REMARK SUBMISSION T0072AL009_4 
TARGET T0072  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0072, CDS domain 1  
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  4   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1acx 
ATOM      1  N   ASP     8       4.202  -6.375   9.735  1.00  0.00              
ATOM      2  CA  ASP     8       4.192  -5.622  10.994  1.00  0.00              
ATOM      3  C   ASP     8       2.765  -5.553  11.542  1.00  0.00              
ATOM      4  O   ASP     8       1.796  -5.402  10.781  1.00  0.00              
ATOM      5  N   PHE     9       2.655  -5.665  12.854  1.00  0.00              
ATOM      6  CA  PHE     9       1.340  -5.621  13.509  1.00  0.00              
ATOM      7  C   PHE     9       1.429  -4.784  14.787  1.00  0.00              
ATOM      8  O   PHE     9       2.181  -5.118  15.716  1.00  0.00              
ATOM      9  N   GLN    10       0.662  -3.708  14.816  1.00  0.00              
ATOM     10  CA  GLN    10       0.659  -2.815  15.983  1.00  0.00              
ATOM     11  C   GLN    10      -0.782  -2.445  16.341  1.00  0.00              
ATOM     12  O   GLN    10      -1.721  -2.719  15.581  1.00  0.00              
ATOM     13  N   ALA    11      -0.936  -1.827  17.501  1.00  0.00              
ATOM     14  CA  ALA    11      -2.269  -1.423  17.972  1.00  0.00              
ATOM     15  C   ALA    11      -2.168  -0.093  18.723  1.00  0.00              
ATOM     16  O   ALA    11      -1.414   0.031  19.700  1.00  0.00              
ATOM     17  N   ARG    12      -2.928   0.882  18.258  1.00  0.00              
ATOM     18  CA  ARG    12      -2.921   2.212  18.885  1.00  0.00              
ATOM     19  C   ARG    12      -3.673   2.157  20.216  1.00  0.00              
ATOM     20  O   ARG    12      -4.913   2.099  20.246  1.00  0.00              
ATOM     21  N   GLN    23     -12.204   0.508  22.716  1.00  0.00              
ATOM     22  CA  GLN    23     -11.891   0.056  21.352  1.00  0.00              
ATOM     23  C   GLN    23     -10.487   0.526  20.964  1.00  0.00              
ATOM     24  O   GLN    23     -10.116   1.687  21.195  1.00  0.00              
ATOM     25  N   LEU    24      -9.726  -0.383  20.381  1.00  0.00              
ATOM     26  CA  LEU    24      -8.352  -0.065  19.963  1.00  0.00              
ATOM     27  C   LEU    24      -8.241  -0.169  18.440  1.00  0.00              
ATOM     28  O   LEU    24      -8.950  -0.963  17.802  1.00  0.00              
ATOM     29  N   GLU    25      -7.355   0.634  17.881  1.00  0.00              
ATOM     30  CA  GLU    25      -7.149   0.633  16.429  1.00  0.00              
ATOM     31  C   GLU    25      -5.966  -0.267  16.070  1.00  0.00              
ATOM     32  O   GLU    25      -4.816   0.023  16.428  1.00  0.00              
ATOM     33  N   VAL    26      -6.264  -1.344  15.372  1.00  0.00              
ATOM     34  CA  VAL    26      -5.222  -2.298  14.966  1.00  0.00              
ATOM     35  C   VAL    26      -4.827  -2.037  13.511  1.00  0.00              
ATOM     36  O   VAL    26      -5.665  -1.657  12.681  1.00  0.00              
ATOM     37  N   TYR    27      -3.554  -2.245  13.224  1.00  0.00              
ATOM     38  CA  TYR    27      -3.041  -2.028  11.864  1.00  0.00              
ATOM     39  C   TYR    27      -2.148  -3.202  11.455  1.00  0.00              
ATOM     40  O   TYR    27      -1.546  -3.871  12.309  1.00  0.00              
ATOM     41  N   LEU    28      -2.076  -3.436  10.160  1.00  0.00              
ATOM     42  CA  LEU    28      -1.258  -4.538   9.636  1.00  0.00              
ATOM     43  C   LEU    28      -0.748  -4.180   8.238  1.00  0.00              
ATOM     44  O   LEU    28      -1.484  -3.609   7.418  1.00  0.00              
ATOM     45  N   LYS    29       0.505  -4.517   7.988  1.00  0.00              
ATOM     46  CA  LYS    29       1.121  -4.225   6.684  1.00  0.00              
ATOM     47  C   LYS    29       2.172  -5.289   6.361  1.00  0.00              
ATOM     48  O   LYS    29       2.870  -5.789   7.257  1.00  0.00              
ATOM     49  N   GLY    31      -6.335 -13.839   4.355  1.00  0.00              
ATOM     50  CA  GLY    31      -7.245 -13.829   5.509  1.00  0.00              
ATOM     51  C   GLY    31      -6.473 -14.206   6.776  1.00  0.00              
ATOM     52  O   GLY    31      -5.678 -15.159   6.779  1.00  0.00              
ATOM     53  N   TRP    32      -6.717 -13.452   7.834  1.00  0.00              
ATOM     54  CA  TRP    32      -6.038 -13.703   9.114  1.00  0.00              
ATOM     55  C   TRP    32      -7.058 -13.669  10.250  1.00  0.00              
ATOM     56  O   TRP    32      -8.256 -13.430  10.031  1.00  0.00              
ATOM     57  N   HIS    33      -6.571 -13.908  11.454  1.00  0.00              
ATOM     58  CA  HIS    33      -7.444 -13.911  12.636  1.00  0.00              
ATOM     59  C   HIS    33      -6.806 -13.078  13.751  1.00  0.00              
ATOM     60  O   HIS    33      -5.579 -12.927  13.808  1.00  0.00              
ATOM     61  N   MET    34      -7.651 -12.550  14.620  1.00  0.00              
ATOM     62  CA  MET    34      -7.168 -11.723  15.737  1.00  0.00              
ATOM     63  C   MET    34      -7.947 -12.071  17.006  1.00  0.00              
ATOM     64  O   MET    34      -8.996 -12.732  16.950  1.00  0.00              
ATOM     65  N   VAL    35      -7.424 -11.620  18.134  1.00  0.00              
ATOM     66  CA  VAL    35      -8.070 -11.889  19.429  1.00  0.00              
ATOM     67  C   VAL    35      -7.024 -11.844  20.546  1.00  0.00              
ATOM     68  O   VAL    35      -5.870 -12.258  20.355  1.00  0.00              
ATOM     69  N   CYS    36      -7.442 -11.341  21.695  1.00  0.00              
ATOM     70  CA  CYS    36      -6.536 -11.235  22.850  1.00  0.00              
ATOM     71  C   CYS    36      -6.517 -12.563  23.613  1.00  0.00              
ATOM     72  O   CYS    36      -7.571 -13.079  24.019  1.00  0.00              
ATOM     73  N   SER    37      -5.324 -13.094  23.797  1.00  0.00              
ATOM     74  CA  SER    37      -5.166 -14.371  24.511  1.00  0.00              
ATOM     75  C   SER    37      -4.196 -14.190  25.682  1.00  0.00              
ATOM     76  O   SER    37      -3.592 -13.118  25.849  1.00  0.00              
ATOM     77  N   GLU    48      -2.063 -23.173  28.433  1.00  0.00              
ATOM     78  CA  GLU    48      -2.961 -23.069  27.273  1.00  0.00              
ATOM     79  C   GLU    48      -3.150 -21.596  26.899  1.00  0.00              
ATOM     80  O   GLU    48      -2.663 -20.693  27.597  1.00  0.00              
ATOM     81  N   ASP    49      -3.854 -21.377  25.805  1.00  0.00              
ATOM     82  CA  ASP    49      -4.107 -20.010  25.332  1.00  0.00              
ATOM     83  C   ASP    49      -5.591 -19.673  25.494  1.00  0.00              
ATOM     84  O   ASP    49      -6.436 -20.135  24.715  1.00  0.00              
ATOM     85  N   PRO    50      -5.881 -18.874  26.506  1.00  0.00              
ATOM     86  CA  PRO    50      -7.269 -18.478  26.779  1.00  0.00              
ATOM     87  C   PRO    50      -7.568 -17.145  26.087  1.00  0.00              
ATOM     88  O   PRO    50      -7.057 -16.089  26.489  1.00  0.00              
ATOM     89  N   SER    51      -8.390 -17.215  25.056  1.00  0.00              
ATOM     90  CA  SER    51      -8.755 -16.010  24.298  1.00  0.00              
ATOM     91  C   SER    51     -10.255 -15.746  24.445  1.00  0.00              
ATOM     92  O   SER    51     -11.028 -16.637  24.822  1.00  0.00              
ATOM     93  N   CYS    57     -13.093 -11.690  18.821  1.00  0.00              
ATOM     94  CA  CYS    57     -12.272 -12.489  17.901  1.00  0.00              
ATOM     95  C   CYS    57     -13.056 -12.760  16.615  1.00  0.00              
ATOM     96  O   CYS    57     -14.055 -13.496  16.620  1.00  0.00              
ATOM     97  N   GLN    58     -12.595 -12.160  15.535  1.00  0.00              
ATOM     98  CA  GLN    58     -13.259 -12.331  14.236  1.00  0.00              
ATOM     99  C   GLN    58     -12.213 -12.627  13.158  1.00  0.00              
ATOM    100  O   GLN    58     -11.134 -13.167  13.449  1.00  0.00              
ATOM    101  N   ARG    59     -12.546 -12.267  11.932  1.00  0.00              
ATOM    102  CA  ARG    59     -11.633 -12.499  10.802  1.00  0.00              
ATOM    103  C   ARG    59     -11.580 -11.251   9.922  1.00  0.00              
ATOM    104  O   ARG    59     -12.512 -10.431   9.920  1.00  0.00              
ATOM    105  N   LEU    60     -10.492 -11.123   9.185  1.00  0.00              
ATOM    106  CA  LEU    60     -10.313  -9.966   8.295  1.00  0.00              
ATOM    107  C   LEU    60      -9.439 -10.365   7.103  1.00  0.00              
ATOM    108  O   LEU    60      -8.742 -11.390   7.139  1.00  0.00              
ATOM    109  N   ASN    61      -9.491  -9.549   6.065  1.00  0.00              
ATOM    110  CA  ASN    61      -8.705  -9.819   4.852  1.00  0.00              
ATOM    111  C   ASN    61      -8.002  -8.536   4.398  1.00  0.00              
ATOM    112  O   ASN    61      -8.574  -7.437   4.470  1.00  0.00              
ATOM    113  N   CYS    62      -6.775  -8.694   3.938  1.00  0.00              
ATOM    114  CA  CYS    62      -5.987  -7.542   3.474  1.00  0.00              
ATOM    115  C   CYS    62      -6.342  -7.228   2.019  1.00  0.00              
ATOM    116  O   CYS    62      -7.021  -8.017   1.345  1.00  0.00              
ATOM    117  N   GLY    63      -5.879  -6.080   1.557  1.00  0.00              
ATOM    118  CA  GLY    63      -6.151  -5.654   0.176  1.00  0.00              
ATOM    119  C   GLY    63      -4.967  -6.013  -0.717  1.00  0.00              
ATOM    120  O   GLY    63      -3.984  -6.617  -0.260  1.00  0.00              
ATOM    121  N   LEU    72      -7.218  -2.179   8.143  1.00  0.00              
ATOM    122  CA  LEU    72      -7.387  -1.334   9.336  1.00  0.00              
ATOM    123  C   LEU    72      -8.812  -1.484   9.874  1.00  0.00              
ATOM    124  O   LEU    72      -9.794  -1.261   9.150  1.00  0.00              
ATOM    125  N   VAL    73      -8.903  -1.859  11.134  1.00  0.00              
ATOM    126  CA  VAL    73     -10.214  -2.047  11.774  1.00  0.00              
ATOM    127  C   VAL    73     -10.116  -1.693  13.260  1.00  0.00              
ATOM    128  O   VAL    73      -9.056  -1.268  13.745  1.00  0.00              
ATOM    129  N   THR    74     -11.222  -1.873  13.960  1.00  0.00              
ATOM    130  CA  THR    74     -11.265  -1.566  15.398  1.00  0.00              
ATOM    131  C   THR    74     -11.499  -2.855  16.190  1.00  0.00              
ATOM    132  O   THR    74     -12.184  -3.777  15.724  1.00  0.00              
ATOM    133  N   TYR    75     -10.926  -2.898  17.380  1.00  0.00              
ATOM    134  CA  TYR    75     -11.067  -4.080  18.244  1.00  0.00              
ATOM    135  C   TYR    75     -11.235  -3.638  19.699  1.00  0.00              
ATOM    136  O   TYR    75     -10.489  -2.779  20.194  1.00  0.00              
ATOM    137  N   THR    76     -12.213  -4.228  20.363  1.00  0.00              
ATOM    138  CA  THR    76     -12.487  -3.888  21.768  1.00  0.00              
ATOM    139  C   THR    76     -11.940  -4.991  22.679  1.00  0.00              
ATOM    140  O   THR    76     -12.316  -6.166  22.553  1.00  0.00              
ATOM    141  N   ILE    82     -10.895  -8.288  31.949  1.00  0.00              
ATOM    142  CA  ILE    82     -11.107  -9.659  32.440  1.00  0.00              
ATOM    143  C   ILE    82     -12.213 -10.332  31.624  1.00  0.00              
ATOM    144  O   ILE    82     -13.228  -9.703  31.287  1.00  0.00              
ATOM    145  N   CYS    83     -11.999 -11.598  31.318  1.00  0.00              
ATOM    146  CA  CYS    83     -12.979 -12.361  30.533  1.00  0.00              
ATOM    147  C   CYS    83     -12.827 -13.855  30.829  1.00  0.00              
ATOM    148  O   CYS    83     -11.904 -14.272  31.546  1.00  0.00              
ATOM    149  N   TYR    84     -13.734 -14.638  30.275  1.00  0.00              
ATOM    150  CA  TYR    84     -13.705 -16.090  30.485  1.00  0.00              
ATOM    151  C   TYR    84     -12.670 -16.723  29.554  1.00  0.00              
ATOM    152  O   TYR    84     -12.679 -16.487  28.336  1.00  0.00              
ATOM    153  N   GLY    85     -11.791 -17.519  30.140  1.00  0.00              
ATOM    154  CA  GLY    85     -10.737 -18.187  29.362  1.00  0.00              
ATOM    155  C   GLY    85     -11.375 -19.112  28.323  1.00  0.00              
ATOM    156  O   GLY    85     -12.521 -19.559  28.485  1.00  0.00              
ATOM    157  N   GLN    86     -10.627 -19.383  27.270  1.00  0.00              
ATOM    158  CA  GLN    86     -11.123 -20.255  26.194  1.00  0.00              
ATOM    159  C   GLN    86     -10.084 -20.326  25.073  1.00  0.00              
ATOM    160  O   GLN    86      -9.858 -19.343  24.351  1.00  0.00              
ATOM    161  N   SER    89     -13.270 -24.332  27.232  1.00  0.00              
ATOM    162  CA  SER    89     -13.195 -23.214  28.185  1.00  0.00              
ATOM    163  C   SER    89     -12.042 -23.447  29.164  1.00  0.00              
ATOM    164  O   SER    89     -11.702 -24.597  29.485  1.00  0.00              
ATOM    165  N   PHE    90     -11.457 -22.356  29.623  1.00  0.00              
ATOM    166  CA  PHE    90     -10.332 -22.439  30.568  1.00  0.00              
ATOM    167  C   PHE    90     -10.743 -21.836  31.912  1.00  0.00              
ATOM    168  O   PHE    90     -10.792 -22.535  32.936  1.00  0.00              
ATOM    169  N   SER    91     -11.030 -20.546  31.893  1.00  0.00              
ATOM    170  CA  SER    91     -11.433 -19.841  33.119  1.00  0.00              
ATOM    171  C   SER    91     -11.263 -18.333  32.923  1.00  0.00              
ATOM    172  O   SER    91     -10.847 -17.873  31.849  1.00  0.00              
ATOM    173  N   ASN    92     -11.588 -17.586  33.964  1.00  0.00              
ATOM    174  CA  ASN    92     -11.477 -16.121  33.906  1.00  0.00              
ATOM    175  C   ASN    92     -10.005 -15.726  33.792  1.00  0.00              
ATOM    176  O   ASN    92      -9.116 -16.403  34.322  1.00  0.00              
ATOM    177  N   CYS    93      -9.770 -14.626  33.101  1.00  0.00              
ATOM    178  CA  CYS    93      -8.399 -14.133  32.908  1.00  0.00              
ATOM    179  C   CYS    93      -8.337 -12.641  33.244  1.00  0.00              
ATOM    180  O   CYS    93      -9.059 -11.824  32.651  1.00  0.00              
ATOM    181  N   SER    94      -7.478 -12.305  34.192  1.00  0.00              
ATOM    182  CA  SER    94      -7.326 -10.905  34.615  1.00  0.00              
ATOM    183  C   SER    94      -6.103 -10.292  33.930  1.00  0.00              
ATOM    184  O   SER    94      -4.959 -10.554  34.322  1.00  0.00              
ATOM    185  N   CYS   101      -2.644 -10.040  25.461  1.00  0.00              
ATOM    186  CA  CYS   101      -2.072  -9.547  24.198  1.00  0.00              
ATOM    187  C   CYS   101      -3.058  -9.797  23.055  1.00  0.00              
ATOM    188  O   CYS   101      -4.179 -10.279  23.274  1.00  0.00              
ATOM    189  N   HIS   102      -2.625  -9.462  21.854  1.00  0.00              
ATOM    190  CA  HIS   102      -3.505  -9.642  20.654  1.00  0.00              
ATOM    191  C   HIS   102      -2.656 -10.168  19.495  1.00  0.00              
ATOM    192  O   HIS   102      -1.801  -9.450  18.956  1.00  0.00              
ATOM    193  N   SER   103      -2.903 -11.412  19.130  1.00  0.00              
ATOM    194  CA  SER   103      -2.157 -12.040  18.031  1.00  0.00              
ATOM    195  C   SER   103      -3.055 -12.159  16.799  1.00  0.00              
ATOM    196  O   SER   103      -4.281 -11.994  16.887  1.00  0.00              
ATOM    197  N   LEU   104      -2.432 -12.439  15.670  1.00  0.00              
ATOM    198  CA  LEU   104      -3.177 -12.574  14.412  1.00  0.00              
ATOM    199  C   LEU   104      -2.280 -13.218  13.352  1.00  0.00              
ATOM    200  O   LEU   104      -1.056 -13.024  13.352  1.00  0.00              
ATOM    201  N   GLY   105      -2.902 -13.973  12.467  1.00  0.00              
ATOM    202  CA  GLY   105      -2.157 -14.655  11.397  1.00  0.00              
ATOM    203  C   GLY   105      -2.973 -15.836  10.878  1.00  0.00              
ATOM    204  O   GLY   105      -4.167 -15.971  11.185  1.00  0.00              
END
