   122      13.205   2.098  41.482  1.00 25.00           C
ATOM    123  CA  TRP   123      13.032  -0.311  38.510  1.00 25.00           C
ATOM    124  CA  PHE   124      15.740  -2.726  39.453  1.00 25.00           C
ATOM    125  CA  GLY   125      13.713  -3.934  42.375  1.00 25.00           C
ATOM    126  CA  ILE   126      16.044  -2.195  44.825  1.00 25.00           C
ATOM    127  CA  ARG   127      14.874  -1.557  48.384  1.00 25.00           C
ATOM    128  CA  HIS   128      17.303   1.384  48.366  1.00 25.00           C
ATOM    129  CA  VAL   129      19.842   3.701  46.872  1.00 25.00           C
ATOM    130  CA  TRP   130      23.200   4.767  48.282  1.00 25.00           C
ATOM    131  CA  LEU   131      23.702   8.235  46.707  1.00 25.00           C
ATOM    132  CA  GLY   132      27.455   8.438  47.526  1.00 25.00           C
ATOM    133  CA  THR   133      30.587  10.270  48.663  1.00 25.00           C
ATOM    134  CA  GLY   134      29.434  13.719  49.768  1.00 25.00           C
ATOM    135  CA  SER   135      30.937  14.969  46.539  1.00 25.00           C
ATOM    136  CA  ALA   136      27.401  16.098  45.747  1.00 25.00           C
ATOM    137  CA  ASP   137      23.785  15.828  44.599  1.00 25.00           C
ATOM    138  CA  VAL   138      22.972  13.443  47.431  1.00 25.00           C
ATOM    139  CA  PHE   139      19.288  14.256  47.032  1.00 25.00           C
ATOM    140  CA  SER   140      19.249  17.689  48.770  1.00 25.00           C
ATOM    141  CA  PRO   141      18.673  19.270  45.359  1.00 25.00           C
ATOM    142  CA  LYS   142      19.643  18.747  41.692  1.00 25.00           C
ATOM    143  CA  VAL   143      19.078  14.976  42.054  1.00 25.00           C
ATOM    144  CA  VAL   144      15.644  15.617  43.623  1.00 25.00           C
ATOM    145  CA  GLN   145      14.740  17.973  40.741  1.00 25.00           C
ATOM    146  CA  ALA   146      15.829  15.322  38.200  1.00 25.00           C
ATOM    147  CA  SER   147      13.693  12.694  39.990  1.00 25.00           C
ATOM    148  CA  MET   148      10.268  11.563  38.749  1.00 25.00           C
ATOM    149  CA  GLY   149       9.761   9.094  41.572  1.00 25.00           C
ATOM    150  CA  ALA   150      12.778   6.958  42.580  1.00 25.00           C
ATOM    151  CA  LEU   151      14.096   9.254  45.346  1.00 25.00           C
ATOM    152  CA  ALA   152      10.982   8.541  47.457  1.00 25.00           C
ATOM    153  CA  ARG   153      10.333   4.794  47.386  1.00 25.00           C
ATOM    154  CA  VAL   154      14.124   4.647  47.354  1.00 25.00           C
ATOM    155  CA  GLN   155      16.461   6.119  49.876  1.00 25.00           C
ATOM    156  CA  PRO   156      19.300   8.522  49.150  1.00 25.00           C
ATOM    157  CA  THR   157      21.864   8.121  51.881  1.00 25.00           C
ATOM    158  CA  PRO   158      25.328   9.827  52.074  1.00 25.00           C
ATOM    159  CA  LEU   159      28.350   7.971  53.358  1.00 25.00           C
ATOM    160  CA  LYS   160      31.116  10.135  54.669  1.00 25.00           C
ATOM    161  CA  ASN   161      34.296   8.636  53.103  1.00 25.00           C
ATOM    162  CA  THR   162      32.662   5.494  51.676  1.00 25.00           C
ATOM    163  CA  VAL   163      34.888   2.912  53.420  1.00 25.00           C
ATOM    164  CA  ASP   164      32.920   3.378  56.674  1.00 25.00           C
ATOM    165  CA  THR   165      29.627   2.905  54.777  1.00 25.00           C
ATOM    166  CA  LEU   166      30.987  -0.290  53.162  1.00 25.00           C
ATOM    167  CA  ALA   167      32.057  -1.601  56.598  1.00 25.00           C
ATOM    168  CA  TYR   168      28.573  -0.844  57.998  1.00 25.00           C
ATOM    169  CA  PHE   169      26.962  -2.690  55.054  1.00 25.00           C
ATOM    170  CA  ARG   170      29.253  -5.700  55.654  1.00 25.00           C
ATOM    171  CA  ARG   171      28.318  -5.702  59.368  1.00 25.00           C
ATOM    172  CA  GLN   172      26.569  -9.056  58.673  1.00 25.00           C
ATOM    173  CA  GLY   173      25.289  -8.710  55.154  1.00 25.00           C
ATOM    174  CA  ILE   174      25.463  -6.440  52.164  1.00 25.00           C
ATOM    175  CA  PRO   175      24.366  -6.930  48.512  1.00 25.00           C
ATOM    176  CA  VAL   176      25.232  -5.334  45.160  1.00 25.00           C
ATOM    177  CA  TYR   177      28.323  -4.307  43.194  1.00 25.00           C
ATOM    178  CA  GLY   178      31.061  -3.038  40.904  1.00 25.00           C
ATOM    179  CA  ALA   179      28.914  -1.581  38.115  1.00 25.00           C
ATOM    180  CA  PHE   180      29.223  -1.570  34.366  1.00 25.00           C
ATOM    181  CA  LEU   181      30.595  -4.040  31.905  1.00 25.00           C
ATOM    182  CA  ASP   182      32.906  -6.021  29.636  1.00 25.00           C
ATOM    183  CA  GLY   183      36.476  -5.960  28.203  1.00 25.00           C
ATOM    184  CA  GLN   184      37.849  -6.082  31.731  1.00 25.00           C
ATOM    185  CA  SER   185      36.513  -7.482  35.016  1.00 25.00           C
ATOM    186  CA  LEU   186      34.548 -10.582  34.028  1.00 25.00           C
ATOM    187  CA  TYR   187      31.503  -9.012  35.685  1.00 25.00           C
ATOM    188  CA  GLU   188      28.497  -9.425  33.482  1.00 25.00           C
ATOM    189  CA  ALA   189      29.046 -13.106  32.575  1.00 25.00           C
ATOM    190  CA  PRO   190      29.829 -13.915  36.236  1.00 25.00           C
ATOM    191  CA  LEU   191      31.125 -13.974  39.817  1.00 25.00           C
ATOM    192  CA  PRO   192      28.598 -16.476  41.293  1.00 25.00           C
ATOM    193  CA  ASN   193      25.720 -14.947  39.416  1.00 25.00           C
ATOM    194  CA  PHE   194      25.360 -11.374  40.612  1.00 25.00           C
ATOM    195  CA  THR   195      25.666 -12.890  44.084  1.00 25.00           C
ATOM    196  CA  GLU   196      26.942 -12.102  47.554  1.00 25.00           C
ATOM    197  CA  PRO   197      28.965  -9.040  48.247  1.00 25.00           C
ATOM    198  CA  ALA   198      29.596  -5.404  49.034  1.00 25.00           C
ATOM    199  CA  ILE   199      27.297  -2.392  48.694  1.00 25.00           C
ATOM    200  CA  LEU   200      27.287   0.233  45.910  1.00 25.00           C
ATOM    201  CA  VAL   201      29.234   1.505  42.848  1.00 25.00           C
ATOM    202  CA  LEU   202      28.911   3.242  39.480  1.00 25.00           C
ATOM    203  CA  GLY   203      30.251   6.541  38.138  1.00 25.00           C
ATOM    204  CA  SER   204      28.723   9.929  37.356  1.00 25.00           C
ATOM    205  CA  GLU   205      30.999  11.667  34.820  1.00 25.00           C
ATOM    206  CA  GLY   206      34.190  13.431  35.794  1.00 25.00           C
ATOM    207  CA  ARG   207      36.056  10.481  34.310  1.00 25.00           C
ATOM    208  CA  GLY   208      36.438   7.799  36.987  1.00 25.00           C
ATOM    209  CA  ILE   209      35.372   5.276  39.679  1.00 25.00           C
ATOM    210  CA  SER   210      38.485   6.425  41.460  1.00 25.00           C
ATOM    211  CA  PRO   211      41.490   4.603  42.905  1.00 25.00           C
ATOM    212  CA  GLU   212      40.194   3.799  46.417  1.00 25.00           C
ATOM    213  CA  VAL   213      36.800   2.787  44.961  1.00 25.00           C
ATOM    214  CA  ALA   214      38.542   0.528  42.405  1.00 25.00           C
ATOM    215  CA  ALA   215      40.600  -1.089  45.201  1.00 25.00           C
ATOM    216  CA  GLU   216      37.411  -1.684  47.237  1.00 25.00           C
ATOM    217  CA  ILE   217      35.290  -3.426  44.550  1.00 25.00           C
ATOM    218  CA  THR   218      37.284  -6.655  44.313  1.00 25.00           C
ATOM    219  CA  ASP   219      37.946  -7.265  40.593  1.00 25.00           C
ATOM    220  CA  ARG   220      35.801  -4.531  39.044  1.00 25.00           C
ATOM    221  CA  LEU   221      33.726  -2.470  36.592  1.00 25.00           C
ATOM    222  CA  THR   222      35.238  -1.506  33.286  1.00 25.00           C
ATOM    223  CA  ILE   223      33.130   0.320  30.730  1.00 25.00           C
ATOM    237  CA  LEU   237      29.743   6.428  29.025  1.00 25.00           C
ATOM    238  CA  ASN   238      28.533   9.657  30.662  1.00 25.00           C
ATOM    239  CA  VAL   239      25.957   7.692  32.699  1.00 25.00           C
ATOM    240  CA  ALA   240      22.220   6.920  33.035  1.00 25.00           C
ATOM    241  CA  ILE   241      22.545   4.110  30.452  1.00 25.00           C
ATOM    242  CA  ALA   242      25.535   2.668  32.360  1.00 25.00           C
ATOM    243  CA  THR   243      23.540   2.786  35.626  1.00 25.00           C
ATOM    244  CA  ALA   244      20.609   0.996  33.931  1.00 25.00           C
ATOM    245  CA  ILE   245      22.989  -1.692  32.599  1.00 25.00           C
ATOM    246  CA  LEU   246      24.461  -2.160  36.104  1.00 25.00           C
ATOM    247  CA  CYS   247      20.937  -2.501  37.564  1.00 25.00           C
ATOM    248  CA  SER   248      20.058  -5.106  34.899  1.00 25.00           C
ATOM    249  CA  GLU   249      23.254  -7.052  35.710  1.00 25.00           C
ATOM    250  CA  TRP   250      22.391  -6.963  39.440  1.00 25.00           C
ATOM    251  CA  ARG   251      18.861  -8.239  38.680  1.00 25.00           C
ATOM    252  CA  ARG   252      20.318 -11.076  36.559  1.00 25.00           C
ATOM    253  CA  ARG   253      18.249 -13.316  38.897  1.00 25.00           C
ATOM    254  CA  SER   254      14.736 -12.143  39.585  1.00 25.00           C
TER
END
