REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0074AL084_1 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : DIFRANCESCO 
REMARK  ---------------------------------------------------------- 
TARGET T0074  
AUTHOR 7278-7379-8158  
METHOD  The method is based on a combination of hidden Markov models and  
METHOD  secondary structure prediction. Each HMM represents a structural family  
METHOD  of proteins and it is trained from known secondary structure sequences  
METHOD  of proteins belonging to the structural family.  
METHOD  Secondary structure prediction is performed for the target sequence  
METHOD  using several types of prediction algorithms (GOR, QL, PHD, etc.). The  
METHOD  predicted fold of the target protein is the fold described by the HMM  
METHOD  that fits one (or most) of the predicted secondary structure sequences  
METHOD  the best.  
METHOD  At present the library consists of about 300 HMMs  
METHOD  Di Francesco et al. JMB (1997) 267, 446-463  
METHOD  Di Francesco et al. Proteins, Supplement 1 (1997) 123-128  
REMARK  Chosen model: 1fliA, which is a non bundle small helical protein  
REMARK  with a helix-loop-helix motif which resembles the motif of  
REMARK  calcium binding proteins. 1fliA is a DNA binding protein.  
REMARK  The sec. structure prediction used for the alignment is a  
REMARK  SIMPA prediction w/o homologues.  
MODEL   1  
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1fli_A 
ATOM      1  N   GLU   127      -0.451   0.661  -7.072  1.00  0.00              
ATOM      2  CA  GLU   127      -1.231  -0.448  -6.464  1.00  0.00              
ATOM      3  C   GLU   127      -1.520  -0.076  -5.013  1.00  0.00              
ATOM      4  O   GLU   127      -1.133   0.979  -4.550  1.00  0.00              
ATOM      5  N   ASP   128      -2.199  -0.912  -4.284  1.00  0.00              
ATOM      6  CA  ASP   128      -2.494  -0.560  -2.872  1.00  0.00              
ATOM      7  C   ASP   128      -1.466  -1.217  -1.946  1.00  0.00              
ATOM      8  O   ASP   128      -0.350  -0.753  -1.818  1.00  0.00              
ATOM      9  N   LYS   129      -1.832  -2.287  -1.287  1.00  0.00              
ATOM     10  CA  LYS   129      -0.871  -2.951  -0.366  1.00  0.00              
ATOM     11  C   LYS   129       0.174  -3.730  -1.170  1.00  0.00              
ATOM     12  O   LYS   129       1.170  -4.175  -0.636  1.00  0.00              
ATOM     13  N   ALA   130      -0.035  -3.885  -2.448  1.00  0.00              
ATOM     14  CA  ALA   130       0.964  -4.620  -3.274  1.00  0.00              
ATOM     15  C   ALA   130       2.222  -3.761  -3.391  1.00  0.00              
ATOM     16  O   ALA   130       3.287  -4.124  -2.925  1.00  0.00              
ATOM     17  N   LYS   131       2.103  -2.611  -3.993  1.00  0.00              
ATOM     18  CA  LYS   131       3.281  -1.713  -4.123  1.00  0.00              
ATOM     19  C   LYS   131       3.821  -1.416  -2.725  1.00  0.00              
ATOM     20  O   LYS   131       5.002  -1.205  -2.531  1.00  0.00              
ATOM     21  N   TYR   132       2.955  -1.411  -1.749  1.00  0.00              
ATOM     22  CA  TYR   132       3.393  -1.145  -0.358  1.00  0.00              
ATOM     23  C   TYR   132       4.304  -2.293   0.085  1.00  0.00              
ATOM     24  O   TYR   132       5.292  -2.091   0.761  1.00  0.00              
ATOM     25  N   ASP   133       3.980  -3.496  -0.304  1.00  0.00              
ATOM     26  CA  ASP   133       4.831  -4.654   0.080  1.00  0.00              
ATOM     27  C   ASP   133       6.233  -4.434  -0.480  1.00  0.00              
ATOM     28  O   ASP   133       7.224  -4.628   0.198  1.00  0.00              
ATOM     29  N   ALA   134       6.325  -4.017  -1.714  1.00  0.00              
ATOM     30  CA  ALA   134       7.665  -3.772  -2.314  1.00  0.00              
ATOM     31  C   ALA   134       8.452  -2.833  -1.399  1.00  0.00              
ATOM     32  O   ALA   134       9.572  -3.114  -1.021  1.00  0.00              
ATOM     33  N   ILE   135       7.870  -1.724  -1.029  1.00  0.00              
ATOM     34  CA  ILE   135       8.583  -0.776  -0.129  1.00  0.00              
ATOM     35  C   ILE   135       9.046  -1.529   1.120  1.00  0.00              
ATOM     36  O   ILE   135      10.170  -1.389   1.563  1.00  0.00              
ATOM     37  N   PHE   136       8.190  -2.337   1.687  1.00  0.00              
ATOM     38  CA  PHE   136       8.585  -3.106   2.900  1.00  0.00              
ATOM     39  C   PHE   136       9.902  -3.829   2.625  1.00  0.00              
ATOM     40  O   PHE   136      10.775  -3.892   3.468  1.00  0.00              
ATOM     41  N   ASP   137      10.059  -4.369   1.446  1.00  0.00              
ATOM     42  CA  ASP   137      11.327  -5.073   1.117  1.00  0.00              
ATOM     43  C   ASP   137      12.466  -4.053   1.138  1.00  0.00              
ATOM     44  O   ASP   137      13.540  -4.310   1.644  1.00  0.00              
ATOM     45  N   SER   138      12.226  -2.888   0.600  1.00  0.00              
ATOM     46  CA  SER   138      13.278  -1.835   0.595  1.00  0.00              
ATOM     47  C   SER   138      13.105  -0.961   1.837  1.00  0.00              
ATOM     48  O   SER   138      13.628   0.132   1.915  1.00  0.00              
ATOM     49  N   GLY   144       8.186   4.180   7.011  1.00  0.00              
ATOM     50  CA  GLY   144       6.778   4.488   6.628  1.00  0.00              
ATOM     51  C   GLY   144       5.911   3.255   6.886  1.00  0.00              
ATOM     52  O   GLY   144       4.805   3.352   7.378  1.00  0.00              
ATOM     53  N   PHE   145       6.411   2.096   6.560  1.00  0.00              
ATOM     54  CA  PHE   145       5.629   0.849   6.787  1.00  0.00              
ATOM     55  C   PHE   145       6.597  -0.316   6.994  1.00  0.00              
ATOM     56  O   PHE   145       7.539  -0.488   6.246  1.00  0.00              
ATOM     57  N   LEU   146       6.381  -1.116   8.001  1.00  0.00              
ATOM     58  CA  LEU   146       7.303  -2.262   8.242  1.00  0.00              
ATOM     59  C   LEU   146       6.586  -3.339   9.058  1.00  0.00              
ATOM     60  O   LEU   146       5.440  -3.190   9.435  1.00  0.00              
ATOM     61  N   SER   147       7.254  -4.425   9.335  1.00  0.00              
ATOM     62  CA  SER   147       6.616  -5.520  10.128  1.00  0.00              
ATOM     63  C   SER   147       6.994  -5.365  11.602  1.00  0.00              
ATOM     64  O   SER   147       7.696  -6.185  12.162  1.00  0.00              
ATOM     65  N   GLY   148       6.533  -4.323  12.238  1.00  0.00              
ATOM     66  CA  GLY   148       6.866  -4.124  13.678  1.00  0.00              
ATOM     67  C   GLY   148       6.094  -5.141  14.520  1.00  0.00              
ATOM     68  O   GLY   148       4.926  -5.391  14.293  1.00  0.00              
ATOM     69  N   ASP   149       6.735  -5.733  15.490  1.00  0.00              
ATOM     70  CA  ASP   149       6.038  -6.734  16.342  1.00  0.00              
ATOM     71  C   ASP   149       7.056  -7.761  16.831  1.00  0.00              
ATOM     72  O   ASP   149       6.939  -8.300  17.914  1.00  0.00              
ATOM     73  N   LYS   150       8.058  -8.033  16.040  1.00  0.00              
ATOM     74  CA  LYS   150       9.088  -9.020  16.459  1.00  0.00              
ATOM     75  C   LYS   150       8.424 -10.389  16.661  1.00  0.00              
ATOM     76  O   LYS   150       9.000 -11.300  17.219  1.00  0.00              
ATOM     77  N   VAL   151       7.213 -10.542  16.197  1.00  0.00              
ATOM     78  CA  VAL   151       6.513 -11.848  16.354  1.00  0.00              
ATOM     79  C   VAL   151       5.740 -12.169  15.073  1.00  0.00              
ATOM     80  O   VAL   151       5.689 -13.301  14.636  1.00  0.00              
ATOM     81  N   LYS   152       5.136 -11.182  14.471  1.00  0.00              
ATOM     82  CA  LYS   152       4.363 -11.430  13.221  1.00  0.00              
ATOM     83  C   LYS   152       3.329 -10.319  13.031  1.00  0.00              
ATOM     84  O   LYS   152       3.280  -9.370  13.789  1.00  0.00              
ATOM     85  N   PRO   153       2.501 -10.428  12.029  1.00  0.00              
ATOM     86  CA  PRO   153       1.471  -9.377  11.797  1.00  0.00              
ATOM     87  C   PRO   153       2.148  -8.103  11.287  1.00  0.00              
ATOM     88  O   PRO   153       2.822  -7.412  12.025  1.00  0.00              
ATOM     89  N   VAL   154       1.971  -7.782  10.034  1.00  0.00              
ATOM     90  CA  VAL   154       2.604  -6.547   9.493  1.00  0.00              
ATOM     91  C   VAL   154       2.176  -5.356  10.351  1.00  0.00              
ATOM     92  O   VAL   154       1.304  -5.471  11.189  1.00  0.00              
ATOM     93  N   LEU   155       2.781  -4.215  10.164  1.00  0.00              
ATOM     94  CA  LEU   155       2.391  -3.039  10.992  1.00  0.00              
ATOM     95  C   LEU   155       2.422  -1.760  10.156  1.00  0.00              
ATOM     96  O   LEU   155       3.411  -1.434   9.525  1.00  0.00              
ATOM     97  N   LEU   156       1.343  -1.021  10.165  1.00  0.00              
ATOM     98  CA  LEU   156       1.296   0.253   9.396  1.00  0.00              
ATOM     99  C   LEU   156       1.196   1.413  10.384  1.00  0.00              
ATOM    100  O   LEU   156       0.619   1.287  11.446  1.00  0.00              
ATOM    101  N   ASN   157       1.770   2.535  10.055  1.00  0.00              
ATOM    102  CA  ASN   157       1.722   3.686  10.995  1.00  0.00              
ATOM    103  C   ASN   157       1.803   5.006  10.219  1.00  0.00              
ATOM    104  O   ASN   157       1.177   5.984  10.578  1.00  0.00              
ATOM    105  N   LEU   160       2.567   5.044   9.163  1.00  0.00              
ATOM    106  CA  LEU   160       2.679   6.303   8.376  1.00  0.00              
ATOM    107  C   LEU   160       2.097   6.084   6.976  1.00  0.00              
ATOM    108  O   LEU   160       2.826   6.044   6.005  1.00  0.00              
ATOM    109  N   PRO   161       0.795   5.949   6.915  1.00  0.00              
ATOM    110  CA  PRO   161       0.101   5.737   5.654  1.00  0.00              
ATOM    111  C   PRO   161       0.135   7.015   4.813  1.00  0.00              
ATOM    112  O   PRO   161      -0.278   7.030   3.671  1.00  0.00              
ATOM    113  N   VAL   162       0.626   8.089   5.369  1.00  0.00              
ATOM    114  CA  VAL   162       0.687   9.363   4.602  1.00  0.00              
ATOM    115  C   VAL   162       1.830   9.289   3.589  1.00  0.00              
ATOM    116  O   VAL   162       1.724   9.785   2.486  1.00  0.00              
ATOM    117  N   ASP   163       2.920   8.668   3.950  1.00  0.00              
ATOM    118  CA  ASP   163       4.058   8.560   2.997  1.00  0.00              
ATOM    119  C   ASP   163       3.599   7.784   1.763  1.00  0.00              
ATOM    120  O   ASP   163       3.844   8.177   0.640  1.00  0.00              
ATOM    121  N   ILE   164       2.924   6.685   1.967  1.00  0.00              
ATOM    122  CA  ILE   164       2.439   5.887   0.807  1.00  0.00              
ATOM    123  C   ILE   164       1.414   6.714   0.029  1.00  0.00              
ATOM    124  O   ILE   164       1.512   6.876  -1.173  1.00  0.00              
ATOM    125  N   LEU   165       0.433   7.255   0.699  1.00  0.00              
ATOM    126  CA  LEU   165      -0.568   8.073  -0.028  1.00  0.00              
ATOM    127  C   LEU   165       0.190   9.125  -0.843  1.00  0.00              
ATOM    128  O   LEU   165      -0.227   9.536  -1.909  1.00  0.00              
ATOM    129  N   GLY   166       1.328   9.545  -0.362  1.00  0.00              
ATOM    130  CA  GLY   166       2.121  10.533  -1.136  1.00  0.00              
ATOM    131  C   GLY   166       2.452   9.872  -2.467  1.00  0.00              
ATOM    132  O   GLY   166       2.274  10.438  -3.527  1.00  0.00              
ATOM    133  N   ARG   167       2.906   8.649  -2.406  1.00  0.00              
ATOM    134  CA  ARG   167       3.223   7.904  -3.649  1.00  0.00              
ATOM    135  C   ARG   167       2.058   8.066  -4.627  1.00  0.00              
ATOM    136  O   ARG   167       2.248   8.110  -5.824  1.00  0.00              
ATOM    137  N   VAL   168       0.851   8.166  -4.125  1.00  0.00              
ATOM    138  CA  VAL   168      -0.323   8.340  -5.042  1.00  0.00              
ATOM    139  C   VAL   168      -0.184   9.667  -5.770  1.00  0.00              
ATOM    140  O   VAL   168      -0.065   9.724  -6.976  1.00  0.00              
ATOM    141  N   TRP   169      -0.206  10.736  -5.025  1.00  0.00              
ATOM    142  CA  TRP   169      -0.079  12.089  -5.644  1.00  0.00              
ATOM    143  C   TRP   169       0.974  12.032  -6.747  1.00  0.00              
ATOM    144  O   TRP   169       0.919  12.761  -7.717  1.00  0.00              
ATOM    145  N   GLU   170       1.928  11.159  -6.603  1.00  0.00              
ATOM    146  CA  GLU   170       2.991  11.025  -7.633  1.00  0.00              
ATOM    147  C   GLU   170       2.437  10.250  -8.834  1.00  0.00              
ATOM    148  O   GLU   170       2.584  10.654  -9.971  1.00  0.00              
ATOM    149  N   LEU   171       1.799   9.138  -8.585  1.00  0.00              
ATOM    150  CA  LEU   171       1.228   8.328  -9.697  1.00  0.00              
ATOM    151  C   LEU   171      -0.098   8.944 -10.150  1.00  0.00              
ATOM    152  O   LEU   171      -0.220   9.440 -11.253  1.00  0.00              
ATOM    153  N   SER   172      -1.094   8.914  -9.307  1.00  0.00              
ATOM    154  CA  SER   172      -2.413   9.496  -9.687  1.00  0.00              
ATOM    155  C   SER   172      -2.233  10.960 -10.092  1.00  0.00              
ATOM    156  O   SER   172      -2.761  11.408 -11.091  1.00  0.00              
ATOM    157  N   ASP   173      -1.495  11.713  -9.322  1.00  0.00              
ATOM    158  CA  ASP   173      -1.286  13.150  -9.661  1.00  0.00              
ATOM    159  C   ASP   173      -2.542  13.946  -9.298  1.00  0.00              
ATOM    160  O   ASP   173      -2.884  14.913  -9.948  1.00  0.00              
ATOM    161  N   LEU   180      -7.015  14.420  -3.319  1.00  0.00              
ATOM    162  CA  LEU   180      -7.011  13.332  -2.302  1.00  0.00              
ATOM    163  C   LEU   180      -5.606  12.735  -2.199  1.00  0.00              
ATOM    164  O   LEU   180      -4.796  12.872  -3.095  1.00  0.00              
ATOM    165  N   ASP   181      -5.310  12.073  -1.113  1.00  0.00              
ATOM    166  CA  ASP   181      -3.957  11.469  -0.955  1.00  0.00              
ATOM    167  C   ASP   181      -4.076  10.137  -0.210  1.00  0.00              
ATOM    168  O   ASP   181      -3.753   9.090  -0.735  1.00  0.00              
ATOM    169  N   ARG   182      -4.539  10.169   1.010  1.00  0.00              
ATOM    170  CA  ARG   182      -4.679   8.905   1.787  1.00  0.00              
ATOM    171  C   ARG   182      -6.155   8.658   2.102  1.00  0.00              
ATOM    172  O   ARG   182      -6.503   7.714   2.784  1.00  0.00              
ATOM    173  N   ASP   183      -7.028   9.493   1.608  1.00  0.00              
ATOM    174  CA  ASP   183      -8.479   9.296   1.879  1.00  0.00              
ATOM    175  C   ASP   183      -8.939   7.989   1.229  1.00  0.00              
ATOM    176  O   ASP   183      -9.400   7.082   1.894  1.00  0.00              
ATOM    177  N   GLU   184      -8.809   7.883  -0.065  1.00  0.00              
ATOM    178  CA  GLU   184      -9.231   6.632  -0.754  1.00  0.00              
ATOM    179  C   GLU   184      -8.342   5.477  -0.292  1.00  0.00              
ATOM    180  O   GLU   184      -8.706   4.322  -0.385  1.00  0.00              
ATOM    181  N   PHE   185      -7.177   5.783   0.213  1.00  0.00              
ATOM    182  CA  PHE   185      -6.266   4.706   0.686  1.00  0.00              
ATOM    183  C   PHE   185      -6.896   3.993   1.882  1.00  0.00              
ATOM    184  O   PHE   185      -7.081   2.793   1.875  1.00  0.00              
ATOM    185  N   ALA   186      -7.229   4.725   2.909  1.00  0.00              
ATOM    186  CA  ALA   186      -7.850   4.092   4.106  1.00  0.00              
ATOM    187  C   ALA   186      -9.136   3.373   3.692  1.00  0.00              
ATOM    188  O   ALA   186      -9.326   2.205   3.976  1.00  0.00              
ATOM    189  N   VAL   187     -10.020   4.059   3.019  1.00  0.00              
ATOM    190  CA  VAL   187     -11.289   3.410   2.587  1.00  0.00              
ATOM    191  C   VAL   187     -10.970   2.048   1.969  1.00  0.00              
ATOM    192  O   VAL   187     -11.679   1.081   2.169  1.00  0.00              
ATOM    193  N   ALA   188      -9.901   1.963   1.224  1.00  0.00              
ATOM    194  CA  ALA   188      -9.530   0.663   0.600  1.00  0.00              
ATOM    195  C   ALA   188      -9.083  -0.310   1.690  1.00  0.00              
ATOM    196  O   ALA   188      -9.431  -1.472   1.679  1.00  0.00              
ATOM    197  N   MET   189      -8.316   0.158   2.638  1.00  0.00              
ATOM    198  CA  MET   189      -7.850  -0.741   3.729  1.00  0.00              
ATOM    199  C   MET   189      -9.033  -1.555   4.254  1.00  0.00              
ATOM    200  O   MET   189      -8.965  -2.763   4.368  1.00  0.00              
ATOM    201  N   PHE   190     -10.120  -0.906   4.567  1.00  0.00              
ATOM    202  CA  PHE   190     -11.307  -1.650   5.078  1.00  0.00              
ATOM    203  C   PHE   190     -11.804  -2.609   3.994  1.00  0.00              
ATOM    204  O   PHE   190     -12.028  -3.779   4.239  1.00  0.00              
ATOM    205  N   LEU   191     -11.975  -2.124   2.794  1.00  0.00              
ATOM    206  CA  LEU   191     -12.453  -3.007   1.693  1.00  0.00              
ATOM    207  C   LEU   191     -11.491  -4.186   1.536  1.00  0.00              
ATOM    208  O   LEU   191     -11.815  -5.189   0.934  1.00  0.00              
ATOM    209  N   VAL   192     -10.309  -4.073   2.080  1.00  0.00              
ATOM    210  CA  VAL   192      -9.327  -5.188   1.967  1.00  0.00              
ATOM    211  C   VAL   192      -9.637  -6.234   3.034  1.00  0.00              
ATOM    212  O   VAL   192      -9.655  -7.420   2.768  1.00  0.00              
ATOM    213  N   TYR   193      -9.892  -5.806   4.238  1.00  0.00              
ATOM    214  CA  TYR   193     -10.213  -6.780   5.315  1.00  0.00              
ATOM    215  C   TYR   193     -11.429  -7.600   4.889  1.00  0.00              
ATOM    216  O   TYR   193     -11.556  -8.763   5.219  1.00  0.00              
ATOM    217  N   CYS   194     -12.319  -7.005   4.141  1.00  0.00              
ATOM    218  CA  CYS   194     -13.521  -7.751   3.675  1.00  0.00              
ATOM    219  C   CYS   194     -13.152  -8.556   2.427  1.00  0.00              
ATOM    220  O   CYS   194     -13.791  -9.535   2.094  1.00  0.00              
ATOM    221  N   ALA   195     -12.120  -8.150   1.738  1.00  0.00              
ATOM    222  CA  ALA   195     -11.697  -8.889   0.515  1.00  0.00              
ATOM    223  C   ALA   195     -10.795 -10.059   0.906  1.00  0.00              
ATOM    224  O   ALA   195     -10.129 -10.645   0.077  1.00  0.00              
ATOM    225  N   LEU   196     -10.763 -10.404   2.165  1.00  0.00              
ATOM    226  CA  LEU   196      -9.895 -11.533   2.601  1.00  0.00              
ATOM    227  C   LEU   196      -8.475 -11.269   2.108  1.00  0.00              
ATOM    228  O   LEU   196      -7.671 -12.170   1.972  1.00  0.00              
ATOM    229  N   GLU   197      -8.167 -10.032   1.834  1.00  0.00              
ATOM    230  CA  GLU   197      -6.808  -9.689   1.341  1.00  0.00              
ATOM    231  C   GLU   197      -5.859  -9.508   2.525  1.00  0.00              
ATOM    232  O   GLU   197      -4.703  -9.878   2.466  1.00  0.00              
END
