REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0074AL009_5 
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  5   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1sra 
ATOM      1  N   LYS   129      39.892  25.396  27.164  1.00  0.00              
ATOM      2  CA  LYS   129      41.300  25.218  27.464  1.00  0.00              
ATOM      3  C   LYS   129      41.581  24.885  28.931  1.00  0.00              
ATOM      4  O   LYS   129      42.222  23.869  29.224  1.00  0.00              
ATOM      5  N   ALA   130      41.040  25.675  29.851  1.00  0.00              
ATOM      6  CA  ALA   130      41.291  25.417  31.263  1.00  0.00              
ATOM      7  C   ALA   130      40.659  24.131  31.746  1.00  0.00              
ATOM      8  O   ALA   130      41.329  23.330  32.406  1.00  0.00              
ATOM      9  N   LYS   131      39.369  23.892  31.426  1.00  0.00              
ATOM     10  CA  LYS   131      38.723  22.648  31.864  1.00  0.00              
ATOM     11  C   LYS   131      39.495  21.367  31.501  1.00  0.00              
ATOM     12  O   LYS   131      39.550  20.423  32.292  1.00  0.00              
ATOM     13  N   TYR   132      40.030  21.321  30.281  1.00  0.00              
ATOM     14  CA  TYR   132      40.789  20.167  29.819  1.00  0.00              
ATOM     15  C   TYR   132      42.094  20.005  30.635  1.00  0.00              
ATOM     16  O   TYR   132      42.428  18.911  31.048  1.00  0.00              
ATOM     17  N   ASP   133      42.773  21.109  30.923  1.00  0.00              
ATOM     18  CA  ASP   133      44.010  21.061  31.707  1.00  0.00              
ATOM     19  C   ASP   133      43.712  20.719  33.166  1.00  0.00              
ATOM     20  O   ASP   133      44.392  19.895  33.778  1.00  0.00              
ATOM     21  N   ALA   134      42.710  21.383  33.727  1.00  0.00              
ATOM     22  CA  ALA   134      42.330  21.163  35.113  1.00  0.00              
ATOM     23  C   ALA   134      42.035  19.710  35.401  1.00  0.00              
ATOM     24  O   ALA   134      42.414  19.178  36.441  1.00  0.00              
ATOM     25  N   ILE   135      41.376  19.037  34.474  1.00  0.00              
ATOM     26  CA  ILE   135      41.042  17.637  34.709  1.00  0.00              
ATOM     27  C   ILE   135      42.288  16.749  34.754  1.00  0.00              
ATOM     28  O   ILE   135      42.332  15.766  35.507  1.00  0.00              
ATOM     29  N   PHE   136      43.273  17.054  33.914  1.00  0.00              
ATOM     30  CA  PHE   136      44.522  16.271  33.895  1.00  0.00              
ATOM     31  C   PHE   136      45.216  16.422  35.254  1.00  0.00              
ATOM     32  O   PHE   136      45.691  15.439  35.830  1.00  0.00              
ATOM     33  N   ASP   137      45.292  17.666  35.730  1.00  0.00              
ATOM     34  CA  ASP   137      45.892  17.955  37.026  1.00  0.00              
ATOM     35  C   ASP   137      45.232  17.197  38.163  1.00  0.00              
ATOM     36  O   ASP   137      45.907  16.681  39.043  1.00  0.00              
ATOM     37  N   SER   138      43.922  16.997  38.070  1.00  0.00              
ATOM     38  CA  SER   138      43.199  16.288  39.112  1.00  0.00              
ATOM     39  C   SER   138      43.510  14.822  39.171  1.00  0.00              
ATOM     40  O   SER   138      43.439  14.212  40.236  1.00  0.00              
ATOM     41  N   LEU   139      43.808  14.232  38.021  1.00  0.00              
ATOM     42  CA  LEU   139      44.080  12.802  37.956  1.00  0.00              
ATOM     43  C   LEU   139      45.552  12.427  38.145  1.00  0.00              
ATOM     44  O   LEU   139      45.858  11.331  38.602  1.00  0.00              
ATOM     45  N   VAL   151      43.468   6.717  35.718  1.00  0.00              
ATOM     46  CA  VAL   151      42.295   7.003  34.883  1.00  0.00              
ATOM     47  C   VAL   151      41.003   6.388  35.432  1.00  0.00              
ATOM     48  O   VAL   151      39.910   6.690  34.943  1.00  0.00              
ATOM     49  N   LYS   152      41.111   5.569  36.469  1.00  0.00              
ATOM     50  CA  LYS   152      39.931   4.919  37.047  1.00  0.00              
ATOM     51  C   LYS   152      38.667   5.788  37.267  1.00  0.00              
ATOM     52  O   LYS   152      37.560   5.356  36.952  1.00  0.00              
ATOM     53  N   PRO   153      38.819   7.022  37.799  1.00  0.00              
ATOM     54  CA  PRO   153      37.623   7.848  38.006  1.00  0.00              
ATOM     55  C   PRO   153      36.814   8.069  36.759  1.00  0.00              
ATOM     56  O   PRO   153      35.637   8.317  36.861  1.00  0.00              
ATOM     57  N   VAL   154      37.448   8.007  35.590  1.00  0.00              
ATOM     58  CA  VAL   154      36.738   8.229  34.338  1.00  0.00              
ATOM     59  C   VAL   154      36.063   6.966  33.836  1.00  0.00              
ATOM     60  O   VAL   154      35.392   6.988  32.812  1.00  0.00              
ATOM     61  N   LEU   165      35.615   4.744  27.692  1.00  0.00              
ATOM     62  CA  LEU   165      36.837   5.350  28.234  1.00  0.00              
ATOM     63  C   LEU   165      38.161   4.687  27.882  1.00  0.00              
ATOM     64  O   LEU   165      39.056   5.324  27.316  1.00  0.00              
ATOM     65  N   GLY   166      38.258   3.402  28.163  1.00  0.00              
ATOM     66  CA  GLY   166      39.483   2.683  27.914  1.00  0.00              
ATOM     67  C   GLY   166      39.824   2.674  26.432  1.00  0.00              
ATOM     68  O   GLY   166      40.962   2.907  26.051  1.00  0.00              
ATOM     69  N   ARG   167      38.833   2.453  25.582  1.00  0.00              
ATOM     70  CA  ARG   167      39.076   2.428  24.155  1.00  0.00              
ATOM     71  C   ARG   167      39.491   3.806  23.620  1.00  0.00              
ATOM     72  O   ARG   167      40.306   3.918  22.695  1.00  0.00              
ATOM     73  N   VAL   168      38.924   4.864  24.187  1.00  0.00              
ATOM     74  CA  VAL   168      39.267   6.202  23.751  1.00  0.00              
ATOM     75  C   VAL   168      40.709   6.539  24.093  1.00  0.00              
ATOM     76  O   VAL   168      41.392   7.216  23.328  1.00  0.00              
ATOM     77  N   TRP   169      41.141   6.145  25.287  1.00  0.00              
ATOM     78  CA  TRP   169      42.498   6.465  25.699  1.00  0.00              
ATOM     79  C   TRP   169      43.577   5.695  25.002  1.00  0.00              
ATOM     80  O   TRP   169      44.639   6.247  24.764  1.00  0.00              
ATOM     81  N   GLU   170      43.275   4.464  24.591  1.00  0.00              
ATOM     82  CA  GLU   170      44.235   3.651  23.826  1.00  0.00              
ATOM     83  C   GLU   170      44.560   4.484  22.573  1.00  0.00              
ATOM     84  O   GLU   170      45.696   4.577  22.129  1.00  0.00              
ATOM     85  N   LEU   171      43.527   5.146  22.076  1.00  0.00              
ATOM     86  CA  LEU   171      43.552   6.008  20.909  1.00  0.00              
ATOM     87  C   LEU   171      44.464   7.235  21.076  1.00  0.00              
ATOM     88  O   LEU   171      45.085   7.685  20.115  1.00  0.00              
ATOM     89  N   VAL   187      49.300   8.175  29.571  1.00  0.00              
ATOM     90  CA  VAL   187      48.861   9.296  28.754  1.00  0.00              
ATOM     91  C   VAL   187      49.619  10.546  29.198  1.00  0.00              
ATOM     92  O   VAL   187      49.425  11.022  30.312  1.00  0.00              
ATOM     93  N   ALA   188      50.450  11.104  28.324  1.00  0.00              
ATOM     94  CA  ALA   188      51.201  12.318  28.655  1.00  0.00              
ATOM     95  C   ALA   188      50.256  13.506  28.496  1.00  0.00              
ATOM     96  O   ALA   188      49.246  13.394  27.814  1.00  0.00              
ATOM     97  N   PHE   190      50.576  14.639  29.108  1.00  0.00              
ATOM     98  CA  PHE   190      49.739  15.823  28.977  1.00  0.00              
ATOM     99  C   PHE   190      49.487  16.216  27.526  1.00  0.00              
ATOM    100  O   PHE   190      48.382  16.637  27.168  1.00  0.00              
ATOM    101  N   LEU   191      50.511  16.134  26.690  1.00  0.00              
ATOM    102  CA  LEU   191      50.301  16.531  25.308  1.00  0.00              
ATOM    103  C   LEU   191      49.431  15.518  24.560  1.00  0.00              
ATOM    104  O   LEU   191      48.707  15.905  23.660  1.00  0.00              
ATOM    105  N   VAL   192      49.500  14.235  24.925  1.00  0.00              
ATOM    106  CA  VAL   192      48.662  13.237  24.267  1.00  0.00              
ATOM    107  C   VAL   192      47.211  13.459  24.749  1.00  0.00              
ATOM    108  O   VAL   192      46.260  13.157  24.043  1.00  0.00              
ATOM    109  N   TYR   193      47.054  13.951  25.975  1.00  0.00              
ATOM    110  CA  TYR   193      45.735  14.211  26.555  1.00  0.00              
ATOM    111  C   TYR   193      45.084  15.415  25.911  1.00  0.00              
ATOM    112  O   TYR   193      43.939  15.342  25.438  1.00  0.00              
ATOM    113  N   CYS   194      45.804  16.532  25.922  1.00  0.00              
ATOM    114  CA  CYS   194      45.304  17.773  25.356  1.00  0.00              
ATOM    115  C   CYS   194      44.997  17.601  23.872  1.00  0.00              
ATOM    116  O   CYS   194      43.951  18.033  23.406  1.00  0.00              
ATOM    117  N   ALA   195      45.888  16.924  23.157  1.00  0.00              
ATOM    118  CA  ALA   195      45.701  16.700  21.731  1.00  0.00              
ATOM    119  C   ALA   195      44.450  15.904  21.411  1.00  0.00              
ATOM    120  O   ALA   195      43.743  16.154  20.437  1.00  0.00              
END
