REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0074AL009_1 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : XU-YING 
REMARK  ---------------------------------------------------------- 
TARGET T0074  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0074, the second EH domain of eps15  
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 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: 1ahr 
ATOM      1  N   ASP   128      22.844  34.020  23.522  1.00  0.00              
ATOM      2  CA  ASP   128      23.110  33.345  24.785  1.00  0.00              
ATOM      3  C   ASP   128      22.830  34.192  26.003  1.00  0.00              
ATOM      4  O   ASP   128      22.208  33.723  26.925  1.00  0.00              
ATOM      5  N   LYS   129      23.287  35.436  26.018  1.00  0.00              
ATOM      6  CA  LYS   129      23.048  36.300  27.163  1.00  0.00              
ATOM      7  C   LYS   129      21.553  36.475  27.380  1.00  0.00              
ATOM      8  O   LYS   129      21.095  36.699  28.504  1.00  0.00              
ATOM      9  N   ALA   130      20.803  36.449  26.285  1.00  0.00              
ATOM     10  CA  ALA   130      19.363  36.662  26.328  1.00  0.00              
ATOM     11  C   ALA   130      18.604  35.504  26.870  1.00  0.00              
ATOM     12  O   ALA   130      17.636  35.704  27.595  1.00  0.00              
ATOM     13  N   LYS   131      19.014  34.295  26.493  1.00  0.00              
ATOM     14  CA  LYS   131      18.343  33.110  26.988  1.00  0.00              
ATOM     15  C   LYS   131      18.706  32.875  28.465  1.00  0.00              
ATOM     16  O   LYS   131      17.898  32.342  29.202  1.00  0.00              
ATOM     17  N   TYR   132      19.894  33.313  28.899  1.00  0.00              
ATOM     18  CA  TYR   132      20.326  33.186  30.317  1.00  0.00              
ATOM     19  C   TYR   132      19.537  34.233  31.136  1.00  0.00              
ATOM     20  O   TYR   132      19.227  34.018  32.293  1.00  0.00              
ATOM     21  N   ASP   133      19.254  35.376  30.516  1.00  0.00              
ATOM     22  CA  ASP   133      18.507  36.456  31.151  1.00  0.00              
ATOM     23  C   ASP   133      17.083  35.992  31.304  1.00  0.00              
ATOM     24  O   ASP   133      16.472  36.200  32.342  1.00  0.00              
ATOM     25  N   ALA   134      16.540  35.386  30.256  1.00  0.00              
ATOM     26  CA  ALA   134      15.168  34.923  30.311  1.00  0.00              
ATOM     27  C   ALA   134      15.028  33.750  31.322  1.00  0.00              
ATOM     28  O   ALA   134      14.070  33.716  32.104  1.00  0.00              
ATOM     29  N   ILE   135      16.005  32.840  31.358  1.00  0.00              
ATOM     30  CA  ILE   135      15.994  31.713  32.299  1.00  0.00              
ATOM     31  C   ILE   135      15.975  32.234  33.731  1.00  0.00              
ATOM     32  O   ILE   135      15.233  31.712  34.553  1.00  0.00              
ATOM     33  N   PHE   136      16.748  33.288  34.026  1.00  0.00              
ATOM     34  CA  PHE   136      16.771  33.830  35.364  1.00  0.00              
ATOM     35  C   PHE   136      15.389  34.221  35.758  1.00  0.00              
ATOM     36  O   PHE   136      14.967  33.975  36.879  1.00  0.00              
ATOM     37  N   ASP   137      14.649  34.776  34.820  1.00  0.00              
ATOM     38  CA  ASP   137      13.299  35.214  35.122  1.00  0.00              
ATOM     39  C   ASP   137      12.356  34.090  35.542  1.00  0.00              
ATOM     40  O   ASP   137      11.455  34.333  36.327  1.00  0.00              
ATOM     41  N   SER   138      12.576  32.857  35.068  1.00  0.00              
ATOM     42  CA  SER   138      11.674  31.754  35.433  1.00  0.00              
ATOM     43  C   SER   138      11.881  31.283  36.864  1.00  0.00              
ATOM     44  O   SER   138      10.925  30.964  37.550  1.00  0.00              
ATOM     45  N   LEU   139      13.122  31.236  37.312  1.00  0.00              
ATOM     46  CA  LEU   139      13.410  30.787  38.669  1.00  0.00              
ATOM     47  C   LEU   139      13.085  31.850  39.743  1.00  0.00              
ATOM     48  O   LEU   139      12.600  31.545  40.844  1.00  0.00              
ATOM     49  N   PHE   145      17.031  37.563  43.363  1.00  0.00              
ATOM     50  CA  PHE   145      17.721  36.421  43.994  1.00  0.00              
ATOM     51  C   PHE   145      16.872  35.131  43.803  1.00  0.00              
ATOM     52  O   PHE   145      15.604  35.176  43.940  1.00  0.00              
ATOM     53  N   LEU   146      17.539  34.029  43.414  1.00  0.00              
ATOM     54  CA  LEU   146      16.897  32.690  43.254  1.00  0.00              
ATOM     55  C   LEU   146      17.229  31.982  44.568  1.00  0.00              
ATOM     56  O   LEU   146      18.420  31.775  44.870  1.00  0.00              
ATOM     57  N   SER   147      16.198  31.656  45.352  1.00  0.00              
ATOM     58  CA  SER   147      16.414  30.953  46.625  1.00  0.00              
ATOM     59  C   SER   147      16.114  29.483  46.413  1.00  0.00              
ATOM     60  O   SER   147      15.439  29.123  45.458  1.00  0.00              
ATOM     61  N   GLY   148      16.446  28.678  47.415  1.00  0.00              
ATOM     62  CA  GLY   148      16.181  27.234  47.404  1.00  0.00              
ATOM     63  C   GLY   148      14.690  26.928  47.195  1.00  0.00              
ATOM     64  O   GLY   148      14.338  26.071  46.410  1.00  0.00              
ATOM     65  N   ASP   149      13.819  27.628  47.894  1.00  0.00              
ATOM     66  CA  ASP   149      12.392  27.399  47.770  1.00  0.00              
ATOM     67  C   ASP   149      11.968  27.712  46.365  1.00  0.00              
ATOM     68  O   ASP   149      11.019  27.124  45.854  1.00  0.00              
ATOM     69  N   LYS   150      12.630  28.689  45.747  1.00  0.00              
ATOM     70  CA  LYS   150      12.283  29.062  44.376  1.00  0.00              
ATOM     71  C   LYS   150      12.632  27.942  43.383  1.00  0.00              
ATOM     72  O   LYS   150      11.783  27.459  42.652  1.00  0.00              
ATOM     73  N   VAL   151      13.903  27.569  43.409  1.00  0.00              
ATOM     74  CA  VAL   151      14.502  26.529  42.615  1.00  0.00              
ATOM     75  C   VAL   151      13.744  25.216  42.828  1.00  0.00              
ATOM     76  O   VAL   151      13.370  24.542  41.862  1.00  0.00              
ATOM     77  N   LYS   152      13.504  24.867  44.091  1.00  0.00              
ATOM     78  CA  LYS   152      12.782  23.640  44.448  1.00  0.00              
ATOM     79  C   LYS   152      11.416  23.676  43.811  1.00  0.00              
ATOM     80  O   LYS   152      11.119  22.864  42.948  1.00  0.00              
ATOM     81  N   PRO   153      10.615  24.674  44.173  1.00  0.00              
ATOM     82  CA  PRO   153       9.283  24.817  43.611  1.00  0.00              
ATOM     83  C   PRO   153       9.282  24.665  42.094  1.00  0.00              
ATOM     84  O   PRO   153       8.467  23.919  41.550  1.00  0.00              
ATOM     85  N   VAL   154      10.178  25.377  41.414  1.00  0.00              
ATOM     86  CA  VAL   154      10.215  25.340  39.966  1.00  0.00              
ATOM     87  C   VAL   154      10.612  23.983  39.416  1.00  0.00              
ATOM     88  O   VAL   154      10.019  23.514  38.442  1.00  0.00              
ATOM     89  N   LEU   155      11.583  23.331  40.042  1.00  0.00              
ATOM     90  CA  LEU   155      11.998  22.023  39.560  1.00  0.00              
ATOM     91  C   LEU   155      10.815  21.050  39.629  1.00  0.00              
ATOM     92  O   LEU   155      10.514  20.344  38.648  1.00  0.00              
ATOM     93  N   LEU   156      10.090  21.091  40.745  1.00  0.00              
ATOM     94  CA  LEU   156       8.919  20.248  40.930  1.00  0.00              
ATOM     95  C   LEU   156       7.992  20.464  39.737  1.00  0.00              
ATOM     96  O   LEU   156       7.769  19.539  38.935  1.00  0.00              
ATOM     97  N   ASN   157       7.546  21.703  39.554  1.00  0.00              
ATOM     98  CA  ASN   157       6.676  22.035  38.435  1.00  0.00              
ATOM     99  C   ASN   157       7.318  21.777  37.050  1.00  0.00              
ATOM    100  O   ASN   157       6.640  21.853  36.017  1.00  0.00              
ATOM    101  N   VAL   162      15.894  18.216  49.677  1.00  0.00              
ATOM    102  CA  VAL   162      16.359  19.415  50.319  1.00  0.00              
ATOM    103  C   VAL   162      17.836  19.542  50.048  1.00  0.00              
ATOM    104  O   VAL   162      18.290  20.559  49.567  1.00  0.00              
ATOM    105  N   ASP   163      18.550  18.441  50.252  1.00  0.00              
ATOM    106  CA  ASP   163      20.003  18.350  50.060  1.00  0.00              
ATOM    107  C   ASP   163      20.448  18.671  48.638  1.00  0.00              
ATOM    108  O   ASP   163      21.474  19.330  48.433  1.00  0.00              
ATOM    109  N   ILE   164      19.695  18.171  47.663  1.00  0.00              
ATOM    110  CA  ILE   164      20.018  18.368  46.259  1.00  0.00              
ATOM    111  C   ILE   164      19.900  19.816  45.812  1.00  0.00              
ATOM    112  O   ILE   164      20.735  20.316  45.052  1.00  0.00              
ATOM    113  N   LEU   165      18.838  20.467  46.264  1.00  0.00              
ATOM    114  CA  LEU   165      18.598  21.871  45.953  1.00  0.00              
ATOM    115  C   LEU   165      19.747  22.714  46.520  1.00  0.00              
ATOM    116  O   LEU   165      20.405  23.431  45.777  1.00  0.00              
ATOM    117  N   GLY   166      20.064  22.525  47.799  1.00  0.00              
ATOM    118  CA  GLY   166      21.145  23.258  48.446  1.00  0.00              
ATOM    119  C   GLY   166      22.435  23.048  47.682  1.00  0.00              
ATOM    120  O   GLY   166      23.267  23.941  47.626  1.00  0.00              
ATOM    121  N   ARG   167      22.621  21.853  47.122  1.00  0.00              
ATOM    122  CA  ARG   167      23.833  21.577  46.356  1.00  0.00              
ATOM    123  C   ARG   167      23.856  22.393  45.067  1.00  0.00              
ATOM    124  O   ARG   167      24.902  22.882  44.645  1.00  0.00              
ATOM    125  N   VAL   168      22.692  22.539  44.447  1.00  0.00              
ATOM    126  CA  VAL   168      22.602  23.319  43.232  1.00  0.00              
ATOM    127  C   VAL   168      22.847  24.789  43.566  1.00  0.00              
ATOM    128  O   VAL   168      23.785  25.389  43.047  1.00  0.00              
ATOM    129  N   MET   179      21.826  32.061  48.288  1.00  0.00              
ATOM    130  CA  MET   179      21.095  32.498  47.097  1.00  0.00              
ATOM    131  C   MET   179      22.033  32.806  45.960  1.00  0.00              
ATOM    132  O   MET   179      23.216  33.175  46.163  1.00  0.00              
ATOM    133  N   LEU   180      21.454  32.718  44.774  1.00  0.00              
ATOM    134  CA  LEU   180      22.095  32.938  43.477  1.00  0.00              
ATOM    135  C   LEU   180      21.498  34.191  42.836  1.00  0.00              
ATOM    136  O   LEU   180      20.309  34.242  42.549  1.00  0.00              
ATOM    137  N   ASP   181      22.310  35.213  42.650  1.00  0.00              
ATOM    138  CA  ASP   181      21.791  36.433  42.039  1.00  0.00              
ATOM    139  C   ASP   181      22.152  36.344  40.575  1.00  0.00              
ATOM    140  O   ASP   181      22.817  35.386  40.184  1.00  0.00              
ATOM    141  N   ARG   182      21.760  37.321  39.768  1.00  0.00              
ATOM    142  CA  ARG   182      22.028  37.245  38.336  1.00  0.00              
ATOM    143  C   ARG   182      23.476  37.103  37.980  1.00  0.00              
ATOM    144  O   ARG   182      23.836  36.319  37.108  1.00  0.00              
ATOM    145  N   ASP   183      24.321  37.815  38.700  1.00  0.00              
ATOM    146  CA  ASP   183      25.750  37.760  38.462  1.00  0.00              
ATOM    147  C   ASP   183      26.233  36.315  38.687  1.00  0.00              
ATOM    148  O   ASP   183      26.879  35.719  37.811  1.00  0.00              
ATOM    149  N   GLU   184      25.864  35.731  39.834  1.00  0.00              
ATOM    150  CA  GLU   184      26.247  34.347  40.170  1.00  0.00              
ATOM    151  C   GLU   184      25.653  33.395  39.128  1.00  0.00              
ATOM    152  O   GLU   184      26.341  32.516  38.633  1.00  0.00              
ATOM    153  N   PHE   185      24.383  33.589  38.788  1.00  0.00              
ATOM    154  CA  PHE   185      23.699  32.753  37.803  1.00  0.00              
ATOM    155  C   PHE   185      24.417  32.746  36.462  1.00  0.00              
ATOM    156  O   PHE   185      24.630  31.682  35.882  1.00  0.00              
ATOM    157  N   ALA   186      24.723  33.943  35.960  1.00  0.00              
ATOM    158  CA  ALA   186      25.415  34.124  34.686  1.00  0.00              
ATOM    159  C   ALA   186      26.766  33.440  34.698  1.00  0.00              
ATOM    160  O   ALA   186      27.229  33.011  33.650  1.00  0.00              
ATOM    161  N   VAL   187      27.409  33.347  35.858  1.00  0.00              
ATOM    162  CA  VAL   187      28.704  32.675  35.917  1.00  0.00              
ATOM    163  C   VAL   187      28.497  31.162  35.818  1.00  0.00              
ATOM    164  O   VAL   187      29.305  30.486  35.205  1.00  0.00              
ATOM    165  N   ALA   188      27.421  30.632  36.401  1.00  0.00              
ATOM    166  CA  ALA   188      27.148  29.196  36.310  1.00  0.00              
ATOM    167  C   ALA   188      26.873  28.920  34.844  1.00  0.00              
ATOM    168  O   ALA   188      27.658  28.262  34.170  1.00  0.00              
ATOM    169  N   MET   189      25.760  29.437  34.340  1.00  0.00              
ATOM    170  CA  MET   189      25.442  29.245  32.937  1.00  0.00              
ATOM    171  C   MET   189      26.412  30.112  32.174  1.00  0.00              
ATOM    172  O   MET   189      26.111  31.282  31.915  1.00  0.00              
END
