
#######################################################
#                                                     #
#                        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  121 (  121),  selected  121 , name T0371TS168_3-D2
# Molecule2: number of CA atoms  121 (  915),  selected  121 , name T0371_D2.pdb
# PARAMETERS: T0371TS168_3-D2.T0371_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      S      82           -
LGA    -       -      G      83           -
LGA    -       -      M      84           -
LGA    -       -      I      85           -
LGA    -       -      T      86           -
LGA    -       -      K      87           -
LGA    S      82      E      88          2.916
LGA    G      83      Y      89          3.315
LGA    M      84      I      90          3.526
LGA    I      85      -       -           -
LGA    T      86      D      91          3.626
LGA    K      87      L      92           -
LGA    E      88      -       -           -
LGA    Y      89      -       -           -
LGA    I      90      -       -           -
LGA    D      91      -       -           -
LGA    L      92      -       -           -
LGA    K      93      -       -           -
LGA    V      94      -       -           -
LGA    D      95      -       -           -
LGA    G      96      -       -           -
LGA    G      97      -       -           -
LGA    I      98      -       -           -
LGA    V      99      -       -           -
LGA    A     100      -       -           -
LGA    Y     101      -       -           -
LGA    L     102      -       -           -
LGA    G     103      -       -           -
LGA    T     104      -       -           -
LGA    A     105      -       -           -
LGA    N     106      K      93           #
LGA    S     107      V      94          1.952
LGA    A     108      -       -           -
LGA    N     109      D      95          1.895
LGA    Y     110      G      96          5.008
LGA    L     111      -       -           -
LGA    V     112      -       -           -
LGA    S     113      -       -           -
LGA    D     114      -       -           -
LGA    G     115      -       -           -
LGA    I     116      -       -           -
LGA    K     117      G      97          2.688
LGA    M     118      I      98          2.795
LGA    L     119      V      99          3.540
LGA    P     120      A     100          0.950
LGA    V     121      Y     101          4.198
LGA    -       -      L     102           -
LGA    -       -      G     103           -
LGA    -       -      T     104           -
LGA    -       -      A     105           -
LGA    -       -      N     106           -
LGA    -       -      S     107           -
LGA    -       -      A     108           -
LGA    -       -      N     109           -
LGA    -       -      Y     110           -
LGA    -       -      L     111           -
LGA    -       -      V     112           -
LGA    -       -      S     113           -
LGA    -       -      D     114           -
LGA    -       -      G     115           -
LGA    -       -      I     116           -
LGA    -       -      K     117           -
LGA    -       -      M     118           -
LGA    -       -      L     119           -
LGA    -       -      P     120           -
LGA    -       -      V     121           -
LGA    S     122      S     122          4.238
LGA    A     123      A     123          2.214
LGA    I     124      I     124          1.445
LGA    D     125      D     125          1.474
LGA    D     126      D     126          4.146
LGA    S     127      S     127          2.325
LGA    N     128      N     128          4.828
LGA    I     129      I     129          2.894
LGA    G     130      G     130          4.853
LGA    E     131      E     131          4.723
LGA    V     132      V     132          3.695
LGA    N     133      N     133          5.370
LGA    A     134      A     134           #
LGA    L     135      L     135          2.133
LGA    V     136      V     136          1.733
LGA    L     137      L     137          2.048
LGA    L     138      L     138          2.024
LGA    D     139      D     139          2.912
LGA    D     140      D     140          1.186
LGA    E     141      E     141          2.582
LGA    G     142      G     142          3.591
LGA    F     143      F     143           #
LGA    N     144      -       -           -
LGA    W     145      N     144          2.341
LGA    F     146      W     145          3.737
LGA    H     147      F     146           #
LGA    D     148      H     147          3.533
LGA    L     149      D     148          2.104
LGA    N     150      L     149          2.720
LGA    K     151      N     150          2.175
LGA    T     152      K     151          0.964
LGA    V     153      T     152          1.699
LGA    N     154      V     153          1.835
LGA    L     155      N     154          0.849
LGA    L     156      L     155          1.666
LGA    R     157      L     156          2.158
LGA    K     158      R     157          1.817
LGA    R     159      K     158          3.801
LGA    T     160      R     159          4.797
LGA    I     161      T     160          1.636
LGA    P     162      I     161          2.582
LGA    A     163      P     162          1.427
LGA    I     164      A     163          2.613
LGA    V     165      I     164          1.061
LGA    A     166      V     165          2.591
LGA    N     167      A     166          2.892
LGA    T     168      N     167          4.689
LGA    D     169      T     168           #
LGA    N     170      D     169           #
LGA    T     171      N     170          1.052
LGA    Y     172      T     171          2.980
LGA    P     173      Y     172          3.844
LGA    L     174      -       -           -
LGA    T     175      P     173          4.263
LGA    K     176      L     174          1.826
LGA    T     177      T     175           #
LGA    -       -      K     176           -
LGA    -       -      T     177           -
LGA    -       -      D     178           -
LGA    -       -      V     179           -
LGA    D     178      A     180          2.372
LGA    V     179      I     181          0.674
LGA    A     180      A     182          2.051
LGA    I     181      I     183          2.979
LGA    A     182      G     184          3.205
LGA    I     183      G     185           #
LGA    G     184      V     186           #
LGA    G     185      -       -           -
LGA    V     186      A     187          2.942
LGA    A     187      T     188           #
LGA    T     188      M     189           -
LGA    M     189      I     190           #
LGA    I     190      E     191          2.653
LGA    E     191      S     192           -
LGA    S     192      I     193           -
LGA    I     193      -       -           -
LGA    L     194      L     194          2.329
LGA    G     195      -       -           -
LGA    R     196      -       -           -
LGA    R     197      -       -           -
LGA    F     198      -       -           -
LGA    I     199      G     195           #
LGA    R     200      R     196           #
LGA    -       -      R     197           -
LGA    F     201      F     198          3.751
LGA    -       -      I     199           -
LGA    G     202      R     200          2.604
LGA    -       -      F     201           -
LGA    -       -      G     202           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  121  121    5.0     70    2.97    35.71     33.417     2.280

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.034521 * X  +   0.904056 * Y  +   0.426018 * Z  +  37.159126
  Y_new =  -0.483557 * X  +  -0.388163 * Y  +   0.784540 * Z  +   4.964460
  Z_new =   0.874632 * X  +  -0.178920 * Y  +   0.450563 * Z  + -55.809219 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.378008    2.763585  [ DEG:   -21.6582    158.3418 ]
  Theta =  -1.064676   -2.076917  [ DEG:   -61.0014   -118.9986 ]
  Phi   =  -1.642066    1.499527  [ DEG:   -94.0835     85.9165 ]
 
# 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: T0371TS168_3-D2                               
REMARK     2: T0371_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0371TS168_3-D2.T0371_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  121  121   5.0   70   2.97   35.71  33.417
REMARK  ---------------------------------------------------------- 
MOLECULE T0371TS168_3-D2
PFRMAT TS
TARGET T0371
MODEL 3
PARENT N/A
ATOM     82  CA  SER    82      42.047   4.500 -65.671  1.00 25.00           C
ATOM     83  CA  GLY    83      44.172   3.218 -62.753  1.00 25.00           C
ATOM     84  CA  MET    84      41.176   1.248 -61.406  1.00 25.00           C
ATOM     85  CA  ILE    85      40.585  -0.271 -64.872  1.00 25.00           C
ATOM     86  CA  THR    86      44.278  -1.259 -65.095  1.00 25.00           C
ATOM     87  CA  LYS    87      44.079  -2.882 -61.631  1.00 25.00           C
ATOM     88  CA  GLU    88      40.948  -4.815 -62.691  1.00 25.00           C
ATOM     89  CA  TYR    89      42.728  -6.006 -65.866  1.00 25.00           C
ATOM     90  CA  ILE    90      45.734  -7.144 -63.784  1.00 25.00           C
ATOM     91  CA  ASP    91      43.403  -9.043 -61.412  1.00 25.00           C
ATOM     92  CA  LEU    92      41.699 -10.731 -64.397  1.00 25.00           C
ATOM     93  CA  LYS    93      44.306 -13.541 -64.012  1.00 25.00           C
ATOM     94  CA  VAL    94      44.624 -15.565 -60.823  1.00 25.00           C
ATOM     95  CA  ASP    95      42.196 -18.038 -59.165  1.00 25.00           C
ATOM     96  CA  GLY    96      40.212 -15.265 -57.389  1.00 25.00           C
ATOM     97  CA  GLY    97      39.175 -11.943 -55.938  1.00 25.00           C
ATOM     98  CA  ILE    98      36.857  -9.554 -54.038  1.00 25.00           C
ATOM     99  CA  VAL    99      39.105  -6.572 -54.561  1.00 25.00           C
ATOM    100  CA  ALA   100      40.798  -4.067 -56.841  1.00 25.00           C
ATOM    101  CA  TYR   101      42.229  -0.540 -57.177  1.00 25.00           C
ATOM    102  CA  LEU   102      45.193   1.753 -57.995  1.00 25.00           C
ATOM    103  CA  GLY   103      47.971  -0.804 -57.351  1.00 25.00           C
ATOM    104  CA  THR   104      51.421   0.032 -58.724  1.00 25.00           C
ATOM    105  CA  ALA   105      52.463   3.152 -60.666  1.00 25.00           C
ATOM    106  CA  ASN   106      48.931   1.937 -61.513  1.00 25.00           C
ATOM    107  CA  SER   107      48.706   4.494 -64.356  1.00 25.00           C
ATOM    108  CA  ALA   108      52.096   3.329 -65.704  1.00 25.00           C
ATOM    109  CA  ASN   109      50.925  -0.314 -65.575  1.00 25.00           C
ATOM    110  CA  TYR   110      47.721   0.624 -67.453  1.00 25.00           C
ATOM    111  CA  LEU   111      49.786   2.449 -70.112  1.00 25.00           C
ATOM    112  CA  VAL   112      52.053  -0.614 -70.491  1.00 25.00           C
ATOM    113  CA  SER   113      48.981  -2.868 -70.882  1.00 25.00           C
ATOM    114  CA  ASP   114      48.777  -6.696 -70.421  1.00 25.00           C
ATOM    115  CA  GLY   115      52.256  -6.438 -68.863  1.00 25.00           C
ATOM    116  CA  ILE   116      50.470  -7.948 -65.840  1.00 25.00           C
ATOM    117  CA  LYS   117      50.318  -5.105 -63.317  1.00 25.00           C
ATOM    118  CA  MET   118      48.156  -5.435 -60.204  1.00 25.00           C
ATOM    119  CA  LEU   119      45.505  -5.767 -57.540  1.00 25.00           C
ATOM    120  CA  PRO   120      47.411  -4.921 -54.413  1.00 25.00           C
ATOM    121  CA  VAL   121      46.954  -8.045 -52.208  1.00 25.00           C
ATOM    122  CA  SER   122      49.756 -10.486 -52.799  1.00 25.00           C
ATOM    123  CA  ALA   123      53.166 -12.161 -52.776  1.00 25.00           C
ATOM    124  CA  ILE   124      54.290  -9.099 -50.791  1.00 25.00           C
ATOM    125  CA  ASP   125      57.705 -10.489 -51.388  1.00 25.00           C
ATOM    126  CA  ASP   126      60.332 -11.916 -53.700  1.00 25.00           C
ATOM    127  CA  SER   127      61.584 -10.514 -56.981  1.00 25.00           C
ATOM    128  CA  ASN   128      62.217  -6.758 -56.529  1.00 25.00           C
ATOM    129  CA  ILE   129      59.223  -4.488 -57.047  1.00 25.00           C
ATOM    130  CA  GLY   130      57.234  -6.277 -54.343  1.00 25.00           C
ATOM    131  CA  GLU   131      54.076  -5.306 -56.116  1.00 25.00           C
ATOM    132  CA  VAL   132      52.880  -2.265 -54.263  1.00 25.00           C
ATOM    133  CA  ASN   133      52.070   1.448 -54.337  1.00 25.00           C
ATOM    134  CA  ALA   134      50.067   4.371 -52.963  1.00 25.00           C
ATOM    135  CA  LEU   135      47.228   1.830 -53.131  1.00 25.00           C
ATOM    136  CA  VAL   136      44.726  -0.960 -53.063  1.00 25.00           C
ATOM    137  CA  LEU   137      41.160  -1.960 -52.239  1.00 25.00           C
ATOM    138  CA  LEU   138      38.215  -3.249 -50.138  1.00 25.00           C
ATOM    139  CA  ASP   139      36.558  -1.967 -46.910  1.00 25.00           C
ATOM    140  CA  ASP   140      37.725  -5.282 -45.455  1.00 25.00           C
ATOM    141  CA  GLU   141      39.201  -8.533 -46.758  1.00 25.00           C
ATOM    142  CA  GLY   142      38.733 -10.053 -43.335  1.00 25.00           C
ATOM    143  CA  PHE   143      37.941  -7.382 -40.758  1.00 25.00           C
ATOM    144  CA  ASN   144      40.874  -7.410 -38.338  1.00 25.00           C
ATOM    145  CA  TRP   145      43.095  -8.580 -41.179  1.00 25.00           C
ATOM    146  CA  PHE   146      42.268  -5.350 -43.064  1.00 25.00           C
ATOM    147  CA  HIS   147      44.575  -3.371 -40.734  1.00 25.00           C
ATOM    148  CA  ASP   148      47.382  -5.910 -41.319  1.00 25.00           C
ATOM    149  CA  LEU   149      46.882  -5.629 -45.106  1.00 25.00           C
ATOM    150  CA  ASN   150      47.030  -1.809 -44.866  1.00 25.00           C
ATOM    151  CA  LYS   151      50.262  -2.038 -42.823  1.00 25.00           C
ATOM    152  CA  THR   152      51.773  -4.400 -45.432  1.00 25.00           C
ATOM    153  CA  VAL   153      50.799  -1.971 -48.229  1.00 25.00           C
ATOM    154  CA  ASN   154      52.408   0.925 -46.308  1.00 25.00           C
ATOM    155  CA  LEU   155      55.605  -1.130 -45.839  1.00 25.00           C
ATOM    156  CA  LEU   156      55.668  -1.935 -49.583  1.00 25.00           C
ATOM    157  CA  ARG   157      55.231   1.779 -50.412  1.00 25.00           C
ATOM    158  CA  LYS   158      58.103   2.672 -48.041  1.00 25.00           C
ATOM    159  CA  ARG   159      60.125   5.526 -49.509  1.00 25.00           C
ATOM    160  CA  THR   160      57.012   6.855 -51.339  1.00 25.00           C
ATOM    161  CA  ILE   161      54.663   5.994 -54.204  1.00 25.00           C
ATOM    162  CA  PRO   162      52.796   7.225 -57.294  1.00 25.00           C
ATOM    163  CA  ALA   163      49.026   7.190 -56.967  1.00 25.00           C
ATOM    164  CA  ILE   164      45.939   6.550 -54.792  1.00 25.00           C
ATOM    165  CA  VAL   165      42.528   4.871 -54.935  1.00 25.00           C
ATOM    166  CA  ALA   166      39.639   2.552 -54.121  1.00 25.00           C
ATOM    167  CA  ASN   167      38.994   5.687 -52.185  1.00 25.00           C
ATOM    168  CA  THR   168      39.734   7.428 -48.901  1.00 25.00           C
ATOM    169  CA  ASP   169      38.044   7.473 -45.535  1.00 25.00           C
ATOM    170  CA  ASN   170      37.522   5.764 -42.107  1.00 25.00           C
ATOM    171  CA  THR   171      33.880   4.798 -41.926  1.00 25.00           C
ATOM    172  CA  TYR   172      31.315   2.412 -43.255  1.00 25.00           C
ATOM    173  CA  PRO   173      29.438  -0.606 -44.732  1.00 25.00           C
ATOM    174  CA  LEU   174      30.436  -3.221 -42.135  1.00 25.00           C
ATOM    175  CA  THR   175      26.836  -3.831 -40.931  1.00 25.00           C
ATOM    176  CA  LYS   176      27.037  -2.695 -37.352  1.00 25.00           C
ATOM    177  CA  THR   177      30.127  -4.379 -36.036  1.00 25.00           C
ATOM    178  CA  ASP   178      33.412  -2.488 -36.682  1.00 25.00           C
ATOM    179  CA  VAL   179      34.405  -0.246 -39.602  1.00 25.00           C
ATOM    180  CA  ALA   180      36.300   0.812 -42.727  1.00 25.00           C
ATOM    181  CA  ILE   181      35.463   2.814 -45.832  1.00 25.00           C
ATOM    182  CA  ALA   182      36.317   4.127 -49.305  1.00 25.00           C
ATOM    183  CA  ILE   183      38.997   2.231 -47.468  1.00 25.00           C
ATOM    184  CA  GLY   184      41.970  -0.087 -48.138  1.00 25.00           C
ATOM    185  CA  GLY   185      43.389   2.421 -50.662  1.00 25.00           C
ATOM    186  CA  VAL   186      43.001   5.248 -48.106  1.00 25.00           C
ATOM    187  CA  ALA   187      44.796   3.137 -45.462  1.00 25.00           C
ATOM    188  CA  THR   188      47.638   2.423 -47.927  1.00 25.00           C
ATOM    189  CA  MET   189      47.935   6.160 -48.707  1.00 25.00           C
ATOM    190  CA  ILE   190      48.068   6.956 -44.963  1.00 25.00           C
ATOM    191  CA  GLU   191      50.804   4.321 -44.475  1.00 25.00           C
ATOM    192  CA  SER   192      52.799   5.820 -47.380  1.00 25.00           C
ATOM    193  CA  ILE   193      52.449   9.313 -45.850  1.00 25.00           C
ATOM    194  CA  LEU   194      53.653   7.980 -42.468  1.00 25.00           C
ATOM    195  CA  GLY   195      52.601   8.019 -38.872  1.00 25.00           C
ATOM    196  CA  ARG   196      49.176   7.112 -40.238  1.00 25.00           C
ATOM    197  CA  ARG   197      47.510   3.646 -40.334  1.00 25.00           C
ATOM    198  CA  PHE   198      44.491   5.502 -41.670  1.00 25.00           C
ATOM    199  CA  ILE   199      44.552   9.273 -42.232  1.00 25.00           C
ATOM    200  CA  ARG   200      42.624   9.511 -45.500  1.00 25.00           C
ATOM    201  CA  PHE   201      43.255  11.213 -48.843  1.00 25.00           C
ATOM    202  CA  GLY   202      40.293  11.008 -51.134  1.00 25.00           C
TER
END
