REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0052AL009_1_2 
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 1 UNREFINED   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1rbp 
ATOM      1  N   SER    52      24.360  33.783  37.443  1.00  0.00              
ATOM      2  CA  SER    52      24.144  33.336  38.818  1.00  0.00              
ATOM      3  C   SER    52      23.482  31.984  38.903  1.00  0.00              
ATOM      4  O   SER    52      22.683  31.664  38.025  1.00  0.00              
ATOM      5  N   ASN    53      23.813  31.292  40.009  1.00  0.00              
ATOM      6  CA  ASN    53      23.187  30.052  40.447  1.00  0.00              
ATOM      7  C   ASN    53      22.959  30.059  41.953  1.00  0.00              
ATOM      8  O   ASN    53      23.705  30.675  42.714  1.00  0.00              
ATOM      9  N   PHE    54      21.885  29.403  42.391  1.00  0.00              
ATOM     10  CA  PHE    54      21.589  29.184  43.816  1.00  0.00              
ATOM     11  C   PHE    54      21.392  27.657  43.916  1.00  0.00              
ATOM     12  O   PHE    54      20.587  26.999  43.255  1.00  0.00              
ATOM     13  N   ILE    55      22.248  27.056  44.718  1.00  0.00              
ATOM     14  CA  ILE    55      22.127  25.675  45.080  1.00  0.00              
ATOM     15  C   ILE    55      21.627  25.588  46.540  1.00  0.00              
ATOM     16  O   ILE    55      21.760  26.515  47.329  1.00  0.00              
ATOM     17  N   GLU    56      21.081  24.426  46.933  1.00  0.00              
ATOM     18  CA  GLU    56      20.644  24.120  48.285  1.00  0.00              
ATOM     19  C   GLU    56      20.654  22.599  48.464  1.00  0.00              
ATOM     20  O   GLU    56      20.358  21.782  47.583  1.00  0.00              
ATOM     21  N   THR    57      21.002  22.248  49.694  1.00  0.00              
ATOM     22  CA  THR    57      20.985  20.863  50.117  1.00  0.00              
ATOM     23  C   THR    57      20.510  20.843  51.565  1.00  0.00              
ATOM     24  O   THR    57      21.024  21.566  52.411  1.00  0.00              
ATOM     25  N   CYS    58      19.470  20.072  51.841  1.00  0.00              
ATOM     26  CA  CYS    58      19.045  19.808  53.200  1.00  0.00              
ATOM     27  C   CYS    58      19.608  18.408  53.492  1.00  0.00              
ATOM     28  O   CYS    58      19.326  17.414  52.798  1.00  0.00              
ATOM     29  N   ARG    59      20.471  18.356  54.511  1.00  0.00              
ATOM     30  CA  ARG    59      21.102  17.118  54.968  1.00  0.00              
ATOM     31  C   ARG    59      20.199  16.378  55.945  1.00  0.00              
ATOM     32  O   ARG    59      20.303  15.153  56.086  1.00  0.00              
ATOM     33  N   ASN    60      19.310  17.125  56.609  1.00  0.00              
ATOM     34  CA  ASN    60      18.453  16.553  57.616  1.00  0.00              
ATOM     35  C   ASN    60      17.263  17.462  57.846  1.00  0.00              
ATOM     36  O   ASN    60      17.352  18.686  57.951  1.00  0.00              
ATOM     37  N   THR    61      16.152  16.739  57.885  1.00  0.00              
ATOM     38  CA  THR    61      14.844  17.305  58.064  1.00  0.00              
ATOM     39  C   THR    61      14.393  17.154  59.481  1.00  0.00              
ATOM     40  O   THR    61      14.593  16.148  60.137  1.00  0.00              
ATOM     41  N   ASN    62      13.804  18.224  59.951  1.00  0.00              
ATOM     42  CA  ASN    62      13.097  18.195  61.202  1.00  0.00              
ATOM     43  C   ASN    62      11.795  17.456  60.937  1.00  0.00              
ATOM     44  O   ASN    62      11.387  17.240  59.771  1.00  0.00              
ATOM     45  N   LEU    63      11.142  17.103  62.067  1.00  0.00              
ATOM     46  CA  LEU    63       9.890  16.345  62.026  1.00  0.00              
ATOM     47  C   LEU    63       8.716  17.150  61.445  1.00  0.00              
ATOM     48  O   LEU    63       7.774  16.570  60.861  1.00  0.00              
ATOM     49  N   CYS    73      14.163  22.087  57.465  1.00  0.00              
ATOM     50  CA  CYS    73      15.496  21.513  57.385  1.00  0.00              
ATOM     51  C   CYS    73      16.295  21.856  58.601  1.00  0.00              
ATOM     52  O   CYS    73      16.407  23.028  58.911  1.00  0.00              
ATOM     53  N   LYS    74      16.751  20.821  59.299  1.00  0.00              
ATOM     54  CA  LYS    74      17.539  20.879  60.525  1.00  0.00              
ATOM     55  C   LYS    74      19.024  21.027  60.324  1.00  0.00              
ATOM     56  O   LYS    74      19.777  21.221  61.266  1.00  0.00              
ATOM     57  N   THR    75      19.492  20.859  59.108  1.00  0.00              
ATOM     58  CA  THR    75      20.891  20.999  58.780  1.00  0.00              
ATOM     59  C   THR    75      20.939  21.141  57.258  1.00  0.00              
ATOM     60  O   THR    75      20.681  20.189  56.525  1.00  0.00              
ATOM     61  N   ARG    76      21.252  22.334  56.772  1.00  0.00              
ATOM     62  CA  ARG    76      21.361  22.574  55.349  1.00  0.00              
ATOM     63  C   ARG    76      22.642  23.326  55.045  1.00  0.00              
ATOM     64  O   ARG    76      23.331  23.813  55.954  1.00  0.00              
ATOM     65  N   ALA    77      22.967  23.374  53.753  1.00  0.00              
ATOM     66  CA  ALA    77      23.985  24.287  53.260  1.00  0.00              
ATOM     67  C   ALA    77      23.522  24.887  51.932  1.00  0.00              
ATOM     68  O   ALA    77      22.736  24.273  51.215  1.00  0.00              
ATOM     69  N   GLN    78      23.979  26.075  51.542  1.00  0.00              
ATOM     70  CA  GLN    78      23.577  26.647  50.274  1.00  0.00              
ATOM     71  C   GLN    78      24.703  27.427  49.649  1.00  0.00              
ATOM     72  O   GLN    78      25.536  27.984  50.356  1.00  0.00              
ATOM     73  N   GLN    79      24.806  27.482  48.331  1.00  0.00              
ATOM     74  CA  GLN    79      25.823  28.316  47.712  1.00  0.00              
ATOM     75  C   GLN    79      25.198  29.200  46.670  1.00  0.00              
ATOM     76  O   GLN    79      24.200  28.869  46.031  1.00  0.00              
ATOM     77  N   PHE    80      25.824  30.374  46.550  1.00  0.00              
ATOM     78  CA  PHE    80      25.458  31.371  45.555  1.00  0.00              
ATOM     79  C   PHE    80      26.657  31.423  44.630  1.00  0.00              
ATOM     80  O   PHE    80      27.745  31.818  45.005  1.00  0.00              
ATOM     81  N   VAL    81      26.474  30.927  43.423  1.00  0.00              
ATOM     82  CA  VAL    81      27.490  30.928  42.385  1.00  0.00              
ATOM     83  C   VAL    81      27.360  32.122  41.418  1.00  0.00              
ATOM     84  O   VAL    81      26.312  32.721  41.205  1.00  0.00              
ATOM     85  N   SER    82      28.496  32.477  40.854  1.00  0.00              
ATOM     86  CA  SER    82      28.660  33.567  39.918  1.00  0.00              
ATOM     87  C   SER    82      29.491  33.074  38.743  1.00  0.00              
ATOM     88  O   SER    82      30.433  32.303  38.893  1.00  0.00              
ATOM     89  N   THR    83      29.160  33.497  37.542  1.00  0.00              
ATOM     90  CA  THR    83      29.977  33.184  36.382  1.00  0.00              
ATOM     91  C   THR    83      31.287  33.963  36.385  1.00  0.00              
ATOM     92  O   THR    83      32.337  33.543  35.880  1.00  0.00              
ATOM     93  N   ALA    92      24.082  44.207  40.532  1.00  0.00              
ATOM     94  CA  ALA    92      23.040  44.599  41.475  1.00  0.00              
ATOM     95  C   ALA    92      21.728  43.912  41.190  1.00  0.00              
ATOM     96  O   ALA    92      21.059  43.438  42.084  1.00  0.00              
ATOM     97  N   ASN    93      21.457  43.762  39.905  1.00  0.00              
ATOM     98  CA  ASN    93      20.339  43.027  39.340  1.00  0.00              
ATOM     99  C   ASN    93      20.237  41.580  39.822  1.00  0.00              
ATOM    100  O   ASN    93      19.202  41.177  40.376  1.00  0.00              
ATOM    101  N   ILE    94      21.315  40.798  39.608  1.00  0.00              
ATOM    102  CA  ILE    94      21.382  39.409  40.061  1.00  0.00              
ATOM    103  C   ILE    94      21.280  39.325  41.559  1.00  0.00              
ATOM    104  O   ILE    94      20.593  38.456  42.054  1.00  0.00              
ATOM    105  N   ASP    95      21.923  40.248  42.264  1.00  0.00              
ATOM    106  CA  ASP    95      21.895  40.327  43.722  1.00  0.00              
ATOM    107  C   ASP    95      20.488  40.370  44.301  1.00  0.00              
ATOM    108  O   ASP    95      20.147  39.579  45.176  1.00  0.00              
ATOM    109  N   GLY    96      19.615  41.244  43.776  1.00  0.00              
ATOM    110  CA  GLY    96      18.213  41.356  44.186  1.00  0.00              
ATOM    111  C   GLY    96      17.445  40.023  44.068  1.00  0.00              
ATOM    112  O   GLY    96      16.752  39.571  44.990  1.00  0.00              
ATOM    113  N   THR    97      17.624  39.307  42.948  1.00  0.00              
ATOM    114  CA  THR    97      16.984  38.006  42.744  1.00  0.00              
ATOM    115  C   THR    97      17.506  36.965  43.739  1.00  0.00              
ATOM    116  O   THR    97      16.706  36.303  44.412  1.00  0.00              
ATOM    117  N   LEU    98      18.840  36.901  43.869  1.00  0.00              
ATOM    118  CA  LEU    98      19.510  36.016  44.789  1.00  0.00              
ATOM    119  C   LEU    98      18.984  36.324  46.190  1.00  0.00              
ATOM    120  O   LEU    98      18.556  35.337  46.772  1.00  0.00              
ATOM    121  N   LYS    99      18.895  37.539  46.790  1.00  0.00              
ATOM    122  CA  LYS    99      18.335  37.699  48.134  1.00  0.00              
ATOM    123  C   LYS    99      16.873  37.248  48.207  1.00  0.00              
ATOM    124  O   LYS    99      16.477  36.629  49.208  1.00  0.00              
ATOM    125  N   TYR   100      16.088  37.486  47.135  1.00  0.00              
ATOM    126  CA  TYR   100      14.705  37.007  47.039  1.00  0.00              
ATOM    127  C   TYR   100      14.647  35.476  47.289  1.00  0.00              
ATOM    128  O   TYR   100      13.946  34.974  48.178  1.00  0.00              
ATOM    129  N   GLU   101      15.519  34.750  46.589  1.00  0.00              
ATOM    130  CA  GLU   101      15.620  33.305  46.679  1.00  0.00              
ATOM    131  C   GLU   101      16.095  32.911  48.042  1.00  0.00              
ATOM    132  O   GLU   101      15.603  31.900  48.497  1.00  0.00              
END
