REMARK SUBMISSION T0072AL009_5 
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  5   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 2bbk_H 
ATOM      1  N   ASP     8      46.602  43.383   2.200  1.00  0.00              
ATOM      2  CA  ASP     8      47.832  43.774   1.550  1.00  0.00              
ATOM      3  C   ASP     8      48.770  44.511   2.478  1.00  0.00              
ATOM      4  O   ASP     8      48.329  45.290   3.314  1.00  0.00              
ATOM      5  N   PHE     9      50.063  44.360   2.227  1.00  0.00              
ATOM      6  CA  PHE     9      51.054  45.095   2.978  1.00  0.00              
ATOM      7  C   PHE     9      51.088  46.502   2.401  1.00  0.00              
ATOM      8  O   PHE     9      51.275  46.630   1.202  1.00  0.00              
ATOM      9  N   GLN    10      50.919  47.540   3.214  1.00  0.00              
ATOM     10  CA  GLN    10      50.921  48.892   2.677  1.00  0.00              
ATOM     11  C   GLN    10      52.275  49.567   2.652  1.00  0.00              
ATOM     12  O   GLN    10      52.755  50.022   1.622  1.00  0.00              
ATOM     13  N   ALA    11      52.894  49.682   3.814  1.00  0.00              
ATOM     14  CA  ALA    11      54.168  50.352   3.804  1.00  0.00              
ATOM     15  C   ALA    11      54.820  50.361   5.159  1.00  0.00              
ATOM     16  O   ALA    11      54.253  49.817   6.102  1.00  0.00              
ATOM     17  N   ARG    12      56.065  50.852   5.171  1.00  0.00              
ATOM     18  CA  ARG    12      56.846  50.949   6.393  1.00  0.00              
ATOM     19  C   ARG    12      56.832  52.402   6.806  1.00  0.00              
ATOM     20  O   ARG    12      57.008  53.251   5.946  1.00  0.00              
ATOM     21  N   LEU    13      56.646  52.669   8.092  1.00  0.00              
ATOM     22  CA  LEU    13      56.710  54.022   8.623  1.00  0.00              
ATOM     23  C   LEU    13      58.037  54.184   9.352  1.00  0.00              
ATOM     24  O   LEU    13      58.357  53.328  10.169  1.00  0.00              
ATOM     25  N   THR    14      58.815  55.232   9.058  1.00  0.00              
ATOM     26  CA  THR    14      60.072  55.457   9.757  1.00  0.00              
ATOM     27  C   THR    14      59.789  56.132  11.083  1.00  0.00              
ATOM     28  O   THR    14      59.088  57.138  11.108  1.00  0.00              
ATOM     29  N   CYS    20      62.497  54.097  19.150  1.00  0.00              
ATOM     30  CA  CYS    20      61.399  53.798  20.053  1.00  0.00              
ATOM     31  C   CYS    20      60.975  52.354  19.859  1.00  0.00              
ATOM     32  O   CYS    20      61.297  51.769  18.834  1.00  0.00              
ATOM     33  N   GLN    21      60.235  51.819  20.817  1.00  0.00              
ATOM     34  CA  GLN    21      59.882  50.406  20.867  1.00  0.00              
ATOM     35  C   GLN    21      58.460  50.154  21.345  1.00  0.00              
ATOM     36  O   GLN    21      57.962  50.917  22.170  1.00  0.00              
ATOM     37  N   GLY    22      57.869  49.027  20.902  1.00  0.00              
ATOM     38  CA  GLY    22      56.517  48.607  21.250  1.00  0.00              
ATOM     39  C   GLY    22      55.504  49.443  20.489  1.00  0.00              
ATOM     40  O   GLY    22      55.859  50.531  20.064  1.00  0.00              
ATOM     41  N   GLN    23      54.263  48.971  20.331  1.00  0.00              
ATOM     42  CA  GLN    23      53.265  49.683  19.537  1.00  0.00              
ATOM     43  C   GLN    23      51.907  49.559  20.193  1.00  0.00              
ATOM     44  O   GLN    23      51.380  48.450  20.258  1.00  0.00              
ATOM     45  N   LEU    24      51.342  50.662  20.703  1.00  0.00              
ATOM     46  CA  LEU    24      50.061  50.604  21.372  1.00  0.00              
ATOM     47  C   LEU    24      49.060  51.446  20.600  1.00  0.00              
ATOM     48  O   LEU    24      49.080  52.677  20.691  1.00  0.00              
ATOM     49  N   GLU    25      48.243  50.803  19.777  1.00  0.00              
ATOM     50  CA  GLU    25      47.325  51.544  18.944  1.00  0.00              
ATOM     51  C   GLU    25      46.152  52.085  19.728  1.00  0.00              
ATOM     52  O   GLU    25      45.543  51.364  20.511  1.00  0.00              
ATOM     53  N   VAL    26      45.846  53.354  19.461  1.00  0.00              
ATOM     54  CA  VAL    26      44.744  54.051  20.109  1.00  0.00              
ATOM     55  C   VAL    26      43.616  54.390  19.161  1.00  0.00              
ATOM     56  O   VAL    26      42.528  54.763  19.569  1.00  0.00              
ATOM     57  N   TYR    27      43.890  54.293  17.875  1.00  0.00              
ATOM     58  CA  TYR    27      42.884  54.592  16.895  1.00  0.00              
ATOM     59  C   TYR    27      43.325  54.012  15.574  1.00  0.00              
ATOM     60  O   TYR    27      44.425  53.479  15.478  1.00  0.00              
ATOM     61  N   GLY    31      46.540  55.913  14.647  1.00  0.00              
ATOM     62  CA  GLY    31      47.436  56.430  15.663  1.00  0.00              
ATOM     63  C   GLY    31      47.912  55.343  16.613  1.00  0.00              
ATOM     64  O   GLY    31      47.132  54.487  17.015  1.00  0.00              
ATOM     65  N   TRP    32      49.179  55.434  17.002  1.00  0.00              
ATOM     66  CA  TRP    32      49.747  54.504  17.956  1.00  0.00              
ATOM     67  C   TRP    32      50.801  55.180  18.809  1.00  0.00              
ATOM     68  O   TRP    32      51.278  56.252  18.461  1.00  0.00              
ATOM     69  N   HIS    33      51.100  54.590  19.969  1.00  0.00              
ATOM     70  CA  HIS    33      52.135  55.125  20.839  1.00  0.00              
ATOM     71  C   HIS    33      53.278  54.135  20.913  1.00  0.00              
ATOM     72  O   HIS    33      53.041  52.944  20.749  1.00  0.00              
ATOM     73  N   MET    34      54.486  54.630  21.157  1.00  0.00              
ATOM     74  CA  MET    34      55.663  53.793  21.281  1.00  0.00              
ATOM     75  C   MET    34      56.416  54.321  22.479  1.00  0.00              
ATOM     76  O   MET    34      56.145  55.434  22.896  1.00  0.00              
ATOM     77  N   VAL    35      57.302  53.522  23.072  1.00  0.00              
ATOM     78  CA  VAL    35      58.081  53.981  24.212  1.00  0.00              
ATOM     79  C   VAL    35      59.488  54.266  23.732  1.00  0.00              
ATOM     80  O   VAL    35      60.101  53.391  23.124  1.00  0.00              
ATOM     81  N   CYS    36      60.009  55.472  23.947  1.00  0.00              
ATOM     82  CA  CYS    36      61.321  55.767  23.396  1.00  0.00              
ATOM     83  C   CYS    36      62.478  55.598  24.353  1.00  0.00              
ATOM     84  O   CYS    36      62.306  55.706  25.551  1.00  0.00              
ATOM     85  N   TRP    40      57.098  58.884  25.599  1.00  0.00              
ATOM     86  CA  TRP    40      56.289  58.095  24.685  1.00  0.00              
ATOM     87  C   TRP    40      56.237  58.890  23.380  1.00  0.00              
ATOM     88  O   TRP    40      56.165  60.107  23.437  1.00  0.00              
ATOM     89  N   GLY    41      56.246  58.236  22.225  1.00  0.00              
ATOM     90  CA  GLY    41      56.091  58.891  20.934  1.00  0.00              
ATOM     91  C   GLY    41      54.704  58.590  20.408  1.00  0.00              
ATOM     92  O   GLY    41      54.258  57.451  20.416  1.00  0.00              
ATOM     93  N   ARG    42      53.992  59.640  20.031  1.00  0.00              
ATOM     94  CA  ARG    42      52.672  59.517  19.472  1.00  0.00              
ATOM     95  C   ARG    42      52.855  59.562  17.971  1.00  0.00              
ATOM     96  O   ARG    42      53.490  60.477  17.458  1.00  0.00              
ATOM     97  N   SER    43      52.380  58.522  17.296  1.00  0.00              
ATOM     98  CA  SER    43      52.548  58.394  15.860  1.00  0.00              
ATOM     99  C   SER    43      51.216  58.408  15.163  1.00  0.00              
ATOM    100  O   SER    43      50.421  57.502  15.362  1.00  0.00              
ATOM    101  N   SER    44      50.973  59.467  14.394  1.00  0.00              
ATOM    102  CA  SER    44      49.744  59.576  13.657  1.00  0.00              
ATOM    103  C   SER    44      50.074  59.350  12.208  1.00  0.00              
ATOM    104  O   SER    44      50.879  60.057  11.627  1.00  0.00              
ATOM    105  N   GLN    46      53.153  62.067  11.448  1.00  0.00              
ATOM    106  CA  GLN    46      53.368  63.146  12.397  1.00  0.00              
ATOM    107  C   GLN    46      53.794  62.473  13.693  1.00  0.00              
ATOM    108  O   GLN    46      53.053  61.678  14.253  1.00  0.00              
ATOM    109  N   TRP    47      55.002  62.744  14.149  1.00  0.00              
ATOM    110  CA  TRP    47      55.485  62.137  15.367  1.00  0.00              
ATOM    111  C   TRP    47      55.624  63.174  16.462  1.00  0.00              
ATOM    112  O   TRP    47      56.317  64.162  16.276  1.00  0.00              
ATOM    113  N   GLU    48      54.915  62.964  17.565  1.00  0.00              
ATOM    114  CA  GLU    48      54.916  63.863  18.720  1.00  0.00              
ATOM    115  C   GLU    48      55.456  63.153  19.957  1.00  0.00              
ATOM    116  O   GLU    48      55.245  61.955  20.113  1.00  0.00              
ATOM    117  N   ASP    49      56.103  63.876  20.864  1.00  0.00              
ATOM    118  CA  ASP    49      56.574  63.247  22.085  1.00  0.00              
ATOM    119  C   ASP    49      55.893  63.785  23.315  1.00  0.00              
ATOM    120  O   ASP    49      55.555  64.962  23.360  1.00  0.00              
ATOM    121  N   LYS    55      51.196  45.485  30.261  1.00  0.00              
ATOM    122  CA  LYS    55      49.839  45.087  29.920  1.00  0.00              
ATOM    123  C   LYS    55      49.169  46.310  29.335  1.00  0.00              
ATOM    124  O   LYS    55      49.397  47.433  29.805  1.00  0.00              
ATOM    125  N   VAL    56      48.370  46.113  28.300  1.00  0.00              
ATOM    126  CA  VAL    56      47.683  47.224  27.676  1.00  0.00              
ATOM    127  C   VAL    56      46.272  46.801  27.384  1.00  0.00              
ATOM    128  O   VAL    56      46.081  45.742  26.784  1.00  0.00              
ATOM    129  N   CYS    57      45.310  47.578  27.864  1.00  0.00              
ATOM    130  CA  CYS    57      43.910  47.313  27.555  1.00  0.00              
ATOM    131  C   CYS    57      43.452  48.320  26.520  1.00  0.00              
ATOM    132  O   CYS    57      43.247  49.478  26.845  1.00  0.00              
ATOM    133  N   ARG    59      44.251  51.895  28.757  1.00  0.00              
ATOM    134  CA  ARG    59      45.144  51.881  29.892  1.00  0.00              
ATOM    135  C   ARG    59      46.397  51.074  29.629  1.00  0.00              
ATOM    136  O   ARG    59      46.299  49.909  29.277  1.00  0.00              
ATOM    137  N   LEU    60      47.567  51.692  29.782  1.00  0.00              
ATOM    138  CA  LEU    60      48.843  51.002  29.638  1.00  0.00              
ATOM    139  C   LEU    60      49.376  50.771  31.061  1.00  0.00              
ATOM    140  O   LEU    60      49.511  51.725  31.816  1.00  0.00              
ATOM    141  N   ASN    61      49.632  49.534  31.492  1.00  0.00              
ATOM    142  CA  ASN    61      50.149  49.299  32.829  1.00  0.00              
ATOM    143  C   ASN    61      51.580  48.845  32.664  1.00  0.00              
ATOM    144  O   ASN    61      51.815  47.798  32.052  1.00  0.00              
ATOM    145  N   CYS    62      52.550  49.603  33.163  1.00  0.00              
ATOM    146  CA  CYS    62      53.926  49.217  32.908  1.00  0.00              
ATOM    147  C   CYS    62      54.785  49.152  34.164  1.00  0.00              
ATOM    148  O   CYS    62      55.158  50.172  34.762  1.00  0.00              
ATOM    149  N   GLY    63      55.169  47.954  34.593  1.00  0.00              
ATOM    150  CA  GLY    63      55.972  47.885  35.800  1.00  0.00              
ATOM    151  C   GLY    63      57.460  48.002  35.555  1.00  0.00              
ATOM    152  O   GLY    63      57.909  47.854  34.425  1.00  0.00              
ATOM    153  N   ILE    82      57.536  48.942  40.827  1.00  0.00              
ATOM    154  CA  ILE    82      56.884  50.244  40.748  1.00  0.00              
ATOM    155  C   ILE    82      56.068  50.191  39.486  1.00  0.00              
ATOM    156  O   ILE    82      56.537  49.602  38.506  1.00  0.00              
ATOM    157  N   CYS    83      54.835  50.671  39.555  1.00  0.00              
ATOM    158  CA  CYS    83      53.957  50.575  38.402  1.00  0.00              
ATOM    159  C   CYS    83      53.566  51.919  37.847  1.00  0.00              
ATOM    160  O   CYS    83      52.950  52.737  38.508  1.00  0.00              
ATOM    161  N   TYR    84      53.963  52.151  36.620  1.00  0.00              
ATOM    162  CA  TYR    84      53.558  53.350  35.937  1.00  0.00              
ATOM    163  C   TYR    84      52.255  53.035  35.228  1.00  0.00              
ATOM    164  O   TYR    84      52.179  52.018  34.552  1.00  0.00              
ATOM    165  N   GLY    85      51.265  53.918  35.287  1.00  0.00              
ATOM    166  CA  GLY    85      50.036  53.720  34.525  1.00  0.00              
ATOM    167  C   GLY    85      49.848  54.937  33.636  1.00  0.00              
ATOM    168  O   GLY    85      50.013  56.065  34.079  1.00  0.00              
ATOM    169  N   GLN    86      49.505  54.707  32.383  1.00  0.00              
ATOM    170  CA  GLN    86      49.308  55.792  31.446  1.00  0.00              
ATOM    171  C   GLN    86      47.937  55.615  30.858  1.00  0.00              
ATOM    172  O   GLN    86      47.604  54.514  30.469  1.00  0.00              
ATOM    173  N   LEU    87      47.133  56.676  30.820  1.00  0.00              
ATOM    174  CA  LEU    87      45.797  56.616  30.244  1.00  0.00              
ATOM    175  C   LEU    87      45.852  57.226  28.858  1.00  0.00              
ATOM    176  O   LEU    87      46.287  58.370  28.722  1.00  0.00              
ATOM    177  N   SER    89      47.885  60.711  29.342  1.00  0.00              
ATOM    178  CA  SER    89      47.754  61.303  30.660  1.00  0.00              
ATOM    179  C   SER    89      48.477  60.400  31.630  1.00  0.00              
ATOM    180  O   SER    89      48.143  59.224  31.744  1.00  0.00              
ATOM    181  N   PHE    90      49.480  60.924  32.306  1.00  0.00              
ATOM    182  CA  PHE    90      50.189  60.089  33.229  1.00  0.00              
ATOM    183  C   PHE    90      49.501  60.054  34.569  1.00  0.00              
ATOM    184  O   PHE    90      49.132  61.078  35.125  1.00  0.00              
ATOM    185  N   CYS    93      52.341  53.729  41.415  1.00  0.00              
ATOM    186  CA  CYS    93      51.908  52.887  42.516  1.00  0.00              
ATOM    187  C   CYS    93      52.993  51.860  42.775  1.00  0.00              
ATOM    188  O   CYS    93      53.635  51.433  41.835  1.00  0.00              
ATOM    189  N   SER    94      53.293  51.541  44.034  1.00  0.00              
ATOM    190  CA  SER    94      54.302  50.547  44.351  1.00  0.00              
ATOM    191  C   SER    94      53.617  49.210  44.603  1.00  0.00              
ATOM    192  O   SER    94      52.751  49.134  45.451  1.00  0.00              
ATOM    193  N   HIS    95      57.928  48.741  51.117  1.00  0.00              
ATOM    194  CA  HIS    95      59.328  48.943  51.386  1.00  0.00              
ATOM    195  C   HIS    95      59.964  47.776  52.127  1.00  0.00              
ATOM    196  O   HIS    95      61.086  47.332  51.834  1.00  0.00              
ATOM    197  N   SER    96      59.211  47.268  53.098  1.00  0.00              
ATOM    198  CA  SER    96      59.702  46.166  53.900  1.00  0.00              
ATOM    199  C   SER    96      59.823  44.921  53.051  1.00  0.00              
ATOM    200  O   SER    96      60.726  44.108  53.220  1.00  0.00              
ATOM    201  N   ARG    97      58.881  44.768  52.132  1.00  0.00              
ATOM    202  CA  ARG    97      58.953  43.611  51.263  1.00  0.00              
ATOM    203  C   ARG    97      60.189  43.696  50.392  1.00  0.00              
ATOM    204  O   ARG    97      60.955  42.741  50.244  1.00  0.00              
ATOM    205  N   ASN    98      60.400  44.870  49.820  1.00  0.00              
ATOM    206  CA  ASN    98      61.581  45.008  48.992  1.00  0.00              
ATOM    207  C   ASN    98      62.831  44.752  49.797  1.00  0.00              
ATOM    208  O   ASN    98      63.727  44.042  49.351  1.00  0.00              
ATOM    209  N   ASP    99      62.866  45.287  51.013  1.00  0.00              
ATOM    210  CA  ASP    99      64.025  45.038  51.859  1.00  0.00              
ATOM    211  C   ASP    99      64.224  43.548  52.057  1.00  0.00              
ATOM    212  O   ASP    99      65.328  43.079  52.301  1.00  0.00              
ATOM    213  N   CYS   101      61.765  40.942  47.827  1.00  0.00              
ATOM    214  CA  CYS   101      60.685  40.750  46.876  1.00  0.00              
ATOM    215  C   CYS   101      60.844  41.593  45.625  1.00  0.00              
ATOM    216  O   CYS   101      61.002  42.808  45.712  1.00  0.00              
ATOM    217  N   HIS   102      60.652  40.943  44.476  1.00  0.00              
ATOM    218  CA  HIS   102      60.717  41.587  43.176  1.00  0.00              
ATOM    219  C   HIS   102      59.847  40.859  42.170  1.00  0.00              
ATOM    220  O   HIS   102      59.717  39.635  42.266  1.00  0.00              
ATOM    221  N   SER   103      59.301  41.575  41.189  1.00  0.00              
ATOM    222  CA  SER   103      58.571  40.842  40.168  1.00  0.00              
ATOM    223  C   SER   103      59.597  40.038  39.383  1.00  0.00              
ATOM    224  O   SER   103      60.798  40.336  39.392  1.00  0.00              
ATOM    225  N   LEU   106      52.701  40.921  34.269  1.00  0.00              
ATOM    226  CA  LEU   106      51.574  41.712  34.723  1.00  0.00              
ATOM    227  C   LEU   106      50.355  41.497  33.868  1.00  0.00              
ATOM    228  O   LEU   106      50.468  41.263  32.670  1.00  0.00              
ATOM    229  N   THR   107      49.187  41.585  34.491  1.00  0.00              
ATOM    230  CA  THR   107      47.928  41.470  33.790  1.00  0.00              
ATOM    231  C   THR   107      47.018  42.542  34.327  1.00  0.00              
ATOM    232  O   THR   107      47.225  43.003  35.430  1.00  0.00              
ATOM    233  N   CYS   108      46.031  42.941  33.554  1.00  0.00              
ATOM    234  CA  CYS   108      45.138  44.009  33.959  1.00  0.00              
ATOM    235  C   CYS   108      43.710  43.644  33.604  1.00  0.00              
ATOM    236  O   CYS   108      43.435  43.272  32.468  1.00  0.00              
ATOM    237  N   LEU   109      42.809  43.703  34.590  1.00  0.00              
ATOM    238  CA  LEU   109      41.405  43.432  34.340  1.00  0.00              
ATOM    239  C   LEU   109      40.695  44.763  34.194  1.00  0.00              
ATOM    240  O   LEU   109      40.659  45.584  35.111  1.00  0.00              
END
