
#######################################################
#                                                     #
#                        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  141 (  141),  selected  141 , name T0329TS168_1-D1
# Molecule2: number of CA atoms  141 ( 1070),  selected  141 , name T0329_D1.pdb
# PARAMETERS: T0329TS168_1-D1.T0329_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    K       2      K       2          4.115
LGA    Y       3      Y       3          1.909
LGA    K       4      K       4          5.067
LGA    A       5      A       5          3.405
LGA    A       6      A       6          3.245
LGA    I       7      I       7          4.265
LGA    F       8      F       8          2.657
LGA    D       9      D       9          4.476
LGA    M      10      M      10          1.951
LGA    D      11      D      11          1.979
LGA    G      12      G      12          5.113
LGA    T      13      T      13          2.525
LGA    I      14      I      14          1.926
LGA    L      15      L      15          1.205
LGA    D      16      D      16          2.815
LGA    G     109      G     109          3.523
LGA    P     110      P     110          3.077
LGA    F     111      F     111          1.121
LGA    P     112      P     112          2.763
LGA    G     113      G     113          4.916
LGA    I     114      I     114          1.179
LGA    L     115      L     115          1.125
LGA    D     116      D     116          0.874
LGA    L     117      L     117          0.914
LGA    M     118      M     118          0.799
LGA    K     119      K     119          0.848
LGA    N     120      N     120          1.539
LGA    L     121      L     121          1.770
LGA    R     122      R     122          0.890
LGA    Q     123      Q     123          1.152
LGA    K     124      K     124          1.223
LGA    G     125      G     125          0.791
LGA    V     126      V     126          1.573
LGA    K     127      K     127          1.490
LGA    L     128      L     128          1.582
LGA    A     129      A     129          2.409
LGA    V     130      V     130          2.701
LGA    V     131      V     131          2.926
LGA    S     132      S     132          0.512
LGA    N     133      N     133          2.299
LGA    K     134      K     134          4.928
LGA    P     135      P     135          2.544
LGA    N     136      N     136          1.129
LGA    E     137      E     137          0.964
LGA    A     138      A     138          1.952
LGA    V     139      V     139          2.280
LGA    Q     140      Q     140          1.910
LGA    V     141      V     141          2.768
LGA    L     142      L     142          3.932
LGA    V     143      V     143          3.585
LGA    E     144      E     144          2.775
LGA    E     145      E     145          4.775
LGA    L     146      L     146           #
LGA    F     147      F     147          4.313
LGA    P     148      P     148          1.983
LGA    G     149      G     149           #
LGA    S     150      S     150          3.235
LGA    F     151      F     151          3.589
LGA    D     152      D     152          2.451
LGA    F     153      F     153          2.705
LGA    A     154      A     154          1.375
LGA    L     155      L     155          2.400
LGA    G     156      G     156          2.220
LGA    R     163      R     163          3.482
LGA    K     164      K     164          4.759
LGA    P     165      P     165          2.887
LGA    A     166      A     166          3.561
LGA    P     167      P     167          1.957
LGA    D     168      D     168          1.304
LGA    M     169      M     169          1.207
LGA    T     170      T     170          1.283
LGA    S     171      S     171          1.184
LGA    E     172      E     172          1.168
LGA    C     173      C     173          1.291
LGA    V     174      V     174          1.061
LGA    K     175      K     175          1.217
LGA    V     176      V     176          1.619
LGA    L     177      L     177          1.058
LGA    G     178      G     178          1.562
LGA    V     179      V     179          3.176
LGA    P     180      P     180          3.065
LGA    R     181      R     181          3.765
LGA    D     182      D     182          3.326
LGA    K     183      K     183          2.904
LGA    C     184      C     184          3.226
LGA    V     185      V     185          1.782
LGA    Y     186      Y     186          2.707
LGA    I     187      I     187          2.227
LGA    G     188      G     188          2.925
LGA    D     189      D     189          0.183
LGA    S     190      S     190          1.929
LGA    E     191      E     191          2.877
LGA    I     192      I     192          2.785
LGA    D     193      D     193          2.012
LGA    I     194      I     194          1.317
LGA    Q     195      Q     195          1.424
LGA    T     196      T     196          1.418
LGA    A     197      A     197          0.902
LGA    R     198      R     198          1.185
LGA    N     199      N     199          0.685
LGA    S     200      S     200          0.603
LGA    E     201      E     201          1.647
LGA    M     202      M     202          1.899
LGA    D     203      D     203           -
LGA    E     204      E     204           #
LGA    I     205      I     205           #
LGA    A     206      -       -           -
LGA    V     207      A     206           #
LGA    N     208      V     207          5.293
LGA    W     209      N     208          3.389
LGA    G     210      W     209          1.885
LGA    F     211      G     210          1.700
LGA    R     212      F     211          3.178
LGA    -       -      R     212           -
LGA    S     213      S     213          1.025
LGA    V     214      V     214          0.967
LGA    P     215      P     215          1.422
LGA    F     216      F     216          2.146
LGA    L     217      L     217          1.897
LGA    Q     218      Q     218          1.014
LGA    K     219      K     219          2.068
LGA    H     220      H     220          3.667
LGA    G     221      G     221          2.504
LGA    A     222      A     222          3.386
LGA    T     223      T     223          3.229
LGA    V     224      V     224          2.850
LGA    I     225      I     225          2.581
LGA    V     226      V     226          1.777
LGA    D     227      D     227          1.656
LGA    T     228      T     228          1.999
LGA    A     229      A     229          1.649
LGA    E     230      E     230          3.284
LGA    K     231      K     231          3.156
LGA    L     232      L     232          2.325
LGA    E     233      E     233          3.913
LGA    E     234      -       -           -
LGA    A     235      E     234          4.337
LGA    I     236      A     235          2.851
LGA    -       -      I     236           -
LGA    -       -      L     237           -
LGA    L     237      G     238          1.695
LGA    G     238      E     239          4.167
LGA    E     239      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  141    5.0    131    2.61    93.13     57.157     4.838

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.159322 * X  +  -0.003273 * Y  +   0.987221 * Z  +  -3.114081
  Y_new =  -0.965638 * X  +   0.208503 * Y  +  -0.155147 * Z  +  11.246326
  Z_new =  -0.205331 * X  +  -0.978016 * Y  +  -0.036379 * Z  +  38.420860 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.607976    1.533616  [ DEG:   -92.1303     87.8697 ]
  Theta =   0.206802    2.934791  [ DEG:    11.8489    168.1511 ]
  Phi   =  -1.734314    1.407278  [ DEG:   -99.3689     80.6311 ]
 
# 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: T0329TS168_1-D1                               
REMARK     2: T0329_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0329TS168_1-D1.T0329_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  141   5.0  131   2.61   93.13  57.157
REMARK  ---------------------------------------------------------- 
MOLECULE T0329TS168_1-D1
PFRMAT TS
TARGET T0329
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      22.478  -2.464  27.992  1.00 25.00           C
ATOM      2  CA  LYS     2      20.438  -1.182  30.936  1.00 25.00           C
ATOM      3  CA  TYR     3      18.400   1.055  33.232  1.00 25.00           C
ATOM      4  CA  LYS     4      14.708   0.359  34.031  1.00 25.00           C
ATOM      5  CA  ALA     5      14.460   3.032  36.745  1.00 25.00           C
ATOM      6  CA  ALA     6      10.829   2.452  37.708  1.00 25.00           C
ATOM      7  CA  ILE     7       8.062   4.962  38.109  1.00 25.00           C
ATOM      8  CA  PHE     8       7.200   8.190  39.846  1.00 25.00           C
ATOM      9  CA  ASP     9       5.055  11.295  40.336  1.00 25.00           C
ATOM     10  CA  MET    10       1.410  12.386  40.400  1.00 25.00           C
ATOM     11  CA  ASP    11      -2.314  11.919  40.544  1.00 25.00           C
ATOM     12  CA  GLY    12      -2.074   9.678  37.428  1.00 25.00           C
ATOM     13  CA  THR    13      -0.487   7.006  39.667  1.00 25.00           C
ATOM     14  CA  ILE    14       2.733   6.966  41.772  1.00 25.00           C
ATOM     15  CA  LEU    15       0.490   8.509  44.388  1.00 25.00           C
ATOM     16  CA  ASP    16      -3.101   7.133  44.060  1.00 25.00           C
ATOM    109  CA  GLY   109      -1.228   8.952  54.035  1.00 25.00           C
ATOM    110  CA  PRO   110      -0.579   7.661  50.485  1.00 25.00           C
ATOM    111  CA  PHE   111       0.046   4.045  49.460  1.00 25.00           C
ATOM    112  CA  PRO   112       1.795   3.503  52.761  1.00 25.00           C
ATOM    113  CA  GLY   113       4.831   5.076  50.985  1.00 25.00           C
ATOM    114  CA  ILE   114       6.975   4.267  47.957  1.00 25.00           C
ATOM    115  CA  LEU   115       9.910   5.205  50.232  1.00 25.00           C
ATOM    116  CA  ASP   116      11.364   1.683  49.851  1.00 25.00           C
ATOM    117  CA  LEU   117      11.027   1.930  46.044  1.00 25.00           C
ATOM    118  CA  MET   118      12.793   5.328  46.083  1.00 25.00           C
ATOM    119  CA  LYS   119      15.619   3.863  48.212  1.00 25.00           C
ATOM    120  CA  ASN   120      15.974   0.935  45.769  1.00 25.00           C
ATOM    121  CA  LEU   121      16.127   3.378  42.824  1.00 25.00           C
ATOM    122  CA  ARG   122      18.821   5.419  44.626  1.00 25.00           C
ATOM    123  CA  GLN   123      20.835   2.228  45.280  1.00 25.00           C
ATOM    124  CA  LYS   124      20.384   0.329  42.011  1.00 25.00           C
ATOM    125  CA  GLY   125      22.042   3.453  40.475  1.00 25.00           C
ATOM    126  CA  VAL   126      19.131   5.095  38.644  1.00 25.00           C
ATOM    127  CA  LYS   127      16.151   7.428  38.504  1.00 25.00           C
ATOM    128  CA  LEU   128      12.531   8.293  39.215  1.00 25.00           C
ATOM    129  CA  ALA   129      11.016   9.655  36.017  1.00 25.00           C
ATOM    130  CA  VAL   130       7.504  11.000  35.618  1.00 25.00           C
ATOM    131  CA  VAL   131       4.522  11.406  33.277  1.00 25.00           C
ATOM    132  CA  SER   132       2.973  13.775  35.776  1.00 25.00           C
ATOM    133  CA  ASN   133      -0.355  13.179  33.931  1.00 25.00           C
ATOM    134  CA  LYS   134       0.176  16.743  32.755  1.00 25.00           C
ATOM    135  CA  PRO   135       0.408  18.765  36.013  1.00 25.00           C
ATOM    136  CA  ASN   136       2.592  21.786  36.950  1.00 25.00           C
ATOM    137  CA  GLU   137       2.605  22.772  40.650  1.00 25.00           C
ATOM    138  CA  ALA   138       1.195  19.340  41.596  1.00 25.00           C
ATOM    139  CA  VAL   139       3.900  17.624  39.499  1.00 25.00           C
ATOM    140  CA  GLN   140       6.601  19.730  41.213  1.00 25.00           C
ATOM    141  CA  VAL   141       5.186  18.793  44.647  1.00 25.00           C
ATOM    142  CA  LEU   142       5.206  15.089  43.671  1.00 25.00           C
ATOM    143  CA  VAL   143       8.843  15.390  42.509  1.00 25.00           C
ATOM    144  CA  GLU   144       9.789  17.067  45.819  1.00 25.00           C
ATOM    145  CA  GLU   145       8.054  14.260  47.764  1.00 25.00           C
ATOM    146  CA  LEU   146       9.940  11.636  45.710  1.00 25.00           C
ATOM    147  CA  PHE   147      13.250  13.431  46.409  1.00 25.00           C
ATOM    148  CA  PRO   148      12.444  13.509  50.153  1.00 25.00           C
ATOM    149  CA  GLY   149      11.643   9.764  50.084  1.00 25.00           C
ATOM    150  CA  SER   150      14.957   9.065  48.296  1.00 25.00           C
ATOM    151  CA  PHE   151      15.174   9.934  44.633  1.00 25.00           C
ATOM    152  CA  ASP   152      15.133  12.101  41.473  1.00 25.00           C
ATOM    153  CA  PHE   153      12.266  13.318  39.347  1.00 25.00           C
ATOM    154  CA  ALA   154       9.378  15.177  37.753  1.00 25.00           C
ATOM    155  CA  LEU   155       9.153  17.321  34.599  1.00 25.00           C
ATOM    156  CA  GLY   156       5.379  18.010  34.586  1.00 25.00           C
ATOM    163  CA  ARG   163      -2.813  16.824  26.683  1.00 25.00           C
ATOM    164  CA  LYS   164      -3.736  14.095  29.167  1.00 25.00           C
ATOM    165  CA  PRO   165      -2.192  11.809  26.591  1.00 25.00           C
ATOM    166  CA  ALA   166       1.173  13.415  27.068  1.00 25.00           C
ATOM    167  CA  PRO   167       4.446  13.077  25.063  1.00 25.00           C
ATOM    168  CA  ASP   168       6.026  16.532  25.549  1.00 25.00           C
ATOM    169  CA  MET   169       6.231  15.934  29.326  1.00 25.00           C
ATOM    170  CA  THR   170       7.888  12.535  28.723  1.00 25.00           C
ATOM    171  CA  SER   171      10.416  14.159  26.350  1.00 25.00           C
ATOM    172  CA  GLU   172      11.190  16.842  28.971  1.00 25.00           C
ATOM    173  CA  CYS   173      11.702  14.133  31.629  1.00 25.00           C
ATOM    174  CA  VAL   174      14.059  12.239  29.279  1.00 25.00           C
ATOM    175  CA  LYS   175      16.037  15.453  28.632  1.00 25.00           C
ATOM    176  CA  VAL   176      16.302  16.078  32.400  1.00 25.00           C
ATOM    177  CA  LEU   177      17.540  12.493  32.934  1.00 25.00           C
ATOM    178  CA  GLY   178      20.376  13.206  30.568  1.00 25.00           C
ATOM    179  CA  VAL   179      21.634   9.843  31.810  1.00 25.00           C
ATOM    180  CA  PRO   180      20.806   7.950  28.598  1.00 25.00           C
ATOM    181  CA  ARG   181      17.629   8.700  26.780  1.00 25.00           C
ATOM    182  CA  ASP   182      15.936   5.291  26.361  1.00 25.00           C
ATOM    183  CA  LYS   183      16.180   4.676  30.133  1.00 25.00           C
ATOM    184  CA  CYS   184      13.912   6.635  32.435  1.00 25.00           C
ATOM    185  CA  VAL   185      11.294   3.949  32.912  1.00 25.00           C
ATOM    186  CA  TYR   186       8.064   1.885  33.050  1.00 25.00           C
ATOM    187  CA  ILE   187       4.853   1.235  34.958  1.00 25.00           C
ATOM    188  CA  GLY   188       1.063   1.555  34.883  1.00 25.00           C
ATOM    189  CA  ASP   189      -1.915   3.270  36.383  1.00 25.00           C
ATOM    190  CA  SER   190      -3.932   5.701  34.351  1.00 25.00           C
ATOM    191  CA  GLU   191      -2.848   6.275  30.752  1.00 25.00           C
ATOM    192  CA  ILE   192      -0.419   9.185  30.206  1.00 25.00           C
ATOM    193  CA  ASP   193       2.537   6.917  31.095  1.00 25.00           C
ATOM    194  CA  ILE   194       1.277   4.269  28.630  1.00 25.00           C
ATOM    195  CA  GLN   195       0.955   6.933  25.896  1.00 25.00           C
ATOM    196  CA  THR   196       4.522   8.130  26.608  1.00 25.00           C
ATOM    197  CA  ALA   197       5.802   4.527  26.393  1.00 25.00           C
ATOM    198  CA  ARG   198       3.986   4.055  23.054  1.00 25.00           C
ATOM    199  CA  ASN   199       5.533   7.298  21.727  1.00 25.00           C
ATOM    200  CA  SER   200       8.803   7.848  23.587  1.00 25.00           C
ATOM    201  CA  GLU   201      10.761   4.606  24.043  1.00 25.00           C
ATOM    202  CA  MET   202      10.922   3.963  27.731  1.00 25.00           C
ATOM    203  CA  ASP   203      10.801   7.673  28.512  1.00 25.00           C
ATOM    204  CA  GLU   204       7.702   6.619  30.522  1.00 25.00           C
ATOM    205  CA  ILE   205       5.821   6.401  33.871  1.00 25.00           C
ATOM    206  CA  ALA   206       3.247   5.722  36.588  1.00 25.00           C
ATOM    207  CA  VAL   207       3.229   3.118  39.355  1.00 25.00           C
ATOM    208  CA  ASN   208       1.920   1.765  42.626  1.00 25.00           C
ATOM    209  CA  TRP   209      -0.906  -0.029  40.838  1.00 25.00           C
ATOM    210  CA  GLY   210      -2.741   0.600  44.109  1.00 25.00           C
ATOM    211  CA  PHE   211      -5.243   2.319  41.839  1.00 25.00           C
ATOM    212  CA  ARG   212      -6.365   1.702  38.268  1.00 25.00           C
ATOM    213  CA  SER   213      -8.239  -1.430  37.049  1.00 25.00           C
ATOM    214  CA  VAL   214      -6.265  -4.478  35.922  1.00 25.00           C
ATOM    215  CA  PRO   215      -8.594  -4.490  32.882  1.00 25.00           C
ATOM    216  CA  PHE   216      -7.504  -0.925  32.001  1.00 25.00           C
ATOM    217  CA  LEU   217      -3.825  -1.954  32.285  1.00 25.00           C
ATOM    218  CA  GLN   218      -4.466  -4.964  30.005  1.00 25.00           C
ATOM    219  CA  LYS   219      -6.194  -2.693  27.451  1.00 25.00           C
ATOM    220  CA  HIS   220      -3.213  -3.305  25.153  1.00 25.00           C
ATOM    221  CA  GLY   221      -1.463  -0.658  27.214  1.00 25.00           C
ATOM    222  CA  ALA   222       1.960  -0.732  28.933  1.00 25.00           C
ATOM    223  CA  THR   223       4.188  -3.740  28.255  1.00 25.00           C
ATOM    224  CA  VAL   224       4.913  -3.574  31.975  1.00 25.00           C
ATOM    225  CA  ILE   225       1.697  -3.301  33.865  1.00 25.00           C
ATOM    226  CA  VAL   226       1.971  -4.437  37.470  1.00 25.00           C
ATOM    227  CA  ASP   227      -0.112  -5.361  40.469  1.00 25.00           C
ATOM    228  CA  THR   228       1.668  -3.608  43.419  1.00 25.00           C
ATOM    229  CA  ALA   229       4.424  -3.206  45.963  1.00 25.00           C
ATOM    230  CA  GLU   230       5.195  -6.887  46.686  1.00 25.00           C
ATOM    231  CA  LYS   231       3.940  -7.861  43.201  1.00 25.00           C
ATOM    232  CA  LEU   232       6.139  -5.150  41.624  1.00 25.00           C
ATOM    233  CA  GLU   233       9.166  -6.427  43.592  1.00 25.00           C
ATOM    234  CA  GLU   234       8.450 -10.003  42.421  1.00 25.00           C
ATOM    235  CA  ALA   235       8.205  -8.793  38.796  1.00 25.00           C
ATOM    236  CA  ILE   236      11.542  -6.947  39.162  1.00 25.00           C
ATOM    237  CA  LEU   237      14.622  -8.190  37.427  1.00 25.00           C
ATOM    238  CA  GLY   238      12.217 -10.591  35.620  1.00 25.00           C
ATOM    239  CA  GLU   239      10.289  -7.969  33.641  1.00 25.00           C
TER
END
