REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0077AL009_5 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : XU-YING 
REMARK  ---------------------------------------------------------- 
TARGET T0077  
AUTHOR 4798-1984-8383  
REMARK CASP-3 target T0077, Ribosomal protein L30  
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  
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: 1kte 
ATOM      1  N   GLN     7      16.895  44.800   4.566  1.00  0.00              
ATOM      2  CA  GLN     7      16.231  43.991   3.542  1.00  0.00              
ATOM      3  C   GLN     7      17.143  43.481   2.466  1.00  0.00              
ATOM      4  O   GLN     7      17.183  42.286   2.195  1.00  0.00              
ATOM      5  N   GLU     8      17.893  44.377   1.842  1.00  0.00              
ATOM      6  CA  GLU     8      18.776  43.970   0.759  1.00  0.00              
ATOM      7  C   GLU     8      19.867  43.070   1.283  1.00  0.00              
ATOM      8  O   GLU     8      20.232  42.108   0.608  1.00  0.00              
ATOM      9  N   SER     9      20.324  43.352   2.513  1.00  0.00              
ATOM     10  CA  SER     9      21.290  42.508   3.192  1.00  0.00              
ATOM     11  C   SER     9      20.779  41.070   3.320  1.00  0.00              
ATOM     12  O   SER     9      21.449  40.174   2.802  1.00  0.00              
ATOM     13  N   ILE    10      19.617  40.768   3.929  1.00  0.00              
ATOM     14  CA  ILE    10      19.297  39.355   4.047  1.00  0.00              
ATOM     15  C   ILE    10      18.880  38.818   2.697  1.00  0.00              
ATOM     16  O   ILE    10      19.190  37.660   2.425  1.00  0.00              
ATOM     17  N   ASN    11      18.262  39.607   1.811  1.00  0.00              
ATOM     18  CA  ASN    11      17.830  39.071   0.524  1.00  0.00              
ATOM     19  C   ASN    11      18.982  38.692  -0.374  1.00  0.00              
ATOM     20  O   ASN    11      18.804  37.814  -1.220  1.00  0.00              
ATOM     21  N   GLN    12      20.156  39.322  -0.226  1.00  0.00              
ATOM     22  CA  GLN    12      21.321  38.949  -1.018  1.00  0.00              
ATOM     23  C   GLN    12      21.924  37.641  -0.545  1.00  0.00              
ATOM     24  O   GLN    12      22.592  36.916  -1.279  1.00  0.00              
ATOM     25  N   LYS    13      21.701  37.316   0.726  1.00  0.00              
ATOM     26  CA  LYS    13      22.289  36.124   1.283  1.00  0.00              
ATOM     27  C   LYS    13      21.549  34.869   0.860  1.00  0.00              
ATOM     28  O   LYS    13      22.227  33.875   0.567  1.00  0.00              
ATOM     29  N   LEU    14      22.394  26.950   1.732  1.00  0.00              
ATOM     30  CA  LEU    14      21.844  26.934   3.082  1.00  0.00              
ATOM     31  C   LEU    14      22.415  28.148   3.811  1.00  0.00              
ATOM     32  O   LEU    14      23.627  28.360   3.744  1.00  0.00              
ATOM     33  N   ALA    15      21.621  28.997   4.449  1.00  0.00              
ATOM     34  CA  ALA    15      22.166  30.130   5.181  1.00  0.00              
ATOM     35  C   ALA    15      21.521  30.102   6.562  1.00  0.00              
ATOM     36  O   ALA    15      20.320  29.853   6.677  1.00  0.00              
ATOM     37  N   LEU    16      22.293  30.267   7.638  1.00  0.00              
ATOM     38  CA  LEU    16      21.761  30.230   9.002  1.00  0.00              
ATOM     39  C   LEU    16      22.055  31.604   9.559  1.00  0.00              
ATOM     40  O   LEU    16      23.212  32.047   9.548  1.00  0.00              
ATOM     41  N   VAL    17      21.040  32.349   9.986  1.00  0.00              
ATOM     42  CA  VAL    17      21.283  33.635  10.603  1.00  0.00              
ATOM     43  C   VAL    17      21.469  33.346  12.072  1.00  0.00              
ATOM     44  O   VAL    17      20.621  32.676  12.678  1.00  0.00              
ATOM     45  N   ILE    18      22.601  33.806  12.610  1.00  0.00              
ATOM     46  CA  ILE    18      22.984  33.556  13.982  1.00  0.00              
ATOM     47  C   ILE    18      23.285  34.876  14.705  1.00  0.00              
ATOM     48  O   ILE    18      23.238  35.986  14.141  1.00  0.00              
ATOM     49  N   LEU    25      23.452  29.423  22.202  1.00  0.00              
ATOM     50  CA  LEU    25      23.712  27.991  22.329  1.00  0.00              
ATOM     51  C   LEU    25      23.122  27.160  21.197  1.00  0.00              
ATOM     52  O   LEU    25      23.760  26.225  20.720  1.00  0.00              
ATOM     53  N   GLY    26      21.926  27.522  20.731  1.00  0.00              
ATOM     54  CA  GLY    26      21.254  26.822  19.645  1.00  0.00              
ATOM     55  C   GLY    26      21.831  27.140  18.280  1.00  0.00              
ATOM     56  O   GLY    26      21.795  26.272  17.403  1.00  0.00              
ATOM     57  N   TYR    27      22.429  28.326  18.101  1.00  0.00              
ATOM     58  CA  TYR    27      23.114  28.719  16.877  1.00  0.00              
ATOM     59  C   TYR    27      24.273  27.756  16.734  1.00  0.00              
ATOM     60  O   TYR    27      24.380  27.091  15.699  1.00  0.00              
ATOM     61  N   LYS    28      25.037  27.578  17.831  1.00  0.00              
ATOM     62  CA  LYS    28      26.151  26.635  17.914  1.00  0.00              
ATOM     63  C   LYS    28      25.768  25.211  17.607  1.00  0.00              
ATOM     64  O   LYS    28      26.483  24.552  16.849  1.00  0.00              
ATOM     65  N   SER    29      24.662  24.721  18.165  1.00  0.00              
ATOM     66  CA  SER    29      24.228  23.372  17.857  1.00  0.00              
ATOM     67  C   SER    29      23.934  23.282  16.372  1.00  0.00              
ATOM     68  O   SER    29      24.380  22.316  15.752  1.00  0.00              
ATOM     69  N   THR    30      23.270  24.281  15.775  1.00  0.00              
ATOM     70  CA  THR    30      22.970  24.276  14.348  1.00  0.00              
ATOM     71  C   THR    30      24.279  24.221  13.552  1.00  0.00              
ATOM     72  O   THR    30      24.450  23.384  12.649  1.00  0.00              
ATOM     73  N   VAL    31      25.257  25.051  13.940  1.00  0.00              
ATOM     74  CA  VAL    31      26.553  25.079  13.287  1.00  0.00              
ATOM     75  C   VAL    31      27.219  23.720  13.348  1.00  0.00              
ATOM     76  O   VAL    31      27.778  23.264  12.348  1.00  0.00              
ATOM     77  N   LYS    32      27.118  23.037  14.483  1.00  0.00              
ATOM     78  CA  LYS    32      27.725  21.733  14.665  1.00  0.00              
ATOM     79  C   LYS    32      27.139  20.725  13.716  1.00  0.00              
ATOM     80  O   LYS    32      27.878  19.942  13.122  1.00  0.00              
ATOM     81  N   SER    33      25.830  20.728  13.570  1.00  0.00              
ATOM     82  CA  SER    33      25.175  19.772  12.706  1.00  0.00              
ATOM     83  C   SER    33      25.549  20.018  11.236  1.00  0.00              
ATOM     84  O   SER    33      26.091  19.135  10.551  1.00  0.00              
ATOM     85  N   LEU    34      25.363  21.238  10.735  1.00  0.00              
ATOM     86  CA  LEU    34      25.632  21.476   9.342  1.00  0.00              
ATOM     87  C   LEU    34      27.111  21.465   8.963  1.00  0.00              
ATOM     88  O   LEU    34      27.416  21.069   7.837  1.00  0.00              
ATOM     89  N   ARG    35      28.072  21.794   9.836  1.00  0.00              
ATOM     90  CA  ARG    35      29.493  21.776   9.483  1.00  0.00              
ATOM     91  C   ARG    35      30.076  20.413   9.165  1.00  0.00              
ATOM     92  O   ARG    35      31.153  20.334   8.569  1.00  0.00              
ATOM     93  N   GLN    36      29.407  19.342   9.564  1.00  0.00              
ATOM     94  CA  GLN    36      29.883  17.993   9.302  1.00  0.00              
ATOM     95  C   GLN    36      29.605  17.565   7.867  1.00  0.00              
ATOM     96  O   GLN    36      30.351  16.758   7.294  1.00  0.00              
ATOM     97  N   LEU    41      27.150  26.794   2.102  1.00  0.00              
ATOM     98  CA  LEU    41      26.676  26.890   3.474  1.00  0.00              
ATOM     99  C   LEU    41      27.217  28.219   3.991  1.00  0.00              
ATOM    100  O   LEU    41      28.394  28.496   3.765  1.00  0.00              
ATOM    101  N   ILE    42      26.443  29.101   4.623  1.00  0.00              
ATOM    102  CA  ILE    42      26.983  30.324   5.198  1.00  0.00              
ATOM    103  C   ILE    42      26.273  30.623   6.517  1.00  0.00              
ATOM    104  O   ILE    42      25.055  30.493   6.628  1.00  0.00              
ATOM    105  N   ILE    43      27.036  31.018   7.532  1.00  0.00              
ATOM    106  CA  ILE    43      26.491  31.445   8.814  1.00  0.00              
ATOM    107  C   ILE    43      26.721  32.942   8.788  1.00  0.00              
ATOM    108  O   ILE    43      27.842  33.412   8.537  1.00  0.00              
ATOM    109  N   ILE    44      25.623  33.661   8.978  1.00  0.00              
ATOM    110  CA  ILE    44      25.599  35.103   8.915  1.00  0.00              
ATOM    111  C   ILE    44      25.302  35.625  10.302  1.00  0.00              
ATOM    112  O   ILE    44      24.263  35.330  10.892  1.00  0.00              
ATOM    113  N   ALA    45      26.248  36.361  10.851  1.00  0.00              
ATOM    114  CA  ALA    45      26.084  36.960  12.155  1.00  0.00              
ATOM    115  C   ALA    45      25.332  38.294  11.991  1.00  0.00              
ATOM    116  O   ALA    45      25.875  39.279  11.466  1.00  0.00              
ATOM    117  N   ARG    52      20.888  45.283  13.501  1.00  0.00              
ATOM    118  CA  ARG    52      20.534  43.939  13.943  1.00  0.00              
ATOM    119  C   ARG    52      19.028  43.803  14.197  1.00  0.00              
ATOM    120  O   ARG    52      18.396  42.905  13.635  1.00  0.00              
ATOM    121  N   LYS    53      18.401  44.710  14.950  1.00  0.00              
ATOM    122  CA  LYS    53      16.971  44.603  15.255  1.00  0.00              
ATOM    123  C   LYS    53      16.106  44.725  14.011  1.00  0.00              
ATOM    124  O   LYS    53      15.080  44.046  13.905  1.00  0.00              
ATOM    125  N   SER    54      16.527  45.529  13.028  1.00  0.00              
ATOM    126  CA  SER    54      15.763  45.667  11.799  1.00  0.00              
ATOM    127  C   SER    54      15.844  44.387  10.995  1.00  0.00              
ATOM    128  O   SER    54      14.872  44.022  10.326  1.00  0.00              
ATOM    129  N   GLU    55      16.976  43.680  11.054  1.00  0.00              
ATOM    130  CA  GLU    55      17.083  42.397  10.398  1.00  0.00              
ATOM    131  C   GLU    55      16.108  41.457  11.097  1.00  0.00              
ATOM    132  O   GLU    55      15.342  40.767  10.422  1.00  0.00              
ATOM    133  N   LEU    56      16.050  41.422  12.429  1.00  0.00              
ATOM    134  CA  LEU    56      15.116  40.540  13.114  1.00  0.00              
ATOM    135  C   LEU    56      13.671  40.833  12.765  1.00  0.00              
ATOM    136  O   LEU    56      12.885  39.897  12.588  1.00  0.00              
ATOM    137  N   GLU    57      13.329  42.127  12.647  1.00  0.00              
ATOM    138  CA  GLU    57      12.023  42.611  12.182  1.00  0.00              
ATOM    139  C   GLU    57      11.678  42.031  10.808  1.00  0.00              
ATOM    140  O   GLU    57      10.575  41.509  10.589  1.00  0.00              
ATOM    141  N   TYR    58      12.620  42.120   9.875  1.00  0.00              
ATOM    142  CA  TYR    58      12.406  41.627   8.534  1.00  0.00              
ATOM    143  C   TYR    58      12.283  40.108   8.547  1.00  0.00              
ATOM    144  O   TYR    58      11.448  39.564   7.827  1.00  0.00              
ATOM    145  N   TYR    59      13.044  39.356   9.345  1.00  0.00              
ATOM    146  CA  TYR    59      12.855  37.898   9.446  1.00  0.00              
ATOM    147  C   TYR    59      11.492  37.562  10.049  1.00  0.00              
ATOM    148  O   TYR    59      10.868  36.582   9.639  1.00  0.00              
ATOM    149  N   ALA    60      10.959  38.351  10.975  1.00  0.00              
ATOM    150  CA  ALA    60       9.648  38.138  11.549  1.00  0.00              
ATOM    151  C   ALA    60       8.612  38.220  10.427  1.00  0.00              
ATOM    152  O   ALA    60       7.801  37.316  10.228  1.00  0.00              
ATOM    153  N   MET    61       8.679  39.269   9.622  1.00  0.00              
ATOM    154  CA  MET    61       7.824  39.478   8.469  1.00  0.00              
ATOM    155  C   MET    61       7.943  38.382   7.418  1.00  0.00              
ATOM    156  O   MET    61       6.947  37.930   6.849  1.00  0.00              
ATOM    157  N   LEU    62       9.156  37.923   7.156  1.00  0.00              
ATOM    158  CA  LEU    62       9.417  36.930   6.132  1.00  0.00              
ATOM    159  C   LEU    62       9.089  35.508   6.541  1.00  0.00              
ATOM    160  O   LEU    62       8.588  34.733   5.726  1.00  0.00              
ATOM    161  N   SER    63       9.378  35.140   7.790  1.00  0.00              
ATOM    162  CA  SER    63       9.305  33.756   8.242  1.00  0.00              
ATOM    163  C   SER    63       8.225  33.459   9.280  1.00  0.00              
ATOM    164  O   SER    63       7.828  32.298   9.498  1.00  0.00              
ATOM    165  N   LYS    66      17.948  31.172  12.357  1.00  0.00              
ATOM    166  CA  LYS    66      16.915  31.167  11.340  1.00  0.00              
ATOM    167  C   LYS    66      17.561  30.376  10.214  1.00  0.00              
ATOM    168  O   LYS    66      18.556  30.848   9.677  1.00  0.00              
ATOM    169  N   VAL    67      17.116  29.178   9.862  1.00  0.00              
ATOM    170  CA  VAL    67      17.757  28.329   8.851  1.00  0.00              
ATOM    171  C   VAL    67      16.997  28.358   7.527  1.00  0.00              
ATOM    172  O   VAL    67      15.792  28.054   7.496  1.00  0.00              
ATOM    173  N   TYR    68      17.682  28.725   6.445  1.00  0.00              
ATOM    174  CA  TYR    68      17.101  28.748   5.123  1.00  0.00              
ATOM    175  C   TYR    68      17.767  27.683   4.276  1.00  0.00              
ATOM    176  O   TYR    68      18.990  27.560   4.324  1.00  0.00              
ATOM    177  N   TYR    69      17.019  26.826   3.586  1.00  0.00              
ATOM    178  CA  TYR    69      17.549  25.877   2.625  1.00  0.00              
ATOM    179  C   TYR    69      16.951  26.479   1.347  1.00  0.00              
ATOM    180  O   TYR    69      15.737  26.452   1.139  1.00  0.00              
ATOM    181  N   ASN    75      13.514  28.722   1.189  1.00  0.00              
ATOM    182  CA  ASN    75      12.618  28.127   2.173  1.00  0.00              
ATOM    183  C   ASN    75      13.228  28.213   3.573  1.00  0.00              
ATOM    184  O   ASN    75      14.307  27.687   3.825  1.00  0.00              
ATOM    185  N   GLU    76      12.583  28.930   4.483  1.00  0.00              
ATOM    186  CA  GLU    76      13.059  29.002   5.843  1.00  0.00              
ATOM    187  C   GLU    76      12.487  27.768   6.499  1.00  0.00              
ATOM    188  O   GLU    76      11.260  27.640   6.588  1.00  0.00              
ATOM    189  N   LEU    77      13.323  26.838   6.944  1.00  0.00              
ATOM    190  CA  LEU    77      12.776  25.648   7.558  1.00  0.00              
ATOM    191  C   LEU    77      12.508  25.873   9.032  1.00  0.00              
ATOM    192  O   LEU    77      11.778  25.092   9.642  1.00  0.00              
ATOM    193  N   GLY    78      13.026  26.919   9.653  1.00  0.00              
ATOM    194  CA  GLY    78      12.781  27.127  11.067  1.00  0.00              
ATOM    195  C   GLY    78      14.092  27.324  11.811  1.00  0.00              
ATOM    196  O   GLY    78      15.021  27.938  11.283  1.00  0.00              
ATOM    197  N   ALA    95      16.601  25.532  15.290  1.00  0.00              
ATOM    198  CA  ALA    95      17.340  24.343  15.678  1.00  0.00              
ATOM    199  C   ALA    95      16.469  23.101  15.722  1.00  0.00              
ATOM    200  O   ALA    95      16.786  22.060  15.137  1.00  0.00              
ATOM    201  N   GLY    96      15.330  23.227  16.401  1.00  0.00              
ATOM    202  CA  GLY    96      14.397  22.142  16.595  1.00  0.00              
ATOM    203  C   GLY    96      13.982  21.517  15.282  1.00  0.00              
ATOM    204  O   GLY    96      13.986  20.294  15.146  1.00  0.00              
ATOM    205  N   ASP    97      13.652  22.373  14.316  1.00  0.00              
ATOM    206  CA  ASP    97      13.181  21.903  13.021  1.00  0.00              
ATOM    207  C   ASP    97      14.292  21.241  12.209  1.00  0.00              
ATOM    208  O   ASP    97      14.074  20.196  11.596  1.00  0.00              
ATOM    209  N   SER    98      15.514  21.767  12.280  1.00  0.00              
ATOM    210  CA  SER    98      16.653  21.163  11.608  1.00  0.00              
ATOM    211  C   SER    98      16.925  19.794  12.217  1.00  0.00              
ATOM    212  O   SER    98      17.166  18.799  11.514  1.00  0.00              
ATOM    213  N   ASP    99      16.836  19.708  13.545  1.00  0.00              
ATOM    214  CA  ASP    99      17.129  18.479  14.256  1.00  0.00              
ATOM    215  C   ASP    99      16.126  17.389  13.925  1.00  0.00              
ATOM    216  O   ASP    99      16.538  16.245  13.722  1.00  0.00              
ATOM    217  N   ILE   100      14.831  17.689  13.821  1.00  0.00              
ATOM    218  CA  ILE   100      13.822  16.728  13.396  1.00  0.00              
ATOM    219  C   ILE   100      14.100  16.164  12.010  1.00  0.00              
ATOM    220  O   ILE   100      13.980  14.945  11.793  1.00  0.00              
ATOM    221  N   LEU   101      14.506  17.014  11.061  1.00  0.00              
ATOM    222  CA  LEU   101      14.794  16.514   9.723  1.00  0.00              
ATOM    223  C   LEU   101      15.955  15.538   9.800  1.00  0.00              
ATOM    224  O   LEU   101      15.929  14.522   9.094  1.00  0.00              
ATOM    225  N   THR   102      16.946  15.843  10.661  1.00  0.00              
ATOM    226  CA  THR   102      18.085  14.979  10.890  1.00  0.00              
ATOM    227  C   THR   102      17.624  13.640  11.442  1.00  0.00              
ATOM    228  O   THR   102      17.972  12.610  10.875  1.00  0.00              
ATOM    229  N   THR   103      16.851  13.624  12.524  1.00  0.00              
ATOM    230  CA  THR   103      16.339  12.407  13.145  1.00  0.00              
ATOM    231  C   THR   103      15.540  11.541  12.170  1.00  0.00              
ATOM    232  O   THR   103      15.638  10.303  12.179  1.00  0.00              
END
