
#######################################################
#                                                     #
#                        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  147 (  147),  selected  147 , name T0303TS168_1-D1
# Molecule2: number of CA atoms  147 ( 1151),  selected  147 , name T0303_D1.pdb
# PARAMETERS: T0303TS168_1-D1.T0303_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    T       2      M       1           #
LGA    Q       3      T       2          5.190
LGA    -       -      Q       3           -
LGA    F       4      F       4          1.476
LGA    K       5      K       5          1.454
LGA    L       6      L       6          1.409
LGA    I       7      I       7          2.738
LGA    G       8      G       8          1.517
LGA    F       9      F       9          4.822
LGA    D      10      D      10          4.196
LGA    L      11      L      11          1.506
LGA    D      12      D      12          2.531
LGA    G      13      G      13          1.590
LGA    T      14      T      14          2.170
LGA    L      15      L      15          2.359
LGA    V      16      V      16          2.785
LGA    N      17      N      17          3.479
LGA    R      95      R      95          4.083
LGA    L      96      L      96          2.992
LGA    Y      97      Y      97          3.127
LGA    P      98      P      98           #
LGA    N      99      N      99          2.013
LGA    V     100      V     100          1.090
LGA    K     101      K     101          0.887
LGA    E     102      E     102          1.461
LGA    T     103      T     103          1.763
LGA    L     104      L     104          0.940
LGA    E     105      E     105          1.466
LGA    A     106      A     106          2.210
LGA    L     107      L     107          1.800
LGA    K     108      K     108          1.662
LGA    A     109      A     109          2.713
LGA    Q     110      Q     110          1.333
LGA    G     111      G     111           #
LGA    Y     112      Y     112          3.189
LGA    I     113      I     113           #
LGA    L     114      L     114           #
LGA    A     115      A     115          4.918
LGA    V     116      V     116          4.866
LGA    V     117      V     117          4.648
LGA    T     118      T     118          2.923
LGA    N     119      N     119          1.956
LGA    K     120      K     120          2.589
LGA    P     121      P     121          1.544
LGA    T     122      T     122          1.358
LGA    K     123      K     123          2.134
LGA    H     124      H     124          1.332
LGA    V     125      V     125          1.204
LGA    Q     126      Q     126          2.821
LGA    P     127      P     127          2.752
LGA    I     128      I     128          2.441
LGA    L     129      L     129          3.113
LGA    T     130      T     130          4.005
LGA    A     131      A     131          4.038
LGA    F     132      F     132          2.694
LGA    G     133      G     133          1.961
LGA    I     134      I     134          0.913
LGA    D     135      D     135          4.750
LGA    H     136      H     136          4.372
LGA    L     137      L     137          2.717
LGA    F     138      F     138          3.486
LGA    S     139      S     139          3.921
LGA    E     140      -       -           -
LGA    M     141      E     140          3.251
LGA    L     142      M     141          2.563
LGA    G     143      L     142          1.117
LGA    G     144      G     143          2.343
LGA    Q     145      G     144          3.443
LGA    -       -      Q     145           -
LGA    S     146      S     146          3.368
LGA    L     147      L     147          3.166
LGA    P     148      P     148          2.497
LGA    E     149      E     149          3.120
LGA    I     150      I     150          2.935
LGA    K     151      K     151          1.784
LGA    P     152      P     152          2.136
LGA    H     153      H     153          2.357
LGA    P     154      P     154          2.322
LGA    A     155      A     155          2.601
LGA    P     156      P     156          2.604
LGA    F     157      F     157          2.675
LGA    Y     158      Y     158          2.581
LGA    Y     159      Y     159          2.669
LGA    L     160      L     160          3.305
LGA    C     161      C     161          3.240
LGA    G     162      G     162          3.115
LGA    K     163      K     163          3.423
LGA    F     164      F     164          3.117
LGA    G     165      G     165          3.397
LGA    L     166      L     166          2.278
LGA    Y     167      Y     167          4.654
LGA    P     168      P     168          2.916
LGA    K     169      K     169          2.922
LGA    Q     170      Q     170          3.544
LGA    I     171      I     171          1.899
LGA    L     172      L     172          2.200
LGA    F     173      F     173          2.228
LGA    V     174      V     174          2.007
LGA    G     175      G     175          2.093
LGA    D     176      D     176          1.111
LGA    S     177      S     177          0.719
LGA    Q     178      Q     178          0.884
LGA    N     179      N     179          0.967
LGA    D     180      D     180          0.719
LGA    I     181      I     181          1.328
LGA    F     182      F     182          1.480
LGA    A     183      A     183          1.398
LGA    A     184      A     184          2.212
LGA    H     185      H     185          2.577
LGA    S     186      S     186          2.843
LGA    A     187      A     187          2.756
LGA    G     188      G     188          1.781
LGA    C     189      C     189          1.478
LGA    A     190      A     190          1.108
LGA    V     191      V     191          0.572
LGA    V     192      V     192          0.979
LGA    G     193      G     193          1.386
LGA    L     194      L     194          2.709
LGA    T     195      T     195          3.363
LGA    Y     196      Y     196          2.690
LGA    G     197      G     197          3.032
LGA    Y     198      Y     198          4.137
LGA    N     199      N     199          4.421
LGA    Y     200      Y     200           -
LGA    N     201      N     201           #
LGA    I     202      I     202          4.698
LGA    P     203      P     203          3.560
LGA    I     204      I     204          1.251
LGA    A     205      A     205          1.813
LGA    Q     206      Q     206          2.032
LGA    S     207      S     207          2.928
LGA    K     208      K     208          3.764
LGA    P     209      P     209          2.398
LGA    D     210      D     210          2.585
LGA    W     211      W     211           #
LGA    I     212      I     212          2.447
LGA    F     213      F     213          3.793
LGA    D     214      D     214           #
LGA    D     215      D     215           #
LGA    -       -      F     216           -
LGA    F     216      A     217          5.293
LGA    A     217      D     218           #
LGA    D     218      -       -           -
LGA    I     219      I     219           #
LGA    L     220      L     220           -
LGA    K     221      K     221           -
LGA    I     222      I     222           -
LGA    T     223      T     223           -
LGA    Q     224      Q     224           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  147  147    5.0    127    2.78    95.28     53.212     4.411

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.317960 * X  +   0.582865 * Y  +  -0.747777 * Z  +  -9.254727
  Y_new =   0.557146 * X  +  -0.753027 * Y  +  -0.350055 * Z  +  79.330566
  Z_new =  -0.767131 * X  +  -0.305317 * Y  +  -0.564173 * Z  +  16.788452 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.645550    0.496043  [ DEG:  -151.5788     28.4212 ]
  Theta =   0.874357    2.267236  [ DEG:    50.0970    129.9030 ]
  Phi   =   1.052204   -2.089389  [ DEG:    60.2868   -119.7132 ]
 
# 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: T0303TS168_1-D1                               
REMARK     2: T0303_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0303TS168_1-D1.T0303_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  147  147   5.0  127   2.78   95.28  53.212
REMARK  ---------------------------------------------------------- 
MOLECULE T0303TS168_1-D1
PFRMAT TS
TARGET T0303
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1     -17.221  49.108   9.132  1.00 25.00           C
ATOM      2  CA  THR     2     -15.537  51.857   7.126  1.00 25.00           C
ATOM      3  CA  GLN     3     -15.970  55.426   8.302  1.00 25.00           C
ATOM      4  CA  PHE     4     -16.658  58.579  10.326  1.00 25.00           C
ATOM      5  CA  LYS     5     -15.680  58.292  14.017  1.00 25.00           C
ATOM      6  CA  LEU     6     -12.990  60.364  15.720  1.00 25.00           C
ATOM      7  CA  ILE     7     -12.433  64.158  15.944  1.00 25.00           C
ATOM      8  CA  GLY     8     -10.216  67.084  14.897  1.00 25.00           C
ATOM      9  CA  PHE     9      -8.542  68.475  18.014  1.00 25.00           C
ATOM     10  CA  ASP    10      -8.615  71.905  19.546  1.00 25.00           C
ATOM     11  CA  LEU    11     -10.135  75.304  20.115  1.00 25.00           C
ATOM     12  CA  ASP    12     -10.462  77.580  17.082  1.00 25.00           C
ATOM     13  CA  GLY    13     -13.321  79.571  15.554  1.00 25.00           C
ATOM     14  CA  THR    14     -16.213  77.484  14.375  1.00 25.00           C
ATOM     15  CA  LEU    15     -15.527  74.714  16.954  1.00 25.00           C
ATOM     16  CA  VAL    16     -14.866  77.121  19.859  1.00 25.00           C
ATOM     17  CA  ASN    17     -15.110  80.712  21.220  1.00 25.00           C
ATOM     95  CA  ARG    95     -19.807  81.189  26.411  1.00 25.00           C
ATOM     96  CA  LEU    96     -18.632  78.836  23.683  1.00 25.00           C
ATOM     97  CA  TYR    97     -20.053  80.281  20.502  1.00 25.00           C
ATOM     98  CA  PRO    98     -23.672  79.363  21.416  1.00 25.00           C
ATOM     99  CA  ASN    99     -24.248  77.483  18.120  1.00 25.00           C
ATOM    100  CA  VAL   100     -21.010  75.487  18.079  1.00 25.00           C
ATOM    101  CA  LYS   101     -22.426  73.355  20.927  1.00 25.00           C
ATOM    102  CA  GLU   102     -25.441  72.417  18.759  1.00 25.00           C
ATOM    103  CA  THR   103     -23.102  71.442  15.887  1.00 25.00           C
ATOM    104  CA  LEU   104     -21.025  69.287  18.277  1.00 25.00           C
ATOM    105  CA  GLU   105     -24.211  67.578  19.542  1.00 25.00           C
ATOM    106  CA  ALA   106     -25.307  66.895  15.937  1.00 25.00           C
ATOM    107  CA  LEU   107     -21.867  65.410  15.147  1.00 25.00           C
ATOM    108  CA  LYS   108     -22.091  63.177  18.250  1.00 25.00           C
ATOM    109  CA  ALA   109     -25.579  62.006  17.186  1.00 25.00           C
ATOM    110  CA  GLN   110     -24.707  58.783  15.305  1.00 25.00           C
ATOM    111  CA  GLY   111     -23.466  60.355  12.063  1.00 25.00           C
ATOM    112  CA  TYR   112     -20.166  60.805  13.842  1.00 25.00           C
ATOM    113  CA  ILE   113     -17.364  63.433  14.153  1.00 25.00           C
ATOM    114  CA  LEU   114     -16.757  67.158  14.569  1.00 25.00           C
ATOM    115  CA  ALA   115     -14.376  68.936  16.950  1.00 25.00           C
ATOM    116  CA  VAL   116     -11.945  71.761  15.965  1.00 25.00           C
ATOM    117  CA  VAL   117      -8.536  72.133  14.303  1.00 25.00           C
ATOM    118  CA  THR   118      -5.752  74.298  15.682  1.00 25.00           C
ATOM    119  CA  ASN   119      -2.433  74.231  17.510  1.00 25.00           C
ATOM    120  CA  LYS   120      -4.542  75.403  20.435  1.00 25.00           C
ATOM    121  CA  PRO   121      -2.856  76.509  23.634  1.00 25.00           C
ATOM    122  CA  THR   122      -2.424  72.997  25.056  1.00 25.00           C
ATOM    123  CA  LYS   123      -3.141  73.090  28.817  1.00 25.00           C
ATOM    124  CA  HIS   124      -5.457  76.101  28.326  1.00 25.00           C
ATOM    125  CA  VAL   125      -7.297  74.258  25.517  1.00 25.00           C
ATOM    126  CA  GLN   126      -7.702  71.185  27.765  1.00 25.00           C
ATOM    127  CA  PRO   127      -9.083  73.391  30.574  1.00 25.00           C
ATOM    128  CA  ILE   128     -11.558  74.994  28.131  1.00 25.00           C
ATOM    129  CA  LEU   129     -12.678  71.527  26.951  1.00 25.00           C
ATOM    130  CA  THR   130     -13.174  70.423  30.585  1.00 25.00           C
ATOM    131  CA  ALA   131     -15.242  73.570  31.284  1.00 25.00           C
ATOM    132  CA  PHE   132     -18.276  75.005  29.552  1.00 25.00           C
ATOM    133  CA  GLY   133     -20.661  72.011  29.986  1.00 25.00           C
ATOM    134  CA  ILE   134     -18.958  70.824  26.815  1.00 25.00           C
ATOM    135  CA  ASP   135     -19.779  67.248  27.956  1.00 25.00           C
ATOM    136  CA  HIS   136     -19.580  65.617  24.497  1.00 25.00           C
ATOM    137  CA  LEU   137     -16.633  67.882  23.572  1.00 25.00           C
ATOM    138  CA  PHE   138     -14.860  66.950  26.836  1.00 25.00           C
ATOM    139  CA  SER   139     -15.427  63.233  26.111  1.00 25.00           C
ATOM    140  CA  GLU   140     -14.007  63.679  22.582  1.00 25.00           C
ATOM    141  CA  MET   141     -11.288  66.382  22.306  1.00 25.00           C
ATOM    142  CA  LEU   142      -7.590  65.642  22.343  1.00 25.00           C
ATOM    143  CA  GLY   143      -4.516  67.894  22.742  1.00 25.00           C
ATOM    144  CA  GLY   144      -2.395  70.536  21.084  1.00 25.00           C
ATOM    145  CA  GLN   145       1.344  70.884  21.568  1.00 25.00           C
ATOM    146  CA  SER   146       2.531  67.254  21.451  1.00 25.00           C
ATOM    147  CA  LEU   147       5.122  67.879  18.693  1.00 25.00           C
ATOM    148  CA  PRO   148       8.057  70.338  18.719  1.00 25.00           C
ATOM    149  CA  GLU   149       5.876  72.589  16.558  1.00 25.00           C
ATOM    150  CA  ILE   150       2.918  73.875  14.511  1.00 25.00           C
ATOM    151  CA  LYS   151       0.044  74.021  11.937  1.00 25.00           C
ATOM    152  CA  PRO   152       1.950  72.816   8.854  1.00 25.00           C
ATOM    153  CA  HIS   153       2.538  69.069   8.373  1.00 25.00           C
ATOM    154  CA  PRO   154       0.646  68.661  11.648  1.00 25.00           C
ATOM    155  CA  ALA   155       2.149  67.277  14.887  1.00 25.00           C
ATOM    156  CA  PRO   156      -1.001  68.294  16.812  1.00 25.00           C
ATOM    157  CA  PHE   157      -3.193  66.572  14.185  1.00 25.00           C
ATOM    158  CA  TYR   158      -1.065  63.400  14.453  1.00 25.00           C
ATOM    159  CA  TYR   159      -1.395  63.470  18.268  1.00 25.00           C
ATOM    160  CA  LEU   160      -5.191  63.865  17.956  1.00 25.00           C
ATOM    161  CA  CYS   161      -5.325  60.905  15.530  1.00 25.00           C
ATOM    162  CA  GLY   162      -3.264  58.785  17.966  1.00 25.00           C
ATOM    163  CA  LYS   163      -5.629  59.729  20.827  1.00 25.00           C
ATOM    164  CA  PHE   164      -8.651  58.768  18.679  1.00 25.00           C
ATOM    165  CA  GLY   165      -7.373  55.204  18.314  1.00 25.00           C
ATOM    166  CA  LEU   166      -6.984  55.710  14.595  1.00 25.00           C
ATOM    167  CA  TYR   167      -9.854  55.674  12.166  1.00 25.00           C
ATOM    168  CA  PRO   168      -8.424  58.099   9.538  1.00 25.00           C
ATOM    169  CA  LYS   169     -11.531  58.166   7.299  1.00 25.00           C
ATOM    170  CA  GLN   170     -12.639  61.467   8.893  1.00 25.00           C
ATOM    171  CA  ILE   171     -10.026  63.182  10.986  1.00 25.00           C
ATOM    172  CA  LEU   172     -11.767  66.375   9.883  1.00 25.00           C
ATOM    173  CA  PHE   173     -11.627  70.110  10.666  1.00 25.00           C
ATOM    174  CA  VAL   174     -13.652  73.164  11.392  1.00 25.00           C
ATOM    175  CA  GLY   175     -11.386  76.014  12.407  1.00 25.00           C
ATOM    176  CA  ASP   176     -10.868  79.149  10.356  1.00 25.00           C
ATOM    177  CA  SER   177      -7.180  79.165   9.304  1.00 25.00           C
ATOM    178  CA  GLN   178      -6.022  77.439   6.133  1.00 25.00           C
ATOM    179  CA  ASN   179      -3.281  75.937   8.348  1.00 25.00           C
ATOM    180  CA  ASP   180      -5.913  73.957  10.303  1.00 25.00           C
ATOM    181  CA  ILE   181      -7.409  72.661   7.025  1.00 25.00           C
ATOM    182  CA  PHE   182      -3.929  71.607   5.824  1.00 25.00           C
ATOM    183  CA  ALA   183      -3.311  69.785   9.135  1.00 25.00           C
ATOM    184  CA  ALA   184      -6.677  67.987   8.801  1.00 25.00           C
ATOM    185  CA  HIS   185      -5.795  66.950   5.221  1.00 25.00           C
ATOM    186  CA  SER   186      -2.407  65.624   6.413  1.00 25.00           C
ATOM    187  CA  ALA   187      -4.451  62.597   7.475  1.00 25.00           C
ATOM    188  CA  GLY   188      -5.907  61.366   4.247  1.00 25.00           C
ATOM    189  CA  CYS   189      -9.027  63.019   5.530  1.00 25.00           C
ATOM    190  CA  ALA   190     -12.183  65.070   4.999  1.00 25.00           C
ATOM    191  CA  VAL   191     -11.973  68.829   5.528  1.00 25.00           C
ATOM    192  CA  VAL   192     -14.001  72.057   5.614  1.00 25.00           C
ATOM    193  CA  GLY   193     -14.574  75.587   6.737  1.00 25.00           C
ATOM    194  CA  LEU   194     -17.616  76.174   8.925  1.00 25.00           C
ATOM    195  CA  THR   195     -15.933  79.547   9.663  1.00 25.00           C
ATOM    196  CA  TYR   196     -18.517  81.939  11.214  1.00 25.00           C
ATOM    197  CA  GLY   197     -15.577  83.489  13.060  1.00 25.00           C
ATOM    198  CA  TYR   198     -13.191  83.706  10.109  1.00 25.00           C
ATOM    199  CA  ASN   199     -11.298  84.563   6.959  1.00 25.00           C
ATOM    200  CA  TYR   200     -13.880  83.553   4.367  1.00 25.00           C
ATOM    201  CA  ASN   201     -12.110  85.088   1.372  1.00 25.00           C
ATOM    202  CA  ILE   202      -9.043  84.662  -0.882  1.00 25.00           C
ATOM    203  CA  PRO   203      -7.025  83.311   2.079  1.00 25.00           C
ATOM    204  CA  ILE   204      -9.834  80.842   2.901  1.00 25.00           C
ATOM    205  CA  ALA   205      -9.921  79.685  -0.749  1.00 25.00           C
ATOM    206  CA  GLN   206      -6.123  79.191  -0.708  1.00 25.00           C
ATOM    207  CA  SER   207      -6.459  75.625  -1.946  1.00 25.00           C
ATOM    208  CA  LYS   208      -6.515  71.969  -0.933  1.00 25.00           C
ATOM    209  CA  PRO   209      -8.799  71.763   2.157  1.00 25.00           C
ATOM    210  CA  ASP   210     -11.608  71.576  -0.401  1.00 25.00           C
ATOM    211  CA  TRP   211     -11.568  75.183   0.841  1.00 25.00           C
ATOM    212  CA  ILE   212     -14.853  76.829   1.750  1.00 25.00           C
ATOM    213  CA  PHE   213     -18.558  77.793   1.873  1.00 25.00           C
ATOM    214  CA  ASP   214     -21.065  75.056   1.037  1.00 25.00           C
ATOM    215  CA  ASP   215     -21.716  73.940   4.604  1.00 25.00           C
ATOM    216  CA  PHE   216     -24.904  73.565   6.525  1.00 25.00           C
ATOM    217  CA  ALA   217     -26.691  76.065   4.238  1.00 25.00           C
ATOM    218  CA  ASP   218     -27.307  78.389   7.220  1.00 25.00           C
ATOM    219  CA  ILE   219     -23.611  78.155   8.196  1.00 25.00           C
ATOM    220  CA  LEU   220     -22.583  78.986   4.601  1.00 25.00           C
ATOM    221  CA  LYS   221     -24.940  82.004   4.599  1.00 25.00           C
ATOM    222  CA  ILE   222     -23.454  83.199   7.920  1.00 25.00           C
ATOM    223  CA  THR   223     -19.918  82.840   6.495  1.00 25.00           C
ATOM    224  CA  GLN   224     -18.030  86.127   6.734  1.00 25.00           C
TER
END
