REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0052AL009_5 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : XU-YING 
REMARK  ---------------------------------------------------------- 
TARGET T0052  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0052 Cyanovirin-N, Nostoc ellipsosporum  
METHOD This prediction is based, in part, on a threading algorithm described in   
METHOD three publications:  
METHOD (i) "A polynomial-time algorithm for a class of protein threading  
METHOD problems", by Ying Xu and Edward C. Uberbacher, CABIOS (journal)   
METHOD Vol.12, No.6, 1996 pp.511-517  
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) "An Efficient Computational Method for Globally Optimal Threading",  
METHOD by Y. Xu, D. Xu, and E.C. Uberbacher, invited paper to appear in  
METHOD Journal of Computational Biology, 1998.  
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 to  
METHOD Protein Science.  
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: 1fc1_A 
ATOM      1  N   SER     5      58.088 124.301  42.442  1.00  0.00              
ATOM      2  CA  SER     5      58.199 125.739  42.629  1.00  0.00              
ATOM      3  C   SER     5      57.041 126.476  41.979  1.00  0.00              
ATOM      4  O   SER     5      56.791 126.330  40.757  1.00  0.00              
ATOM      5  N   GLN     6      56.320 127.174  42.817  1.00  0.00              
ATOM      6  CA  GLN     6      55.186 128.018  42.452  1.00  0.00              
ATOM      7  C   GLN     6      55.720 129.359  41.954  1.00  0.00              
ATOM      8  O   GLN     6      56.665 129.907  42.577  1.00  0.00              
ATOM      9  N   THR     7      55.425 129.661  40.695  1.00  0.00              
ATOM     10  CA  THR     7      56.080 130.755  39.953  1.00  0.00              
ATOM     11  C   THR     7      55.189 131.971  39.709  1.00  0.00              
ATOM     12  O   THR     7      54.131 131.850  39.040  1.00  0.00              
ATOM     13  N   CYS     8      55.612 133.124  40.168  1.00  0.00              
ATOM     14  CA  CYS     8      54.813 134.334  39.966  1.00  0.00              
ATOM     15  C   CYS     8      55.374 135.281  38.910  1.00  0.00              
ATOM     16  O   CYS     8      56.532 135.757  39.029  1.00  0.00              
ATOM     17  N   TYR     9      54.594 135.508  37.874  1.00  0.00              
ATOM     18  CA  TYR     9      55.006 136.362  36.756  1.00  0.00              
ATOM     19  C   TYR     9      54.172 137.629  36.576  1.00  0.00              
ATOM     20  O   TYR     9      52.936 137.550  36.379  1.00  0.00              
ATOM     21  N   ASN    10      54.838 138.770  36.606  1.00  0.00              
ATOM     22  CA  ASN    10      54.210 140.080  36.390  1.00  0.00              
ATOM     23  C   ASN    10      54.524 140.696  35.022  1.00  0.00              
ATOM     24  O   ASN    10      55.712 140.890  34.658  1.00  0.00              
ATOM     25  N   SER    11      53.472 140.913  34.250  1.00  0.00              
ATOM     26  CA  SER    11      53.523 141.489  32.896  1.00  0.00              
ATOM     27  C   SER    11      52.971 142.913  32.895  1.00  0.00              
ATOM     28  O   SER    11      52.367 143.309  33.920  1.00  0.00              
ATOM     29  N   THR    21      57.155 144.793  43.949  1.00  0.00              
ATOM     30  CA  THR    21      57.415 144.242  45.273  1.00  0.00              
ATOM     31  C   THR    21      56.546 143.024  45.550  1.00  0.00              
ATOM     32  O   THR    21      55.302 143.114  45.458  1.00  0.00              
ATOM     33  N   CYS    22      57.180 141.917  45.833  1.00  0.00              
ATOM     34  CA  CYS    22      56.502 140.640  46.061  1.00  0.00              
ATOM     35  C   CYS    22      56.333 140.313  47.538  1.00  0.00              
ATOM     36  O   CYS    22      57.281 140.531  48.333  1.00  0.00              
ATOM     37  N   GLU    23      55.178 139.728  47.858  1.00  0.00              
ATOM     38  CA  GLU    23      54.765 139.192  49.181  1.00  0.00              
ATOM     39  C   GLU    23      54.170 137.781  49.084  1.00  0.00              
ATOM     40  O   GLU    23      52.972 137.632  48.728  1.00  0.00              
ATOM     41  N   ARG    24      54.999 136.779  49.372  1.00  0.00              
ATOM     42  CA  ARG    24      54.693 135.335  49.315  1.00  0.00              
ATOM     43  C   ARG    24      54.206 134.787  50.645  1.00  0.00              
ATOM     44  O   ARG    24      54.984 134.799  51.631  1.00  0.00              
ATOM     45  N   THR    25      52.965 134.351  50.665  1.00  0.00              
ATOM     46  CA  THR    25      52.297 133.836  51.862  1.00  0.00              
ATOM     47  C   THR    25      51.908 132.364  51.727  1.00  0.00              
ATOM     48  O   THR    25      50.839 132.050  51.146  1.00  0.00              
ATOM     49  N   ASN    26      52.573 131.495  52.444  1.00  0.00              
ATOM     50  CA  ASN    26      52.089 130.109  52.520  1.00  0.00              
ATOM     51  C   ASN    26      51.053 129.861  53.599  1.00  0.00              
ATOM     52  O   ASN    26      51.391 129.671  54.792  1.00  0.00              
ATOM     53  N   ILE    34      50.772 132.160  56.485  1.00  0.00              
ATOM     54  CA  ILE    34      52.008 132.740  56.982  1.00  0.00              
ATOM     55  C   ILE    34      52.895 133.289  55.880  1.00  0.00              
ATOM     56  O   ILE    34      53.189 132.557  54.903  1.00  0.00              
ATOM     57  N   ASP    35      53.209 134.563  55.973  1.00  0.00              
ATOM     58  CA  ASP    35      54.175 135.104  55.029  1.00  0.00              
ATOM     59  C   ASP    35      55.466 134.321  55.190  1.00  0.00              
ATOM     60  O   ASP    35      56.041 134.263  56.306  1.00  0.00              
ATOM     61  N   SER    46      64.305 141.271  36.797  1.00  0.00              
ATOM     62  CA  SER    46      63.705 142.189  35.788  1.00  0.00              
ATOM     63  C   SER    46      64.127 141.934  34.334  1.00  0.00              
ATOM     64  O   SER    46      65.345 141.990  34.023  1.00  0.00              
ATOM     65  N   LEU    47      63.144 141.737  33.447  1.00  0.00              
ATOM     66  CA  LEU    47      63.333 141.583  31.982  1.00  0.00              
ATOM     67  C   LEU    47      62.703 142.697  31.155  1.00  0.00              
ATOM     68  O   LEU    47      61.519 143.044  31.379  1.00  0.00              
ATOM     69  N   LYS    48      63.459 143.220  30.207  1.00  0.00              
ATOM     70  CA  LYS    48      63.011 144.360  29.398  1.00  0.00              
ATOM     71  C   LYS    48      62.422 143.969  28.051  1.00  0.00              
ATOM     72  O   LYS    48      63.180 143.702  27.084  1.00  0.00              
ATOM     73  N   TRP    49      61.115 143.799  28.076  1.00  0.00              
ATOM     74  CA  TRP    49      60.299 143.236  26.989  1.00  0.00              
ATOM     75  C   TRP    49      59.808 144.235  25.943  1.00  0.00              
ATOM     76  O   TRP    49      60.175 145.441  26.000  1.00  0.00              
ATOM     77  N   ASN    53      57.943 147.328  27.423  1.00  0.00              
ATOM     78  CA  ASN    53      57.580 147.234  28.861  1.00  0.00              
ATOM     79  C   ASN    53      58.532 146.324  29.650  1.00  0.00              
ATOM     80  O   ASN    53      59.516 145.811  29.066  1.00  0.00              
ATOM     81  N   PHE    54      58.245 146.067  30.916  1.00  0.00              
ATOM     82  CA  PHE    54      59.022 145.109  31.718  1.00  0.00              
ATOM     83  C   PHE    54      58.268 143.837  32.123  1.00  0.00              
ATOM     84  O   PHE    54      57.010 143.821  32.164  1.00  0.00              
ATOM     85  N   ILE    55      59.042 142.829  32.490  1.00  0.00              
ATOM     86  CA  ILE    55      58.604 141.497  32.921  1.00  0.00              
ATOM     87  C   ILE    55      59.368 140.985  34.139  1.00  0.00              
ATOM     88  O   ILE    55      60.514 140.485  34.009  1.00  0.00              
ATOM     89  N   GLU    56      58.712 141.008  35.279  1.00  0.00              
ATOM     90  CA  GLU    56      59.298 140.522  36.529  1.00  0.00              
ATOM     91  C   GLU    56      58.730 139.190  37.000  1.00  0.00              
ATOM     92  O   GLU    56      57.496 139.071  37.191  1.00  0.00              
ATOM     93  N   THR    57      59.616 138.244  37.233  1.00  0.00              
ATOM     94  CA  THR    57      59.281 136.919  37.755  1.00  0.00              
ATOM     95  C   THR    57      60.008 136.580  39.050  1.00  0.00              
ATOM     96  O   THR    57      61.261 136.466  39.059  1.00  0.00              
ATOM     97  N   CYS    58      59.219 136.178  40.026  1.00  0.00              
ATOM     98  CA  CYS    58      59.734 135.557  41.249  1.00  0.00              
ATOM     99  C   CYS    58      59.268 134.122  41.448  1.00  0.00              
ATOM    100  O   CYS    58      58.220 133.721  40.885  1.00  0.00              
ATOM    101  N   ARG    59      60.084 133.354  42.138  1.00  0.00              
ATOM    102  CA  ARG    59      59.819 131.927  42.380  1.00  0.00              
ATOM    103  C   ARG    59      59.930 131.542  43.852  1.00  0.00              
ATOM    104  O   ARG    59      60.977 131.807  44.495  1.00  0.00              
ATOM    105  N   ASN    60      58.922 130.829  44.321  1.00  0.00              
ATOM    106  CA  ASN    60      58.904 130.237  45.662  1.00  0.00              
ATOM    107  C   ASN    60      58.991 128.715  45.615  1.00  0.00              
ATOM    108  O   ASN    60      58.017 128.062  45.162  1.00  0.00              
ATOM    109  N   THR    61      60.098 128.170  46.056  1.00  0.00              
ATOM    110  CA  THR    61      60.308 126.717  46.100  1.00  0.00              
ATOM    111  C   THR    61      59.382 125.998  47.071  1.00  0.00              
ATOM    112  O   THR    61      59.567 126.113  48.305  1.00  0.00              
ATOM    113  N   GLY    65      57.231 119.707  49.101  1.00  0.00              
ATOM    114  CA  GLY    65      56.419 118.623  48.526  1.00  0.00              
ATOM    115  C   GLY    65      55.159 118.326  49.318  1.00  0.00              
ATOM    116  O   GLY    65      54.072 118.151  48.706  1.00  0.00              
ATOM    117  N   SER    66      55.377 118.150  50.609  1.00  0.00              
ATOM    118  CA  SER    66      54.364 117.709  51.575  1.00  0.00              
ATOM    119  C   SER    66      53.295 118.767  51.798  1.00  0.00              
ATOM    120  O   SER    66      52.084 118.434  51.798  1.00  0.00              
ATOM    121  N   SER    67      53.742 120.004  51.844  1.00  0.00              
ATOM    122  CA  SER    67      52.848 121.171  51.948  1.00  0.00              
ATOM    123  C   SER    67      51.927 121.243  50.740  1.00  0.00              
ATOM    124  O   SER    67      50.693 121.404  50.898  1.00  0.00              
ATOM    125  N   GLU    68      52.522 120.985  49.593  1.00  0.00              
ATOM    126  CA  GLU    68      51.782 120.908  48.331  1.00  0.00              
ATOM    127  C   GLU    68      50.714 119.825  48.368  1.00  0.00              
ATOM    128  O   GLU    68      49.504 120.125  48.203  1.00  0.00              
ATOM    129  N   LEU    69      51.162 118.630  48.614  1.00  0.00              
ATOM    130  CA  LEU    69      50.297 117.455  48.635  1.00  0.00              
ATOM    131  C   LEU    69      49.213 117.438  49.718  1.00  0.00              
ATOM    132  O   LEU    69      48.160 116.774  49.529  1.00  0.00              
ATOM    133  N   ALA    71      48.889 129.069  48.472  1.00  0.00              
ATOM    134  CA  ALA    71      50.075 129.851  48.130  1.00  0.00              
ATOM    135  C   ALA    71      49.651 131.194  47.563  1.00  0.00              
ATOM    136  O   ALA    71      48.941 131.214  46.534  1.00  0.00              
ATOM    137  N   GLU    72      49.904 132.263  48.293  1.00  0.00              
ATOM    138  CA  GLU    72      49.506 133.589  47.814  1.00  0.00              
ATOM    139  C   GLU    72      50.704 134.413  47.398  1.00  0.00              
ATOM    140  O   GLU    72      51.532 134.745  48.276  1.00  0.00              
ATOM    141  N   CYS    73      50.672 134.851  46.157  1.00  0.00              
ATOM    142  CA  CYS    73      51.581 135.851  45.599  1.00  0.00              
ATOM    143  C   CYS    73      50.885 137.201  45.493  1.00  0.00              
ATOM    144  O   CYS    73      49.880 137.316  44.749  1.00  0.00              
ATOM    145  N   LYS    74      51.315 138.111  46.354  1.00  0.00              
ATOM    146  CA  LYS    74      50.736 139.441  46.522  1.00  0.00              
ATOM    147  C   LYS    74      51.743 140.499  46.133  1.00  0.00              
ATOM    148  O   LYS    74      52.835 140.554  46.739  1.00  0.00              
ATOM    149  N   THR    75      51.470 141.137  45.025  1.00  0.00              
ATOM    150  CA  THR    75      52.397 142.047  44.353  1.00  0.00              
ATOM    151  C   THR    75      51.983 143.507  44.449  1.00  0.00              
ATOM    152  O   THR    75      50.846 143.873  44.057  1.00  0.00              
ATOM    153  N   ARG    76      52.907 144.300  44.943  1.00  0.00              
ATOM    154  CA  ARG    76      52.805 145.755  45.085  1.00  0.00              
ATOM    155  C   ARG    76      53.620 146.444  43.994  1.00  0.00              
ATOM    156  O   ARG    76      54.743 145.980  43.689  1.00  0.00              
ATOM    157  N   ILE    94      47.900 143.372  43.741  1.00  0.00              
ATOM    158  CA  ILE    94      47.253 142.175  43.209  1.00  0.00              
ATOM    159  C   ILE    94      47.629 140.926  43.993  1.00  0.00              
ATOM    160  O   ILE    94      48.813 140.502  43.985  1.00  0.00              
ATOM    161  N   ASP    95      46.641 140.291  44.561  1.00  0.00              
ATOM    162  CA  ASP    95      46.870 138.986  45.165  1.00  0.00              
ATOM    163  C   ASP    95      46.326 137.829  44.319  1.00  0.00              
ATOM    164  O   ASP    95      45.172 137.871  43.821  1.00  0.00              
ATOM    165  N   GLY    96      47.145 136.812  44.150  1.00  0.00              
ATOM    166  CA  GLY    96      46.782 135.569  43.464  1.00  0.00              
ATOM    167  C   GLY    96      47.123 134.347  44.305  1.00  0.00              
ATOM    168  O   GLY    96      48.232 134.287  44.877  1.00  0.00              
ATOM    169  N   THR    97      46.160 133.509  44.568  1.00  0.00              
ATOM    170  CA  THR    97      46.371 132.390  45.494  1.00  0.00              
ATOM    171  C   THR    97      46.187 131.051  44.789  1.00  0.00              
ATOM    172  O   THR    97      45.421 130.984  43.798  1.00  0.00              
ATOM    173  N   LEU    98      46.955 130.057  45.169  1.00  0.00              
ATOM    174  CA  LEU    98      46.939 128.767  44.473  1.00  0.00              
ATOM    175  C   LEU    98      47.068 127.576  45.417  1.00  0.00              
ATOM    176  O   LEU    98      47.590 127.756  46.539  1.00  0.00              
END
