REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0052AL009_1_1 
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   GLY     2      24.360  33.783  37.443  1.00  0.00              
ATOM      2  CA  GLY     2      24.144  33.336  38.818  1.00  0.00              
ATOM      3  C   GLY     2      23.482  31.984  38.903  1.00  0.00              
ATOM      4  O   GLY     2      22.683  31.664  38.025  1.00  0.00              
ATOM      5  N   LYS     3      23.813  31.292  40.009  1.00  0.00              
ATOM      6  CA  LYS     3      23.187  30.052  40.447  1.00  0.00              
ATOM      7  C   LYS     3      22.959  30.059  41.953  1.00  0.00              
ATOM      8  O   LYS     3      23.705  30.675  42.714  1.00  0.00              
ATOM      9  N   PHE     4      21.885  29.403  42.391  1.00  0.00              
ATOM     10  CA  PHE     4      21.589  29.184  43.816  1.00  0.00              
ATOM     11  C   PHE     4      21.392  27.657  43.916  1.00  0.00              
ATOM     12  O   PHE     4      20.587  26.999  43.255  1.00  0.00              
ATOM     13  N   SER     5      22.248  27.056  44.718  1.00  0.00              
ATOM     14  CA  SER     5      22.127  25.675  45.080  1.00  0.00              
ATOM     15  C   SER     5      21.627  25.588  46.540  1.00  0.00              
ATOM     16  O   SER     5      21.760  26.515  47.329  1.00  0.00              
ATOM     17  N   GLN     6      21.081  24.426  46.933  1.00  0.00              
ATOM     18  CA  GLN     6      20.644  24.120  48.285  1.00  0.00              
ATOM     19  C   GLN     6      20.654  22.599  48.464  1.00  0.00              
ATOM     20  O   GLN     6      20.358  21.782  47.583  1.00  0.00              
ATOM     21  N   THR     7      21.002  22.248  49.694  1.00  0.00              
ATOM     22  CA  THR     7      20.985  20.863  50.117  1.00  0.00              
ATOM     23  C   THR     7      20.510  20.843  51.565  1.00  0.00              
ATOM     24  O   THR     7      21.024  21.566  52.411  1.00  0.00              
ATOM     25  N   CYS     8      19.470  20.072  51.841  1.00  0.00              
ATOM     26  CA  CYS     8      19.045  19.808  53.200  1.00  0.00              
ATOM     27  C   CYS     8      19.608  18.408  53.492  1.00  0.00              
ATOM     28  O   CYS     8      19.326  17.414  52.798  1.00  0.00              
ATOM     29  N   TYR     9      20.471  18.356  54.511  1.00  0.00              
ATOM     30  CA  TYR     9      21.102  17.118  54.968  1.00  0.00              
ATOM     31  C   TYR     9      20.199  16.378  55.945  1.00  0.00              
ATOM     32  O   TYR     9      20.303  15.153  56.086  1.00  0.00              
ATOM     33  N   ASN    10      19.310  17.125  56.609  1.00  0.00              
ATOM     34  CA  ASN    10      18.453  16.553  57.616  1.00  0.00              
ATOM     35  C   ASN    10      17.263  17.462  57.846  1.00  0.00              
ATOM     36  O   ASN    10      17.352  18.686  57.951  1.00  0.00              
ATOM     37  N   SER    11      16.152  16.739  57.885  1.00  0.00              
ATOM     38  CA  SER    11      14.844  17.305  58.064  1.00  0.00              
ATOM     39  C   SER    11      14.393  17.154  59.481  1.00  0.00              
ATOM     40  O   SER    11      14.593  16.148  60.137  1.00  0.00              
ATOM     41  N   THR    21      10.690  21.082  57.873  1.00  0.00              
ATOM     42  CA  THR    21      11.743  22.053  57.647  1.00  0.00              
ATOM     43  C   THR    21      13.088  21.366  57.742  1.00  0.00              
ATOM     44  O   THR    21      13.167  20.190  58.066  1.00  0.00              
ATOM     45  N   CYS    22      14.163  22.087  57.465  1.00  0.00              
ATOM     46  CA  CYS    22      15.496  21.513  57.385  1.00  0.00              
ATOM     47  C   CYS    22      16.295  21.856  58.601  1.00  0.00              
ATOM     48  O   CYS    22      16.407  23.028  58.911  1.00  0.00              
ATOM     49  N   GLU    23      16.751  20.821  59.299  1.00  0.00              
ATOM     50  CA  GLU    23      17.539  20.879  60.525  1.00  0.00              
ATOM     51  C   GLU    23      19.024  21.027  60.324  1.00  0.00              
ATOM     52  O   GLU    23      19.777  21.221  61.266  1.00  0.00              
ATOM     53  N   ARG    24      19.492  20.859  59.108  1.00  0.00              
ATOM     54  CA  ARG    24      20.891  20.999  58.780  1.00  0.00              
ATOM     55  C   ARG    24      20.939  21.141  57.258  1.00  0.00              
ATOM     56  O   ARG    24      20.681  20.189  56.525  1.00  0.00              
ATOM     57  N   THR    25      21.252  22.334  56.772  1.00  0.00              
ATOM     58  CA  THR    25      21.361  22.574  55.349  1.00  0.00              
ATOM     59  C   THR    25      22.642  23.326  55.045  1.00  0.00              
ATOM     60  O   THR    25      23.331  23.813  55.954  1.00  0.00              
ATOM     61  N   ASN    26      22.967  23.374  53.753  1.00  0.00              
ATOM     62  CA  ASN    26      23.985  24.287  53.260  1.00  0.00              
ATOM     63  C   ASN    26      23.522  24.887  51.932  1.00  0.00              
ATOM     64  O   ASN    26      22.736  24.273  51.215  1.00  0.00              
ATOM     65  N   GLY    27      23.979  26.075  51.542  1.00  0.00              
ATOM     66  CA  GLY    27      23.577  26.647  50.274  1.00  0.00              
ATOM     67  C   GLY    27      24.703  27.427  49.649  1.00  0.00              
ATOM     68  O   GLY    27      25.536  27.984  50.356  1.00  0.00              
ATOM     69  N   GLY    28      24.806  27.482  48.331  1.00  0.00              
ATOM     70  CA  GLY    28      25.823  28.316  47.712  1.00  0.00              
ATOM     71  C   GLY    28      25.198  29.200  46.670  1.00  0.00              
ATOM     72  O   GLY    28      24.200  28.869  46.031  1.00  0.00              
ATOM     73  N   TYR    29      25.824  30.374  46.550  1.00  0.00              
ATOM     74  CA  TYR    29      25.458  31.371  45.555  1.00  0.00              
ATOM     75  C   TYR    29      26.657  31.423  44.630  1.00  0.00              
ATOM     76  O   TYR    29      27.745  31.818  45.005  1.00  0.00              
ATOM     77  N   ASN    30      26.474  30.927  43.423  1.00  0.00              
ATOM     78  CA  ASN    30      27.490  30.928  42.385  1.00  0.00              
ATOM     79  C   ASN    30      27.360  32.122  41.418  1.00  0.00              
ATOM     80  O   ASN    30      26.312  32.721  41.205  1.00  0.00              
ATOM     81  N   THR    31      28.496  32.477  40.854  1.00  0.00              
ATOM     82  CA  THR    31      28.660  33.567  39.918  1.00  0.00              
ATOM     83  C   THR    31      29.491  33.074  38.743  1.00  0.00              
ATOM     84  O   THR    31      30.433  32.303  38.893  1.00  0.00              
ATOM     85  N   ILE    34      24.082  44.207  40.532  1.00  0.00              
ATOM     86  CA  ILE    34      23.040  44.599  41.475  1.00  0.00              
ATOM     87  C   ILE    34      21.728  43.912  41.190  1.00  0.00              
ATOM     88  O   ILE    34      21.059  43.438  42.084  1.00  0.00              
ATOM     89  N   ASP    35      21.457  43.762  39.905  1.00  0.00              
ATOM     90  CA  ASP    35      20.339  43.027  39.340  1.00  0.00              
ATOM     91  C   ASP    35      20.237  41.580  39.822  1.00  0.00              
ATOM     92  O   ASP    35      19.202  41.177  40.376  1.00  0.00              
ATOM     93  N   LEU    36      21.315  40.798  39.608  1.00  0.00              
ATOM     94  CA  LEU    36      21.382  39.409  40.061  1.00  0.00              
ATOM     95  C   LEU    36      21.280  39.325  41.559  1.00  0.00              
ATOM     96  O   LEU    36      20.593  38.456  42.054  1.00  0.00              
ATOM     97  N   ASN    37      21.923  40.248  42.264  1.00  0.00              
ATOM     98  CA  ASN    37      21.895  40.327  43.722  1.00  0.00              
ATOM     99  C   ASN    37      20.488  40.370  44.301  1.00  0.00              
ATOM    100  O   ASN    37      20.147  39.579  45.176  1.00  0.00              
ATOM    101  N   SER    38      19.615  41.244  43.776  1.00  0.00              
ATOM    102  CA  SER    38      18.213  41.356  44.186  1.00  0.00              
ATOM    103  C   SER    38      17.445  40.023  44.068  1.00  0.00              
ATOM    104  O   SER    38      16.752  39.571  44.990  1.00  0.00              
ATOM    105  N   VAL    39      17.624  39.307  42.948  1.00  0.00              
ATOM    106  CA  VAL    39      16.984  38.006  42.744  1.00  0.00              
ATOM    107  C   VAL    39      17.506  36.965  43.739  1.00  0.00              
ATOM    108  O   VAL    39      16.706  36.303  44.412  1.00  0.00              
ATOM    109  N   ILE    40      18.840  36.901  43.869  1.00  0.00              
ATOM    110  CA  ILE    40      19.510  36.016  44.789  1.00  0.00              
ATOM    111  C   ILE    40      18.984  36.324  46.190  1.00  0.00              
ATOM    112  O   ILE    40      18.556  35.337  46.772  1.00  0.00              
ATOM    113  N   GLU    41      18.895  37.539  46.790  1.00  0.00              
ATOM    114  CA  GLU    41      18.335  37.699  48.134  1.00  0.00              
ATOM    115  C   GLU    41      16.873  37.248  48.207  1.00  0.00              
ATOM    116  O   GLU    41      16.477  36.629  49.208  1.00  0.00              
ATOM    117  N   ASN    42      16.088  37.486  47.135  1.00  0.00              
ATOM    118  CA  ASN    42      14.705  37.007  47.039  1.00  0.00              
ATOM    119  C   ASN    42      14.647  35.476  47.289  1.00  0.00              
ATOM    120  O   ASN    42      13.946  34.974  48.178  1.00  0.00              
ATOM    121  N   VAL    43      15.519  34.750  46.589  1.00  0.00              
ATOM    122  CA  VAL    43      15.620  33.305  46.679  1.00  0.00              
ATOM    123  C   VAL    43      16.095  32.911  48.042  1.00  0.00              
ATOM    124  O   VAL    43      15.603  31.900  48.497  1.00  0.00              
ATOM    125  N   ASP    44      17.011  33.638  48.699  1.00  0.00              
ATOM    126  CA  ASP    44      17.525  33.280  50.016  1.00  0.00              
ATOM    127  C   ASP    44      16.454  33.325  51.086  1.00  0.00              
ATOM    128  O   ASP    44      16.372  32.442  51.949  1.00  0.00              
ATOM    129  N   GLY    45      15.623  34.367  50.970  1.00  0.00              
ATOM    130  CA  GLY    45      14.466  34.546  51.833  1.00  0.00              
ATOM    131  C   GLY    45      13.485  33.377  51.582  1.00  0.00              
ATOM    132  O   GLY    45      12.985  32.751  52.526  1.00  0.00              
ATOM    133  N   SER    46      13.235  33.019  50.307  1.00  0.00              
ATOM    134  CA  SER    46      12.424  31.857  49.939  1.00  0.00              
ATOM    135  C   SER    46      12.946  30.520  50.520  1.00  0.00              
ATOM    136  O   SER    46      12.191  29.604  50.865  1.00  0.00              
ATOM    137  N   LEU    47      14.253  30.394  50.707  1.00  0.00              
ATOM    138  CA  LEU    47      14.791  29.172  51.245  1.00  0.00              
ATOM    139  C   LEU    47      14.832  29.174  52.763  1.00  0.00              
ATOM    140  O   LEU    47      15.328  28.222  53.368  1.00  0.00              
END
