REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0075AL009_2 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : XU-YING 
REMARK  ---------------------------------------------------------- 
TARGET T0075  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0075, Ets-1 (fragment)  
REMARK  
METHOD This prediction is based, in part, on a threading algorithm described in  
METHOD three publications:  
METHOD (i) "An Efficient Computational Method for Globally Optimal Threading",  
METHOD by Y. Xu, D. Xu, and E.C. Uberbacher, Journal of Computational Biology,   
METHOD Vol. 5(3), pp. 609-626, 1998.  
METHOD (ii) "A New Method for Modeling and Solving the Protein Fold Recognition  
METHOD Problem", by Y. Xu, D. Xu, and E.C. Uberbacher, Proc. of RECOMB 98  
METHOD Second Annual Int'l Conf. on Computational Molecular Biology  
METHOD March 22-25, 1998, NEW York, NY, ACM Press, pp. 285-292.  
METHOD (iii) "A polynomial-time algorithm for a class of protein threading  
METHOD problems", by Ying Xu and Edward C. Uberbacher, CABIOS, Vol. 12 (6),  
METHOD pp.511-517, 1996.  
METHOD  
METHOD  
METHOD The prediction is also based, in part, on a different threading algorithm  
METHOD described in the following publication:  
METHOD (iv) "A fast, reliable method for threading", by O.H. Crawford, submitted  
METHOD to Bioinformatics (journal)  
METHOD  
METHOD  
METHOD The energy model employed in the threading is based on improvements and  
METHOD extensions of the energy modeling described in Refs. (ii) and (iii)  
METHOD and in the following paper:  
METHOD (v) "Protein Fold Recognition at the Secondary Structure Level",  
METHOD by D. Xu, M.A. Unseren, Y. Xu, and E.C. Uberbacher, Submitted.  
METHOD  
METHOD  
METHOD  
METHOD Members of Oak Ridge National Laboratory's Computational Biosciences  
METHOD Section participating in CASP3  include (in alphabetical order):  
METHOD Oakley Crawford, J. Ralph Einstein, Frank W. Larimer, Richard Mural,  
METHOD Edward C. Uberbacher, Michael A. Unseren, Dong Xu, Ying Xu, and Ge Zhang  
MODEL  2   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 2stw_A 
ATOM      1  N   LYS    42     -84.002   5.461 -20.793  1.00  0.00              
ATOM      2  CA  LYS    42     -84.997   5.242 -19.725  1.00  0.00              
ATOM      3  C   LYS    42     -84.307   4.833 -18.424  1.00  0.00              
ATOM      4  O   LYS    42     -84.885   4.907 -17.357  1.00  0.00              
ATOM      5  N   GLU    43     -83.080   4.399 -18.494  1.00  0.00              
ATOM      6  CA  GLU    43     -82.378   3.989 -17.249  1.00  0.00              
ATOM      7  C   GLU    43     -82.440   5.137 -16.243  1.00  0.00              
ATOM      8  O   GLU    43     -82.525   4.930 -15.051  1.00  0.00              
ATOM      9  N   MET    44     -82.393   6.343 -16.726  1.00  0.00              
ATOM     10  CA  MET    44     -82.440   7.528 -15.825  1.00  0.00              
ATOM     11  C   MET    44     -83.634   7.459 -14.898  1.00  0.00              
ATOM     12  O   MET    44     -83.530   7.563 -13.698  1.00  0.00              
ATOM     13  N   MET    45     -84.782   7.340 -15.465  1.00  0.00              
ATOM     14  CA  MET    45     -85.995   7.329 -14.638  1.00  0.00              
ATOM     15  C   MET    45     -85.861   6.218 -13.602  1.00  0.00              
ATOM     16  O   MET    45     -86.039   6.444 -12.429  1.00  0.00              
ATOM     17  N   SER    46     -85.461   5.051 -13.992  1.00  0.00              
ATOM     18  CA  SER    46     -85.248   3.986 -12.975  1.00  0.00              
ATOM     19  C   SER    46     -84.209   4.515 -11.974  1.00  0.00              
ATOM     20  O   SER    46     -84.041   4.002 -10.887  1.00  0.00              
ATOM     21  N   GLN    47     -83.500   5.533 -12.375  1.00  0.00              
ATOM     22  CA  GLN    47     -82.427   6.133 -11.525  1.00  0.00              
ATOM     23  C   GLN    47     -83.001   7.242 -10.623  1.00  0.00              
ATOM     24  O   GLN    47     -83.134   7.082  -9.426  1.00  0.00              
ATOM     25  N   ALA    48     -83.306   8.375 -11.199  1.00  0.00              
ATOM     26  CA  ALA    48     -83.830   9.515 -10.401  1.00  0.00              
ATOM     27  C   ALA    48     -85.213   9.197  -9.850  1.00  0.00              
ATOM     28  O   ALA    48     -85.553   9.591  -8.753  1.00  0.00              
ATOM     29  N   LEU    49     -86.029   8.510 -10.597  1.00  0.00              
ATOM     30  CA  LEU    49     -87.390   8.214 -10.081  1.00  0.00              
ATOM     31  C   LEU    49     -87.247   7.302  -8.866  1.00  0.00              
ATOM     32  O   LEU    49     -87.912   7.463  -7.866  1.00  0.00              
ATOM     33  N   LYS    50     -86.354   6.359  -8.935  1.00  0.00              
ATOM     34  CA  LYS    50     -86.141   5.461  -7.772  1.00  0.00              
ATOM     35  C   LYS    50     -85.790   6.333  -6.560  1.00  0.00              
ATOM     36  O   LYS    50     -86.532   6.409  -5.611  1.00  0.00              
ATOM     37  N   ALA    51     -84.674   7.008  -6.593  1.00  0.00              
ATOM     38  CA  ALA    51     -84.293   7.877  -5.437  1.00  0.00              
ATOM     39  C   ALA    51     -85.472   8.771  -5.031  1.00  0.00              
ATOM     40  O   ALA    51     -85.424   9.459  -4.031  1.00  0.00              
ATOM     41  N   PHE    56     -95.188   8.265  -5.518  1.00  0.00              
ATOM     42  CA  PHE    56     -95.152   7.220  -6.591  1.00  0.00              
ATOM     43  C   PHE    56     -94.222   6.092  -6.183  1.00  0.00              
ATOM     44  O   PHE    56     -93.047   6.290  -5.948  1.00  0.00              
ATOM     45  N   THR    57     -94.748   4.898  -6.131  1.00  0.00              
ATOM     46  CA  THR    57     -93.922   3.709  -5.778  1.00  0.00              
ATOM     47  C   THR    57     -93.899   2.773  -6.982  1.00  0.00              
ATOM     48  O   THR    57     -94.891   2.609  -7.663  1.00  0.00              
ATOM     49  N   LYS    58     -92.780   2.160  -7.269  1.00  0.00              
ATOM     50  CA  LYS    58     -92.728   1.247  -8.448  1.00  0.00              
ATOM     51  C   LYS    58     -93.197  -0.147  -8.016  1.00  0.00              
ATOM     52  O   LYS    58     -93.124  -0.508  -6.858  1.00  0.00              
ATOM     53  N   GLU    74     -91.441   6.319 -25.626  1.00  0.00              
ATOM     54  CA  GLU    74     -90.520   6.933 -26.624  1.00  0.00              
ATOM     55  C   GLU    74     -90.683   8.457 -26.596  1.00  0.00              
ATOM     56  O   GLU    74     -89.719   9.195 -26.661  1.00  0.00              
ATOM     57  N   THR    75     -91.890   8.934 -26.498  1.00  0.00              
ATOM     58  CA  THR    75     -92.106  10.406 -26.468  1.00  0.00              
ATOM     59  C   THR    75     -91.931  10.906 -25.042  1.00  0.00              
ATOM     60  O   THR    75     -91.386  11.965 -24.801  1.00  0.00              
ATOM     61  N   HIS    76     -92.382  10.144 -24.095  1.00  0.00              
ATOM     62  CA  HIS    76     -92.242  10.557 -22.679  1.00  0.00              
ATOM     63  C   HIS    76     -90.759  10.590 -22.318  1.00  0.00              
ATOM     64  O   HIS    76     -90.261  11.552 -21.769  1.00  0.00              
ATOM     65  N   VAL    77     -90.058   9.531 -22.606  1.00  0.00              
ATOM     66  CA  VAL    77     -88.617   9.479 -22.257  1.00  0.00              
ATOM     67  C   VAL    77     -87.865  10.648 -22.888  1.00  0.00              
ATOM     68  O   VAL    77     -87.025  11.248 -22.248  1.00  0.00              
ATOM     69  N   ARG    78     -88.120  10.993 -24.134  1.00  0.00              
ATOM     70  CA  ARG    78     -87.344  12.133 -24.719  1.00  0.00              
ATOM     71  C   ARG    78     -87.893  13.468 -24.201  1.00  0.00              
ATOM     72  O   ARG    78     -87.153  14.416 -24.078  1.00  0.00              
ATOM     73  N   ASP    79     -89.147  13.558 -23.834  1.00  0.00              
ATOM     74  CA  ASP    79     -89.628  14.857 -23.269  1.00  0.00              
ATOM     75  C   ASP    79     -88.936  15.055 -21.922  1.00  0.00              
ATOM     76  O   ASP    79     -88.531  16.144 -21.565  1.00  0.00              
ATOM     77  N   TRP    80     -88.810  13.999 -21.171  1.00  0.00              
ATOM     78  CA  TRP    80     -88.160  14.097 -19.838  1.00  0.00              
ATOM     79  C   TRP    80     -86.771  14.732 -19.974  1.00  0.00              
ATOM     80  O   TRP    80     -86.392  15.593 -19.205  1.00  0.00              
ATOM     81  N   TRP    83    -102.529   2.071 -20.340  1.00  0.00              
ATOM     82  CA  TRP    83    -103.298   2.559 -19.151  1.00  0.00              
ATOM     83  C   TRP    83    -104.474   1.583 -18.923  1.00  0.00              
ATOM     84  O   TRP    83    -105.479   1.657 -19.602  1.00  0.00              
ATOM     85  N   ALA    84    -104.378   0.672 -17.986  1.00  0.00              
ATOM     86  CA  ALA    84    -105.528  -0.260 -17.780  1.00  0.00              
ATOM     87  C   ALA    84    -106.774   0.579 -17.495  1.00  0.00              
ATOM     88  O   ALA    84    -106.684   1.718 -17.080  1.00  0.00              
ATOM     89  N   GLU    87    -103.505   0.878 -12.217  1.00  0.00              
ATOM     90  CA  GLU    87    -102.240   0.189 -12.620  1.00  0.00              
ATOM     91  C   GLU    87    -101.694   0.931 -13.839  1.00  0.00              
ATOM     92  O   GLU    87    -102.423   1.265 -14.747  1.00  0.00              
ATOM     93  N   PHE    88    -100.429   1.239 -13.850  1.00  0.00              
ATOM     94  CA  PHE    88     -99.856   1.999 -15.002  1.00  0.00              
ATOM     95  C   PHE    88     -98.535   1.373 -15.443  1.00  0.00              
ATOM     96  O   PHE    88     -97.578   1.357 -14.693  1.00  0.00              
ATOM     97  N   SER    89     -98.460   0.880 -16.666  1.00  0.00              
ATOM     98  CA  SER    89     -97.176   0.281 -17.162  1.00  0.00              
ATOM     99  C   SER    89     -96.622   1.129 -18.298  1.00  0.00              
ATOM    100  O   SER    89     -97.344   1.677 -19.114  1.00  0.00              
ATOM    101  N   LEU    90     -95.327   1.207 -18.355  1.00  0.00              
ATOM    102  CA  LEU    90     -94.656   1.978 -19.422  1.00  0.00              
ATOM    103  C   LEU    90     -94.286   1.035 -20.571  1.00  0.00              
ATOM    104  O   LEU    90     -93.244   0.411 -20.565  1.00  0.00              
ATOM    105  N   GLN    96     -95.203   0.777 -13.375  1.00  0.00              
ATOM    106  CA  GLN    96     -95.117   1.894 -12.388  1.00  0.00              
ATOM    107  C   GLN    96     -96.460   2.012 -11.691  1.00  0.00              
ATOM    108  O   GLN    96     -97.462   1.524 -12.172  1.00  0.00              
ATOM    109  N   LYS    97     -96.493   2.623 -10.545  1.00  0.00              
ATOM    110  CA  LYS    97     -97.782   2.726  -9.815  1.00  0.00              
ATOM    111  C   LYS    97     -97.762   3.958  -8.916  1.00  0.00              
ATOM    112  O   LYS    97     -96.719   4.509  -8.626  1.00  0.00              
ATOM    113  N   PHE    98     -98.915   4.393  -8.478  1.00  0.00              
ATOM    114  CA  PHE    98     -98.981   5.599  -7.598  1.00  0.00              
ATOM    115  C   PHE    98     -99.926   5.341  -6.430  1.00  0.00              
ATOM    116  O   PHE    98    -100.861   4.570  -6.526  1.00  0.00              
ATOM    117  N   ALA   103    -101.389  17.004 -25.571  1.00  0.00              
ATOM    118  CA  ALA   103    -102.187  17.975 -24.817  1.00  0.00              
ATOM    119  C   ALA   103    -101.455  18.335 -23.530  1.00  0.00              
ATOM    120  O   ALA   103    -101.899  19.156 -22.771  1.00  0.00              
ATOM    121  N   ALA   104    -100.330  17.734 -23.285  1.00  0.00              
ATOM    122  CA  ALA   104     -99.580  18.067 -22.049  1.00  0.00              
ATOM    123  C   ALA   104     -99.353  19.578 -22.014  1.00  0.00              
ATOM    124  O   ALA   104     -99.898  20.282 -21.191  1.00  0.00              
ATOM    125  N   LEU   105     -98.561  20.076 -22.917  1.00  0.00              
ATOM    126  CA  LEU   105     -98.291  21.539 -22.958  1.00  0.00              
ATOM    127  C   LEU   105     -99.603  22.314 -23.151  1.00  0.00              
ATOM    128  O   LEU   105     -99.713  23.460 -22.763  1.00  0.00              
ATOM    129  N   CYS   106    -100.601  21.705 -23.744  1.00  0.00              
ATOM    130  CA  CYS   106    -101.898  22.426 -23.951  1.00  0.00              
ATOM    131  C   CYS   106    -102.747  22.312 -22.680  1.00  0.00              
ATOM    132  O   CYS   106    -103.449  23.228 -22.302  1.00  0.00              
ATOM    133  N   ALA   107    -102.658  21.200 -22.007  1.00  0.00              
ATOM    134  CA  ALA   107    -103.421  21.012 -20.742  1.00  0.00              
ATOM    135  C   ALA   107    -102.692  21.762 -19.692  1.00  0.00              
ATOM    136  O   ALA   107    -103.241  22.553 -18.950  1.00  0.00              
ATOM    137  N   LEU   108    -101.425  21.522 -19.634  1.00  0.00              
ATOM    138  CA  LEU   108    -100.640  22.221 -18.646  1.00  0.00              
ATOM    139  C   LEU   108    -100.801  23.679 -18.986  1.00  0.00              
ATOM    140  O   LEU   108    -101.482  24.402 -18.284  1.00  0.00              
ATOM    141  N   GLY   109    -100.168  24.148 -20.038  1.00  0.00              
ATOM    142  CA  GLY   109    -100.278  25.603 -20.358  1.00  0.00              
ATOM    143  C   GLY   109     -99.900  26.317 -19.067  1.00  0.00              
ATOM    144  O   GLY   109     -99.986  27.519 -18.917  1.00  0.00              
ATOM    145  N   LEU   125     -92.150  17.406  -9.930  1.00  0.00              
ATOM    146  CA  LEU   125     -91.919  16.144 -10.682  1.00  0.00              
ATOM    147  C   LEU   125     -93.213  15.331 -10.821  1.00  0.00              
ATOM    148  O   LEU   125     -93.803  15.268 -11.882  1.00  0.00              
ATOM    149  N   TRP   126     -93.616  14.650  -9.788  1.00  0.00              
ATOM    150  CA  TRP   126     -94.813  13.773  -9.900  1.00  0.00              
ATOM    151  C   TRP   126     -96.059  14.534 -10.360  1.00  0.00              
ATOM    152  O   TRP   126     -96.825  14.023 -11.151  1.00  0.00              
ATOM    153  N   GLU   127     -96.300  15.730  -9.891  1.00  0.00              
ATOM    154  CA  GLU   127     -97.532  16.436 -10.355  1.00  0.00              
ATOM    155  C   GLU   127     -97.551  16.427 -11.884  1.00  0.00              
ATOM    156  O   GLU   127     -98.539  16.088 -12.493  1.00  0.00              
ATOM    157  N   HIS   128     -96.451  16.759 -12.506  1.00  0.00              
ATOM    158  CA  HIS   128     -96.393  16.734 -13.997  1.00  0.00              
ATOM    159  C   HIS   128     -96.669  15.302 -14.484  1.00  0.00              
ATOM    160  O   HIS   128     -97.569  15.058 -15.263  1.00  0.00              
ATOM    161  N   LEU   129     -95.890  14.360 -14.023  1.00  0.00              
ATOM    162  CA  LEU   129     -96.079  12.941 -14.443  1.00  0.00              
ATOM    163  C   LEU   129     -97.502  12.507 -14.112  1.00  0.00              
ATOM    164  O   LEU   129     -98.165  11.869 -14.904  1.00  0.00              
ATOM    165  N   GLU   130     -97.981  12.850 -12.950  1.00  0.00              
ATOM    166  CA  GLU   130     -99.364  12.454 -12.579  1.00  0.00              
ATOM    167  C   GLU   130    -100.367  13.177 -13.485  1.00  0.00              
ATOM    168  O   GLU   130    -101.386  12.626 -13.851  1.00  0.00              
ATOM    169  N   ILE   131    -100.094  14.403 -13.861  1.00  0.00              
ATOM    170  CA  ILE   131    -101.052  15.123 -14.752  1.00  0.00              
ATOM    171  C   ILE   131    -101.025  14.449 -16.131  1.00  0.00              
ATOM    172  O   ILE   131    -102.047  14.253 -16.758  1.00  0.00              
ATOM    173  N   LEU   132     -99.860  14.083 -16.594  1.00  0.00              
ATOM    174  CA  LEU   132     -99.758  13.407 -17.918  1.00  0.00              
ATOM    175  C   LEU   132    -100.328  11.993 -17.800  1.00  0.00              
ATOM    176  O   LEU   132    -100.714  11.383 -18.777  1.00  0.00              
ATOM    177  N   GLN   133    -100.373  11.464 -16.615  1.00  0.00              
ATOM    178  CA  GLN   133    -100.903  10.085 -16.438  1.00  0.00              
ATOM    179  C   GLN   133    -102.411  10.069 -16.736  1.00  0.00              
ATOM    180  O   GLN   133    -102.851   9.550 -17.742  1.00  0.00              
END
