
#######################################################
#                                                     #
#                        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_2-D2
# Molecule2: number of CA atoms  142 ( 1079),  selected  142 , name T0378_D2.pdb
# PARAMETERS: T0378TS168_2-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          1.948
LGA    L     101      L     101           #
LGA    T     102      T     102          3.722
LGA    L     103      L     103          2.309
LGA    L     104      L     104          3.484
LGA    L     105      L     105          1.151
LGA    D     106      D     106          1.105
LGA    G     107      G     107          1.435
LGA    V     108      V     108          2.444
LGA    Q     109      Q     109          2.342
LGA    D     110      D     110          1.231
LGA    P     111      P     111          1.915
LGA    G     112      G     112          1.859
LGA    N     113      N     113          2.046
LGA    V     114      V     114          1.794
LGA    G     115      G     115          1.386
LGA    T     116      T     116          1.775
LGA    I     117      I     117          1.767
LGA    L     118      L     118          1.307
LGA    R     119      R     119          1.197
LGA    T     120      T     120          1.435
LGA    A     121      A     121          1.382
LGA    D     122      D     122          1.145
LGA    W     123      W     123          1.269
LGA    F     124      F     124          0.966
LGA    G     125      G     125          2.038
LGA    I     126      I     126          2.586
LGA    R     127      R     127           #
LGA    H     128      H     128           #
LGA    V     129      V     129          3.917
LGA    W     130      W     130          2.253
LGA    L     131      L     131          4.540
LGA    G     132      -       -           -
LGA    T     133      G     132           #
LGA    G     134      T     133          3.390
LGA    S     135      G     134          2.665
LGA    A     136      S     135          3.944
LGA    D     137      A     136          2.988
LGA    V     138      D     137          1.151
LGA    F     139      V     138          2.583
LGA    -       -      F     139           -
LGA    S     140      S     140          2.090
LGA    P     141      P     141          1.879
LGA    K     142      K     142          2.018
LGA    V     143      V     143          0.879
LGA    V     144      V     144          0.664
LGA    Q     145      Q     145          1.854
LGA    A     146      A     146          2.074
LGA    S     147      S     147          1.135
LGA    M     148      M     148          1.592
LGA    G     149      G     149          2.610
LGA    A     150      A     150          2.684
LGA    L     151      L     151          2.110
LGA    A     152      A     152          4.885
LGA    R     153      R     153          3.603
LGA    V     154      V     154          2.193
LGA    Q     155      Q     155          2.496
LGA    P     156      P     156          2.370
LGA    T     157      T     157          4.546
LGA    P     158      P     158          4.647
LGA    L     159      L     159          4.807
LGA    K     160      K     160          3.876
LGA    N     161      N     161          0.786
LGA    T     162      T     162          0.930
LGA    V     163      V     163          3.091
LGA    D     164      D     164          3.941
LGA    T     165      T     165          2.479
LGA    L     166      L     166          1.723
LGA    A     167      A     167          4.571
LGA    Y     168      Y     168          4.937
LGA    F     169      F     169          2.488
LGA    R     170      R     170          3.509
LGA    R     171      R     171           #
LGA    Q     172      Q     172          4.011
LGA    G     173      G     173          2.900
LGA    I     174      I     174          2.373
LGA    P     175      P     175          2.667
LGA    V     176      V     176          1.787
LGA    Y     177      Y     177          0.835
LGA    G     178      G     178          0.591
LGA    A     179      A     179          1.898
LGA    F     180      F     180          4.564
LGA    L     181      L     181          4.492
LGA    D     182      D     182          1.059
LGA    G     183      -       -           -
LGA    Q     184      G     183          1.229
LGA    S     185      Q     184          2.174
LGA    L     186      S     185          1.803
LGA    Y     187      L     186          2.492
LGA    E     188      Y     187          2.439
LGA    A     189      -       -           -
LGA    P     190      E     188          1.038
LGA    L     191      A     189          1.233
LGA    P     192      P     190          1.929
LGA    N     193      -       -           -
LGA    F     194      L     191          1.378
LGA    T     195      P     192          2.294
LGA    E     196      N     193          3.645
LGA    -       -      F     194           -
LGA    -       -      T     195           -
LGA    -       -      E     196           -
LGA    P     197      P     197          4.568
LGA    A     198      A     198          2.522
LGA    I     199      I     199          3.298
LGA    L     200      L     200          3.083
LGA    V     201      V     201          1.814
LGA    L     202      L     202          1.543
LGA    G     203      G     203          2.091
LGA    S     204      S     204          1.299
LGA    E     205      E     205          1.766
LGA    G     206      G     206          0.865
LGA    R     207      R     207          0.803
LGA    G     208      G     208          1.271
LGA    I     209      I     209          1.346
LGA    S     210      S     210          1.153
LGA    P     211      P     211          0.629
LGA    E     212      E     212          2.140
LGA    V     213      V     213          1.785
LGA    A     214      A     214          1.643
LGA    A     215      A     215          2.408
LGA    E     216      E     216          2.375
LGA    I     217      I     217          2.625
LGA    T     218      T     218          3.465
LGA    D     219      D     219          4.520
LGA    R     220      R     220          4.363
LGA    L     221      L     221           #
LGA    T     222      T     222          5.075
LGA    I     223      I     223          3.589
LGA    L     237      L     237          1.565
LGA    N     238      N     238          1.643
LGA    V     239      V     239          1.149
LGA    A     240      A     240          0.976
LGA    I     241      I     241          0.172
LGA    A     242      A     242          0.795
LGA    T     243      T     243          0.964
LGA    A     244      A     244          0.510
LGA    I     245      I     245          1.073
LGA    L     246      L     246          1.546
LGA    C     247      C     247          0.862
LGA    S     248      S     248          1.001
LGA    E     249      E     249          2.198
LGA    W     250      W     250          1.737
LGA    R     251      R     251          0.680
LGA    R     252      R     252          2.536
LGA    R     253      R     253          2.237
LGA    S     254      S     254          1.236

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  142  142    5.0    132    2.50    87.88     57.838     5.076

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.562422 * X  +  -0.228557 * Y  +   0.794634 * Z  +  19.735518
  Y_new =  -0.253088 * X  +  -0.867326 * Y  +  -0.428594 * Z  +   8.775968
  Z_new =   0.787165 * X  +  -0.442163 * Y  +   0.429958 * Z  +  45.128716 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.799392    2.342201  [ DEG:   -45.8018    134.1982 ]
  Theta =  -0.906198   -2.235394  [ DEG:   -51.9213   -128.0787 ]
  Phi   =  -2.718742    0.422851  [ DEG:  -155.7724     24.2276 ]
 
# 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_2-D2                               
REMARK     2: T0378_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0378TS168_2-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  132   2.50   87.88  57.838
REMARK  ---------------------------------------------------------- 
MOLECULE T0378TS168_2-D2
PFRMAT TS
TARGET T0378
MODEL 2
PARENT N/A
ATOM    100  CA  GLY   100      18.613  -4.954  49.875  1.00 25.00           C
ATOM    101  CA  LEU   101      18.037  -1.299  48.977  1.00 25.00           C
ATOM    102  CA  THR   102      19.423   0.885  46.165  1.00 25.00           C
ATOM    103  CA  LEU   103      22.039   1.320  43.359  1.00 25.00           C
ATOM    104  CA  LEU   104      24.191   4.467  43.592  1.00 25.00           C
ATOM    105  CA  LEU   105      26.895   7.041  42.771  1.00 25.00           C
ATOM    106  CA  ASP   106      30.600   6.914  43.622  1.00 25.00           C
ATOM    107  CA  GLY   107      32.339  10.254  43.090  1.00 25.00           C
ATOM    108  CA  VAL   108      29.804  12.831  42.005  1.00 25.00           C
ATOM    109  CA  GLN   109      29.271  14.309  38.589  1.00 25.00           C
ATOM    110  CA  ASP   110      25.664  15.620  38.911  1.00 25.00           C
ATOM    111  CA  PRO   111      22.246  15.049  40.373  1.00 25.00           C
ATOM    112  CA  GLY   112      21.261  13.648  36.947  1.00 25.00           C
ATOM    113  CA  ASN   113      23.283  10.470  37.638  1.00 25.00           C
ATOM    114  CA  VAL   114      21.563  10.086  41.038  1.00 25.00           C
ATOM    115  CA  GLY   115      18.137  10.510  39.381  1.00 25.00           C
ATOM    116  CA  THR   116      19.044   7.858  36.770  1.00 25.00           C
ATOM    117  CA  ILE   117      20.153   5.467  39.550  1.00 25.00           C
ATOM    118  CA  LEU   118      16.858   6.061  41.410  1.00 25.00           C
ATOM    119  CA  ARG   119      14.891   5.358  38.199  1.00 25.00           C
ATOM    120  CA  THR   120      16.867   2.120  37.669  1.00 25.00           C
ATOM    121  CA  ALA   121      16.145   1.060  41.278  1.00 25.00           C
ATOM    122  CA  ASP   122      12.418   1.777  40.769  1.00 25.00           C
ATOM    123  CA  TRP   123      12.432  -0.300  37.551  1.00 25.00           C
ATOM    124  CA  PHE   124      14.451  -3.145  39.056  1.00 25.00           C
ATOM    125  CA  GLY   125      14.202  -3.820  42.807  1.00 25.00           C
ATOM    126  CA  ILE   126      17.567  -3.322  44.352  1.00 25.00           C
ATOM    127  CA  ARG   127      21.007  -3.589  45.892  1.00 25.00           C
ATOM    128  CA  HIS   128      23.152  -1.680  48.353  1.00 25.00           C
ATOM    129  CA  VAL   129      23.342   2.084  49.063  1.00 25.00           C
ATOM    130  CA  TRP   130      25.935   4.851  48.982  1.00 25.00           C
ATOM    131  CA  LEU   131      24.723   6.984  51.889  1.00 25.00           C
ATOM    132  CA  GLY   132      26.694   9.715  53.537  1.00 25.00           C
ATOM    133  CA  THR   133      27.487  13.189  52.348  1.00 25.00           C
ATOM    134  CA  GLY   134      29.992  14.641  49.884  1.00 25.00           C
ATOM    135  CA  SER   135      28.331  14.810  46.469  1.00 25.00           C
ATOM    136  CA  ALA   136      27.422  17.117  43.570  1.00 25.00           C
ATOM    137  CA  ASP   137      23.916  18.437  43.653  1.00 25.00           C
ATOM    138  CA  VAL   138      22.739  15.605  45.888  1.00 25.00           C
ATOM    139  CA  PHE   139      19.101  16.834  45.989  1.00 25.00           C
ATOM    140  CA  SER   140      19.156  19.991  43.793  1.00 25.00           C
ATOM    141  CA  PRO   141      16.077  20.620  41.652  1.00 25.00           C
ATOM    142  CA  LYS   142      17.167  18.438  38.699  1.00 25.00           C
ATOM    143  CA  VAL   143      17.381  15.385  41.003  1.00 25.00           C
ATOM    144  CA  VAL   144      13.872  16.126  42.350  1.00 25.00           C
ATOM    145  CA  GLN   145      12.534  16.420  38.774  1.00 25.00           C
ATOM    146  CA  ALA   146      14.164  13.075  37.863  1.00 25.00           C
ATOM    147  CA  SER   147      12.593  11.442  40.950  1.00 25.00           C
ATOM    148  CA  MET   148       9.370   9.773  39.824  1.00 25.00           C
ATOM    149  CA  GLY   149       9.814   7.898  43.069  1.00 25.00           C
ATOM    150  CA  ALA   150      12.904   6.324  44.612  1.00 25.00           C
ATOM    151  CA  LEU   151      13.861   9.822  45.842  1.00 25.00           C
ATOM    152  CA  ALA   152      12.867   8.865  49.414  1.00 25.00           C
ATOM    153  CA  ARG   153      12.691   5.080  49.746  1.00 25.00           C
ATOM    154  CA  VAL   154      15.901   4.088  47.992  1.00 25.00           C
ATOM    155  CA  GLN   155      18.029   6.492  50.014  1.00 25.00           C
ATOM    156  CA  PRO   156      20.434   9.034  48.412  1.00 25.00           C
ATOM    157  CA  THR   157      23.725  10.796  49.137  1.00 25.00           C
ATOM    158  CA  PRO   158      27.379   9.879  48.537  1.00 25.00           C
ATOM    159  CA  LEU   159      30.794   9.859  50.169  1.00 25.00           C
ATOM    160  CA  LYS   160      32.357  11.197  53.400  1.00 25.00           C
ATOM    161  CA  ASN   161      31.949   8.050  55.497  1.00 25.00           C
ATOM    162  CA  THR   162      32.003   5.474  52.712  1.00 25.00           C
ATOM    163  CA  VAL   163      34.015   3.463  55.277  1.00 25.00           C
ATOM    164  CA  ASP   164      30.951   3.277  57.569  1.00 25.00           C
ATOM    165  CA  THR   165      28.801   2.073  54.638  1.00 25.00           C
ATOM    166  CA  LEU   166      31.407  -0.604  53.794  1.00 25.00           C
ATOM    167  CA  ALA   167      31.449  -1.750  57.449  1.00 25.00           C
ATOM    168  CA  TYR   168      27.624  -1.955  57.454  1.00 25.00           C
ATOM    169  CA  PHE   169      27.706  -4.019  54.228  1.00 25.00           C
ATOM    170  CA  ARG   170      30.298  -6.378  55.774  1.00 25.00           C
ATOM    171  CA  ARG   171      28.112  -6.775  58.892  1.00 25.00           C
ATOM    172  CA  GLN   172      26.866  -9.792  57.064  1.00 25.00           C
ATOM    173  CA  GLY   173      27.956 -10.902  53.609  1.00 25.00           C
ATOM    174  CA  ILE   174      26.261  -8.351  51.415  1.00 25.00           C
ATOM    175  CA  PRO   175      29.351  -6.388  50.173  1.00 25.00           C
ATOM    176  CA  VAL   176      29.769  -3.903  47.366  1.00 25.00           C
ATOM    177  CA  TYR   177      30.790  -4.084  43.765  1.00 25.00           C
ATOM    178  CA  GLY   178      32.271  -2.177  40.768  1.00 25.00           C
ATOM    179  CA  ALA   179      30.224  -1.722  37.577  1.00 25.00           C
ATOM    180  CA  PHE   180      32.557  -4.060  35.605  1.00 25.00           C
ATOM    181  CA  LEU   181      34.520  -4.193  32.401  1.00 25.00           C
ATOM    182  CA  ASP   182      37.994  -2.857  32.920  1.00 25.00           C
ATOM    183  CA  GLY   183      40.307  -5.895  33.365  1.00 25.00           C
ATOM    184  CA  GLN   184      37.721  -7.172  35.859  1.00 25.00           C
ATOM    185  CA  SER   185      34.252  -8.513  36.659  1.00 25.00           C
ATOM    186  CA  LEU   186      34.154  -9.340  32.964  1.00 25.00           C
ATOM    187  CA  TYR   187      30.719  -7.888  32.183  1.00 25.00           C
ATOM    188  CA  GLU   188      27.146  -9.062  32.087  1.00 25.00           C
ATOM    189  CA  ALA   189      26.039 -12.076  34.174  1.00 25.00           C
ATOM    190  CA  PRO   190      29.537 -13.604  33.870  1.00 25.00           C
ATOM    191  CA  LEU   191      30.188 -13.931  37.546  1.00 25.00           C
ATOM    192  CA  PRO   192      27.622 -16.666  38.137  1.00 25.00           C
ATOM    193  CA  ASN   193      27.806 -15.636  41.839  1.00 25.00           C
ATOM    194  CA  PHE   194      26.813 -11.996  41.494  1.00 25.00           C
ATOM    195  CA  THR   195      23.285 -13.426  41.726  1.00 25.00           C
ATOM    196  CA  GLU   196      22.901 -12.464  45.383  1.00 25.00           C
ATOM    197  CA  PRO   197      25.160  -9.710  46.723  1.00 25.00           C
ATOM    198  CA  ALA   198      25.288  -6.247  45.295  1.00 25.00           C
ATOM    199  CA  ILE   199      25.805  -2.682  44.053  1.00 25.00           C
ATOM    200  CA  LEU   200      27.218   0.561  45.570  1.00 25.00           C
ATOM    201  CA  VAL   201      28.432   1.717  42.203  1.00 25.00           C
ATOM    202  CA  LEU   202      28.932   3.606  38.961  1.00 25.00           C
ATOM    203  CA  GLY   203      31.780   5.827  37.777  1.00 25.00           C
ATOM    204  CA  SER   204      30.407   9.348  37.849  1.00 25.00           C
ATOM    205  CA  GLU   205      31.379   9.825  34.276  1.00 25.00           C
ATOM    206  CA  GLY   206      34.400  12.070  34.543  1.00 25.00           C
ATOM    207  CA  ARG   207      37.367  10.829  36.575  1.00 25.00           C
ATOM    208  CA  GLY   208      36.781   7.126  37.342  1.00 25.00           C
ATOM    209  CA  ILE   209      36.768   6.034  41.029  1.00 25.00           C
ATOM    210  CA  SER   210      38.286   6.911  44.404  1.00 25.00           C
ATOM    211  CA  PRO   211      41.131   4.386  44.500  1.00 25.00           C
ATOM    212  CA  GLU   212      39.791   2.754  47.696  1.00 25.00           C
ATOM    213  CA  VAL   213      36.366   2.285  46.047  1.00 25.00           C
ATOM    214  CA  ALA   214      38.030   0.695  42.985  1.00 25.00           C
ATOM    215  CA  ALA   215      40.010  -1.666  45.257  1.00 25.00           C
ATOM    216  CA  GLU   216      36.792  -2.642  47.091  1.00 25.00           C
ATOM    217  CA  ILE   217      35.064  -5.855  46.033  1.00 25.00           C
ATOM    218  CA  THR   218      38.282  -6.413  44.045  1.00 25.00           C
ATOM    219  CA  ASP   219      37.390  -4.988  40.667  1.00 25.00           C
ATOM    220  CA  ARG   220      37.289  -1.997  38.336  1.00 25.00           C
ATOM    221  CA  LEU   221      34.718   0.365  36.813  1.00 25.00           C
ATOM    222  CA  THR   222      33.124   0.679  33.333  1.00 25.00           C
ATOM    223  CA  ILE   223      30.569  -0.358  30.768  1.00 25.00           C
ATOM    237  CA  LEU   237      28.747   5.790  28.972  1.00 25.00           C
ATOM    238  CA  ASN   238      27.232   8.900  30.544  1.00 25.00           C
ATOM    239  CA  VAL   239      26.995   7.360  33.985  1.00 25.00           C
ATOM    240  CA  ALA   240      23.204   6.921  33.669  1.00 25.00           C
ATOM    241  CA  ILE   241      23.716   4.172  31.052  1.00 25.00           C
ATOM    242  CA  ALA   242      26.212   2.407  33.359  1.00 25.00           C
ATOM    243  CA  THR   243      23.716   2.610  36.257  1.00 25.00           C
ATOM    244  CA  ALA   244      20.969   1.146  34.025  1.00 25.00           C
ATOM    245  CA  ILE   245      23.301  -1.708  32.984  1.00 25.00           C
ATOM    246  CA  LEU   246      24.121  -2.411  36.658  1.00 25.00           C
ATOM    247  CA  CYS   247      20.386  -2.473  37.504  1.00 25.00           C
ATOM    248  CA  SER   248      19.747  -4.907  34.618  1.00 25.00           C
ATOM    249  CA  GLU   249      22.586  -7.159  35.855  1.00 25.00           C
ATOM    250  CA  TRP   250      21.122  -7.102  39.394  1.00 25.00           C
ATOM    251  CA  ARG   251      17.673  -8.028  38.009  1.00 25.00           C
ATOM    252  CA  ARG   252      19.218 -10.923  36.033  1.00 25.00           C
ATOM    253  CA  ARG   253      19.476 -13.451  38.827  1.00 25.00           C
ATOM    254  CA  SER   254      16.270 -13.436  40.753  1.00 25.00           C
TER
END
