REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0073AL009_3 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : XU-YING 
REMARK  ---------------------------------------------------------- 
TARGET T0073  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0073, DSD, synthetic  
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 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  3   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 2dgc_A 
ATOM      1  N   LEU     2      34.628 103.112  14.085  1.00  0.00              
ATOM      2  CA  LEU     2      35.824 102.612  13.415  1.00  0.00              
ATOM      3  C   LEU     2      36.711 101.675  14.232  1.00  0.00              
ATOM      4  O   LEU     2      37.188 100.665  13.706  1.00  0.00              
ATOM      5  N   ALA     3      36.968 102.014  15.494  1.00  0.00              
ATOM      6  CA  ALA     3      37.791 101.154  16.349  1.00  0.00              
ATOM      7  C   ALA     3      37.091  99.810  16.534  1.00  0.00              
ATOM      8  O   ALA     3      37.735  98.783  16.650  1.00  0.00              
ATOM      9  N   ALA     4      35.766  99.822  16.548  1.00  0.00              
ATOM     10  CA  ALA     4      35.017  98.588  16.693  1.00  0.00              
ATOM     11  C   ALA     4      35.206  97.711  15.450  1.00  0.00              
ATOM     12  O   ALA     4      35.486  96.511  15.558  1.00  0.00              
ATOM     13  N   LEU     5      35.107  98.329  14.274  1.00  0.00              
ATOM     14  CA  LEU     5      35.265  97.630  13.005  1.00  0.00              
ATOM     15  C   LEU     5      36.605  96.929  12.935  1.00  0.00              
ATOM     16  O   LEU     5      36.679  95.768  12.536  1.00  0.00              
ATOM     17  N   LYS     6      37.662  97.636  13.318  1.00  0.00              
ATOM     18  CA  LYS     6      39.005  97.063  13.309  1.00  0.00              
ATOM     19  C   LYS     6      39.137  95.906  14.301  1.00  0.00              
ATOM     20  O   LYS     6      39.730  94.867  13.974  1.00  0.00              
ATOM     21  N   SER     7      38.562  96.072  15.496  1.00  0.00              
ATOM     22  CA  SER     7      38.630  95.043  16.532  1.00  0.00              
ATOM     23  C   SER     7      37.872  93.802  16.113  1.00  0.00              
ATOM     24  O   SER     7      38.297  92.687  16.404  1.00  0.00              
ATOM     25  N   GLU     8      36.775  93.982  15.389  1.00  0.00              
ATOM     26  CA  GLU     8      35.989  92.846  14.908  1.00  0.00              
ATOM     27  C   GLU     8      36.812  91.956  13.956  1.00  0.00              
ATOM     28  O   GLU     8      36.664  90.729  13.945  1.00  0.00              
ATOM     29  N   LEU     9      37.724  92.577  13.211  1.00  0.00              
ATOM     30  CA  LEU     9      38.577  91.836  12.291  1.00  0.00              
ATOM     31  C   LEU     9      39.767  91.272  13.028  1.00  0.00              
ATOM     32  O   LEU     9      40.217  90.171  12.723  1.00  0.00              
ATOM     33  N   GLN    10      40.277  92.018  14.003  1.00  0.00              
ATOM     34  CA  GLN    10      41.416  91.539  14.786  1.00  0.00              
ATOM     35  C   GLN    10      41.002  90.271  15.537  1.00  0.00              
ATOM     36  O   GLN    10      41.812  89.354  15.704  1.00  0.00              
ATOM     37  N   ALA    11      39.741  90.229  15.978  1.00  0.00              
ATOM     38  CA  ALA    11      39.190  89.066  16.679  1.00  0.00              
ATOM     39  C   ALA    11      39.071  87.898  15.705  1.00  0.00              
ATOM     40  O   ALA    11      39.429  86.777  16.038  1.00  0.00              
ATOM     41  N   LEU    12      38.618  88.172  14.484  1.00  0.00              
ATOM     42  CA  LEU    12      38.473  87.139  13.447  1.00  0.00              
ATOM     43  C   LEU    12      39.830  86.467  13.145  1.00  0.00              
ATOM     44  O   LEU    12      39.938  85.234  13.100  1.00  0.00              
ATOM     45  N   LYS    13      40.867  87.282  12.966  1.00  0.00              
ATOM     46  CA  LYS    13      42.213  86.776  12.693  1.00  0.00              
ATOM     47  C   LYS    13      42.765  85.982  13.871  1.00  0.00              
ATOM     48  O   LYS    13      43.412  84.951  13.675  1.00  0.00              
ATOM     49  N   LYS    14      42.507  86.471  15.088  1.00  0.00              
ATOM     50  CA  LYS    14      42.958  85.825  16.325  1.00  0.00              
ATOM     51  C   LYS    14      42.319  84.443  16.498  1.00  0.00              
ATOM     52  O   LYS    14      43.016  83.474  16.832  1.00  0.00              
ATOM     53  N   GLU    15      41.008  84.340  16.265  1.00  0.00              
ATOM     54  CA  GLU    15      40.314  83.055  16.375  1.00  0.00              
ATOM     55  C   GLU    15      40.889  82.050  15.383  1.00  0.00              
ATOM     56  O   GLU    15      41.065  80.867  15.688  1.00  0.00              
ATOM     57  N   GLY    16      41.141  82.527  14.173  1.00  0.00              
ATOM     58  CA  GLY    16      41.693  81.697  13.117  1.00  0.00              
ATOM     59  C   GLY    16      43.045  81.106  13.522  1.00  0.00              
ATOM     60  O   GLY    16      43.330  79.940  13.231  1.00  0.00              
ATOM     61  N   PHE    17      43.883  81.912  14.170  1.00  0.00              
ATOM     62  CA  PHE    17      45.189  81.440  14.620  1.00  0.00              
ATOM     63  C   PHE    17      45.030  80.372  15.700  1.00  0.00              
ATOM     64  O   PHE    17      45.744  79.371  15.696  1.00  0.00              
ATOM     65  N   SER    18      44.082  80.574  16.612  1.00  0.00              
ATOM     66  CA  SER    18      43.830  79.614  17.684  1.00  0.00              
ATOM     67  C   SER    18      43.311  78.273  17.151  1.00  0.00              
ATOM     68  O   SER    18      43.555  77.227  17.759  1.00  0.00              
ATOM     69  N   PRO    19      42.579  78.301  16.040  1.00  0.00              
ATOM     70  CA  PRO    19      42.052  77.073  15.449  1.00  0.00              
ATOM     71  C   PRO    19      43.161  76.259  14.777  1.00  0.00              
ATOM     72  O   PRO    19      43.165  75.027  14.840  1.00  0.00              
ATOM     73  N   GLU    20      44.101  76.944  14.134  1.00  0.00              
ATOM     74  CA  GLU    20      45.206  76.267  13.476  1.00  0.00              
ATOM     75  C   GLU    20      46.211  75.741  14.505  1.00  0.00              
ATOM     76  O   GLU    20      46.793  74.667  14.324  1.00  0.00              
ATOM     77  N   GLU    21      46.429  76.506  15.572  1.00  0.00              
ATOM     78  CA  GLU    21      47.347  76.089  16.631  1.00  0.00              
ATOM     79  C   GLU    21      46.862  74.785  17.259  1.00  0.00              
ATOM     80  O   GLU    21      47.653  73.875  17.479  1.00  0.00              
ATOM     81  N   LEU    22      45.557  74.690  17.500  1.00  0.00              
ATOM     82  CA  LEU    22      44.950  73.503  18.077  1.00  0.00              
ATOM     83  C   LEU    22      45.197  72.290  17.183  1.00  0.00              
ATOM     84  O   LEU    22      45.632  71.236  17.661  1.00  0.00              
ATOM     85  N   ALA    23      44.909  72.436  15.887  1.00  0.00              
ATOM     86  CA  ALA    23      45.100  71.353  14.909  1.00  0.00              
ATOM     87  C   ALA    23      46.556  70.926  14.798  1.00  0.00              
ATOM     88  O   ALA    23      46.861  69.737  14.766  1.00  0.00              
ATOM     89  N   ALA    24      47.444  71.910  14.760  1.00  0.00              
ATOM     90  CA  ALA    24      48.873  71.686  14.702  1.00  0.00              
ATOM     91  C   ALA    24      49.257  70.801  15.887  1.00  0.00              
ATOM     92  O   ALA    24      49.905  69.757  15.728  1.00  0.00              
ATOM     93  N   LEU    25      48.814  71.217  17.070  1.00  0.00              
ATOM     94  CA  LEU    25      49.070  70.513  18.326  1.00  0.00              
ATOM     95  C   LEU    25      48.505  69.092  18.299  1.00  0.00              
ATOM     96  O   LEU    25      49.181  68.149  18.691  1.00  0.00              
ATOM     97  N   GLU    26      47.278  68.933  17.814  1.00  0.00              
ATOM     98  CA  GLU    26      46.665  67.613  17.743  1.00  0.00              
ATOM     99  C   GLU    26      47.447  66.664  16.838  1.00  0.00              
ATOM    100  O   GLU    26      47.565  65.477  17.147  1.00  0.00              
ATOM    101  N   SER    27      47.983  67.191  15.733  1.00  0.00              
ATOM    102  CA  SER    27      48.772  66.398  14.786  1.00  0.00              
ATOM    103  C   SER    27      50.071  65.927  15.432  1.00  0.00              
ATOM    104  O   SER    27      50.511  64.791  15.215  1.00  0.00              
ATOM    105  N   GLU    28      50.687  66.819  16.207  1.00  0.00              
ATOM    106  CA  GLU    28      51.943  66.533  16.896  1.00  0.00              
ATOM    107  C   GLU    28      51.821  65.354  17.856  1.00  0.00              
ATOM    108  O   GLU    28      52.703  64.495  17.914  1.00  0.00              
ATOM    109  N   LEU    29      50.721  65.311  18.597  1.00  0.00              
ATOM    110  CA  LEU    29      50.480  64.228  19.542  1.00  0.00              
ATOM    111  C   LEU    29      50.363  62.921  18.768  1.00  0.00              
ATOM    112  O   LEU    29      50.835  61.875  19.216  1.00  0.00              
ATOM    113  N   GLN    30      49.766  62.995  17.584  1.00  0.00              
ATOM    114  CA  GLN    30      49.572  61.826  16.735  1.00  0.00              
ATOM    115  C   GLN    30      50.923  61.343  16.213  1.00  0.00              
ATOM    116  O   GLN    30      51.217  60.148  16.224  1.00  0.00              
ATOM    117  N   ALA    31      51.749  62.296  15.792  1.00  0.00              
ATOM    118  CA  ALA    31      53.077  62.028  15.266  1.00  0.00              
ATOM    119  C   ALA    31      53.983  61.413  16.333  1.00  0.00              
ATOM    120  O   ALA    31      54.662  60.416  16.071  1.00  0.00              
ATOM    121  N   LEU    32      53.989  62.003  17.531  1.00  0.00              
ATOM    122  CA  LEU    32      54.810  61.516  18.646  1.00  0.00              
ATOM    123  C   LEU    32      54.350  60.159  19.169  1.00  0.00              
ATOM    124  O   LEU    32      55.166  59.321  19.537  1.00  0.00              
ATOM    125  N   GLU    33      53.050  59.919  19.178  1.00  0.00              
ATOM    126  CA  GLU    33      52.545  58.635  19.627  1.00  0.00              
ATOM    127  C   GLU    33      53.105  57.517  18.733  1.00  0.00              
ATOM    128  O   GLU    33      53.548  56.473  19.232  1.00  0.00              
ATOM    129  N   LYS    34      53.135  57.758  17.418  1.00  0.00              
ATOM    130  CA  LYS    34      53.646  56.779  16.448  1.00  0.00              
ATOM    131  C   LYS    34      55.163  56.621  16.520  1.00  0.00              
ATOM    132  O   LYS    34      55.688  55.505  16.461  1.00  0.00              
ATOM    133  N   LYS    35      55.876  57.736  16.606  1.00  0.00              
ATOM    134  CA  LYS    35      57.319  57.682  16.706  1.00  0.00              
ATOM    135  C   LYS    35      57.671  56.910  17.981  1.00  0.00              
ATOM    136  O   LYS    35      58.563  56.069  17.982  1.00  0.00              
ATOM    137  N   LEU    36      56.915  57.160  19.045  1.00  0.00              
ATOM    138  CA  LEU    36      57.105  56.504  20.341  1.00  0.00              
ATOM    139  C   LEU    36      56.980  54.992  20.206  1.00  0.00              
ATOM    140  O   LEU    36      57.843  54.256  20.688  1.00  0.00              
ATOM    141  N   ALA    37      55.923  54.535  19.529  1.00  0.00              
ATOM    142  CA  ALA    37      55.667  53.105  19.328  1.00  0.00              
ATOM    143  C   ALA    37      56.795  52.398  18.591  1.00  0.00              
ATOM    144  O   ALA    37      57.200  51.294  18.958  1.00  0.00              
ATOM    145  N   ALA    38      57.281  53.010  17.523  1.00  0.00              
ATOM    146  CA  ALA    38      58.364  52.431  16.758  1.00  0.00              
ATOM    147  C   ALA    38      59.649  52.318  17.591  1.00  0.00              
ATOM    148  O   ALA    38      60.368  51.323  17.486  1.00  0.00              
ATOM    149  N   LEU    39      59.936  53.314  18.428  1.00  0.00              
ATOM    150  CA  LEU    39      61.131  53.270  19.274  1.00  0.00              
ATOM    151  C   LEU    39      60.974  52.232  20.383  1.00  0.00              
ATOM    152  O   LEU    39      61.901  51.486  20.689  1.00  0.00              
ATOM    153  N   LYS    40      59.788  52.170  20.976  1.00  0.00              
ATOM    154  CA  LYS    40      59.514  51.212  22.039  1.00  0.00              
ATOM    155  C   LYS    40      59.675  49.796  21.501  1.00  0.00              
ATOM    156  O   LYS    40      60.242  48.920  22.159  1.00  0.00              
ATOM    157  N   SER    41      59.209  49.582  20.279  1.00  0.00              
ATOM    158  CA  SER    41      59.304  48.277  19.641  1.00  0.00              
ATOM    159  C   SER    41      60.767  47.999  19.285  1.00  0.00              
ATOM    160  O   SER    41      61.268  46.881  19.454  1.00  0.00              
ATOM    161  N   LYS    42      61.450  49.041  18.817  1.00  0.00              
ATOM    162  CA  LYS    42      62.859  48.966  18.451  1.00  0.00              
ATOM    163  C   LYS    42      63.711  48.574  19.655  1.00  0.00              
ATOM    164  O   LYS    42      64.615  47.741  19.540  1.00  0.00              
ATOM    165  N   LEU    43      63.407  49.164  20.810  1.00  0.00              
ATOM    166  CA  LEU    43      64.141  48.878  22.040  1.00  0.00              
ATOM    167  C   LEU    43      64.014  47.401  22.406  1.00  0.00              
ATOM    168  O   LEU    43      65.010  46.743  22.699  1.00  0.00              
ATOM    169  N   GLN    44      62.796  46.872  22.331  1.00  0.00              
ATOM    170  CA  GLN    44      62.547  45.469  22.642  1.00  0.00              
ATOM    171  C   GLN    44      63.393  44.559  21.748  1.00  0.00              
ATOM    172  O   GLN    44      64.004  43.597  22.223  1.00  0.00              
ATOM    173  N   ALA    45      63.457  44.901  20.463  1.00  0.00              
ATOM    174  CA  ALA    45      64.214  44.133  19.482  1.00  0.00              
ATOM    175  C   ALA    45      65.713  44.131  19.792  1.00  0.00              
ATOM    176  O   ALA    45      66.316  43.063  19.958  1.00  0.00              
ATOM    177  N   LEU    46      66.307  45.319  19.901  1.00  0.00              
ATOM    178  CA  LEU    46      67.735  45.450  20.200  1.00  0.00              
ATOM    179  C   LEU    46      68.073  44.815  21.538  1.00  0.00              
ATOM    180  O   LEU    46      69.156  44.269  21.713  1.00  0.00              
ATOM    181  N   LYS    47      67.146  44.906  22.484  1.00  0.00              
ATOM    182  CA  LYS    47      67.341  44.321  23.799  1.00  0.00              
ATOM    183  C   LYS    47      67.615  42.837  23.594  1.00  0.00              
ATOM    184  O   LYS    47      68.628  42.323  24.064  1.00  0.00              
ATOM    185  N   GLY    48      66.732  42.167  22.851  1.00  0.00              
ATOM    186  CA  GLY    48      66.871  40.734  22.575  1.00  0.00              
ATOM    187  C   GLY    48      68.200  40.411  21.885  1.00  0.00              
ATOM    188  O   GLY    48      68.998  39.607  22.387  1.00  0.00              
END
