REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0077AL009_1 
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  1 UNREFINED   
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1ad2 
ATOM      1  N   ILE    10      15.111  30.190  49.301  1.00  0.00              
ATOM      2  CA  ILE    10      14.483  29.574  48.121  1.00  0.00              
ATOM      3  C   ILE    10      12.945  29.793  48.085  1.00  0.00              
ATOM      4  O   ILE    10      12.357  30.030  47.027  1.00  0.00              
ATOM      5  N   ASN    11      12.306  29.768  49.251  1.00  0.00              
ATOM      6  CA  ASN    11      10.868  29.973  49.346  1.00  0.00              
ATOM      7  C   ASN    11      10.478  31.402  49.011  1.00  0.00              
ATOM      8  O   ASN    11       9.470  31.612  48.342  1.00  0.00              
ATOM      9  N   GLN    12      11.253  32.383  49.476  1.00  0.00              
ATOM     10  CA  GLN    12      10.975  33.780  49.123  1.00  0.00              
ATOM     11  C   GLN    12      11.124  34.006  47.612  1.00  0.00              
ATOM     12  O   GLN    12      10.287  34.663  46.995  1.00  0.00              
ATOM     13  N   LYS    13      12.189  33.464  47.021  1.00  0.00              
ATOM     14  CA  LYS    13      12.449  33.609  45.591  1.00  0.00              
ATOM     15  C   LYS    13      11.364  32.954  44.769  1.00  0.00              
ATOM     16  O   LYS    13      10.976  33.485  43.730  1.00  0.00              
ATOM     17  N   LEU    14      10.885  31.797  45.231  1.00  0.00              
ATOM     18  CA  LEU    14       9.835  31.037  44.553  1.00  0.00              
ATOM     19  C   LEU    14       8.562  31.885  44.455  1.00  0.00              
ATOM     20  O   LEU    14       7.854  31.856  43.436  1.00  0.00              
ATOM     21  N   ALA    15       8.261  32.624  45.523  1.00  0.00              
ATOM     22  CA  ALA    15       7.097  33.504  45.538  1.00  0.00              
ATOM     23  C   ALA    15       7.387  34.759  44.719  1.00  0.00              
ATOM     24  O   ALA    15       6.579  35.163  43.891  1.00  0.00              
ATOM     25  N   LEU    16       8.568  35.337  44.909  1.00  0.00              
ATOM     26  CA  LEU    16       8.933  36.551  44.199  1.00  0.00              
ATOM     27  C   LEU    16       9.040  36.405  42.696  1.00  0.00              
ATOM     28  O   LEU    16       8.576  37.262  41.951  1.00  0.00              
ATOM     29  N   VAL    17       9.648  35.315  42.253  1.00  0.00              
ATOM     30  CA  VAL    17       9.852  35.065  40.836  1.00  0.00              
ATOM     31  C   VAL    17       8.562  35.040  40.029  1.00  0.00              
ATOM     32  O   VAL    17       8.564  35.427  38.854  1.00  0.00              
ATOM     33  N   ILE    18       7.461  34.628  40.650  1.00  0.00              
ATOM     34  CA  ILE    18       6.196  34.600  39.939  1.00  0.00              
ATOM     35  C   ILE    18       5.704  36.016  39.596  1.00  0.00              
ATOM     36  O   ILE    18       5.064  36.224  38.556  1.00  0.00              
ATOM     37  N   THR    24       9.599  30.382  31.439  1.00  0.00              
ATOM     38  CA  THR    24      10.410  29.327  32.029  1.00  0.00              
ATOM     39  C   THR    24      11.275  29.893  33.165  1.00  0.00              
ATOM     40  O   THR    24      11.836  30.984  33.054  1.00  0.00              
ATOM     41  N   LEU    25      11.310  29.190  34.286  1.00  0.00              
ATOM     42  CA  LEU    25      12.114  29.616  35.419  1.00  0.00              
ATOM     43  C   LEU    25      13.381  28.774  35.420  1.00  0.00              
ATOM     44  O   LEU    25      13.295  27.572  35.258  1.00  0.00              
ATOM     45  N   GLY    26      14.539  29.414  35.595  1.00  0.00              
ATOM     46  CA  GLY    26      15.833  28.740  35.601  1.00  0.00              
ATOM     47  C   GLY    26      16.659  29.066  36.820  1.00  0.00              
ATOM     48  O   GLY    26      16.483  30.110  37.424  1.00  0.00              
ATOM     49  N   TYR    27      17.568  28.169  37.173  1.00  0.00              
ATOM     50  CA  TYR    27      18.476  28.393  38.283  1.00  0.00              
ATOM     51  C   TYR    27      19.814  28.483  37.575  1.00  0.00              
ATOM     52  O   TYR    27      20.060  27.722  36.631  1.00  0.00              
ATOM     53  N   LYS    28      20.629  29.463  37.961  1.00  0.00              
ATOM     54  CA  LYS    28      21.951  29.687  37.379  1.00  0.00              
ATOM     55  C   LYS    28      22.962  29.742  38.511  1.00  0.00              
ATOM     56  O   LYS    28      22.663  30.271  39.569  1.00  0.00              
ATOM     57  N   SER    29      24.168  29.237  38.284  1.00  0.00              
ATOM     58  CA  SER    29      25.184  29.257  39.311  1.00  0.00              
ATOM     59  C   SER    29      26.572  29.471  38.740  1.00  0.00              
ATOM     60  O   SER    29      26.831  29.120  37.590  1.00  0.00              
ATOM     61  N   THR    30      27.404  30.166  39.512  1.00  0.00              
ATOM     62  CA  THR    30      28.795  30.416  39.188  1.00  0.00              
ATOM     63  C   THR    30      29.537  29.372  40.033  1.00  0.00              
ATOM     64  O   THR    30      29.405  29.357  41.243  1.00  0.00              
ATOM     65  N   VAL    31      30.262  28.466  39.386  1.00  0.00              
ATOM     66  CA  VAL    31      30.969  27.392  40.080  1.00  0.00              
ATOM     67  C   VAL    31      32.434  27.644  40.310  1.00  0.00              
ATOM     68  O   VAL    31      33.107  28.259  39.495  1.00  0.00              
ATOM     69  N   LYS    32      39.726  22.652  32.496  1.00  0.00              
ATOM     70  CA  LYS    32      40.200  21.354  33.000  1.00  0.00              
ATOM     71  C   LYS    32      39.119  20.310  32.877  1.00  0.00              
ATOM     72  O   LYS    32      38.112  20.386  33.558  1.00  0.00              
ATOM     73  N   SER    33      39.370  19.279  32.091  1.00  0.00              
ATOM     74  CA  SER    33      38.398  18.219  31.924  1.00  0.00              
ATOM     75  C   SER    33      38.058  17.449  33.201  1.00  0.00              
ATOM     76  O   SER    33      36.928  16.991  33.350  1.00  0.00              
ATOM     77  N   LEU    34      38.997  17.337  34.138  1.00  0.00              
ATOM     78  CA  LEU    34      38.732  16.628  35.401  1.00  0.00              
ATOM     79  C   LEU    34      37.977  17.470  36.442  1.00  0.00              
ATOM     80  O   LEU    34      37.815  17.044  37.588  1.00  0.00              
ATOM     81  N   ARG    35      37.589  18.687  36.058  1.00  0.00              
ATOM     82  CA  ARG    35      36.840  19.578  36.933  1.00  0.00              
ATOM     83  C   ARG    35      35.543  20.008  36.299  1.00  0.00              
ATOM     84  O   ARG    35      34.888  20.936  36.786  1.00  0.00              
ATOM     85  N   GLN    36      35.173  19.350  35.201  1.00  0.00              
ATOM     86  CA  GLN    36      33.916  19.655  34.531  1.00  0.00              
ATOM     87  C   GLN    36      32.734  18.981  35.247  1.00  0.00              
ATOM     88  O   GLN    36      32.909  17.965  35.918  1.00  0.00              
ATOM     89  N   LYS    40      29.871  28.755  34.280  1.00  0.00              
ATOM     90  CA  LYS    40      28.514  28.908  34.763  1.00  0.00              
ATOM     91  C   LYS    40      27.745  27.643  34.373  1.00  0.00              
ATOM     92  O   LYS    40      28.152  26.903  33.495  1.00  0.00              
ATOM     93  N   LEU    41      26.613  27.418  35.011  1.00  0.00              
ATOM     94  CA  LEU    41      25.793  26.261  34.730  1.00  0.00              
ATOM     95  C   LEU    41      24.377  26.684  35.040  1.00  0.00              
ATOM     96  O   LEU    41      24.146  27.649  35.771  1.00  0.00              
ATOM     97  N   ILE    42      23.420  26.042  34.403  1.00  0.00              
ATOM     98  CA  ILE    42      22.037  26.362  34.684  1.00  0.00              
ATOM     99  C   ILE    42      21.096  25.332  34.123  1.00  0.00              
ATOM    100  O   ILE    42      21.502  24.455  33.363  1.00  0.00              
ATOM    101  N   ILE    43      19.831  25.453  34.496  1.00  0.00              
ATOM    102  CA  ILE    43      18.823  24.535  34.030  1.00  0.00              
ATOM    103  C   ILE    43      17.418  25.080  34.333  1.00  0.00              
ATOM    104  O   ILE    43      17.218  25.893  35.240  1.00  0.00              
ATOM    105  N   ILE    44      16.438  24.685  33.517  1.00  0.00              
ATOM    106  CA  ILE    44      15.064  25.145  33.745  1.00  0.00              
ATOM    107  C   ILE    44      14.501  24.294  34.888  1.00  0.00              
ATOM    108  O   ILE    44      14.831  23.107  34.996  1.00  0.00              
ATOM    109  N   ALA    45      13.721  24.897  35.780  1.00  0.00              
ATOM    110  CA  ALA    45      13.163  24.144  36.883  1.00  0.00              
ATOM    111  C   ALA    45      11.646  24.223  36.980  1.00  0.00              
ATOM    112  O   ALA    45      11.058  23.700  37.921  1.00  0.00              
ATOM    113  N   ALA    46      11.010  24.886  36.024  1.00  0.00              
ATOM    114  CA  ALA    46       9.570  25.028  36.048  1.00  0.00              
ATOM    115  C   ALA    46       9.112  26.168  35.164  1.00  0.00              
ATOM    116  O   ALA    46       9.848  26.671  34.307  1.00  0.00              
ATOM    117  N   ASN    47       7.873  26.582  35.364  1.00  0.00              
ATOM    118  CA  ASN    47       7.300  27.680  34.609  1.00  0.00              
ATOM    119  C   ASN    47       6.754  28.651  35.662  1.00  0.00              
ATOM    120  O   ASN    47       6.421  28.244  36.776  1.00  0.00              
ATOM    121  N   THR    48       4.178  28.126  44.024  1.00  0.00              
ATOM    122  CA  THR    48       5.490  28.340  44.660  1.00  0.00              
ATOM    123  C   THR    48       6.155  27.207  45.439  1.00  0.00              
ATOM    124  O   THR    48       7.379  27.166  45.516  1.00  0.00              
ATOM    125  N   PRO    49       5.378  26.288  46.003  1.00  0.00              
ATOM    126  CA  PRO    49       5.962  25.179  46.761  1.00  0.00              
ATOM    127  C   PRO    49       6.577  24.154  45.817  1.00  0.00              
ATOM    128  O   PRO    49       7.591  23.558  46.137  1.00  0.00              
ATOM    129  N   VAL    50       5.976  23.976  44.646  1.00  0.00              
ATOM    130  CA  VAL    50       6.488  23.039  43.649  1.00  0.00              
ATOM    131  C   VAL    50       7.756  23.624  43.046  1.00  0.00              
ATOM    132  O   VAL    50       8.704  22.900  42.744  1.00  0.00              
ATOM    133  N   LEU    51       7.727  24.925  42.785  1.00  0.00              
ATOM    134  CA  LEU    51       8.890  25.601  42.254  1.00  0.00              
ATOM    135  C   LEU    51       9.998  25.460  43.267  1.00  0.00              
ATOM    136  O   LEU    51      11.103  25.099  42.918  1.00  0.00              
ATOM    137  N   ARG    52       9.690  25.724  44.529  1.00  0.00              
ATOM    138  CA  ARG    52      10.686  25.630  45.583  1.00  0.00              
ATOM    139  C   ARG    52      11.253  24.215  45.668  1.00  0.00              
ATOM    140  O   ARG    52      12.474  24.041  45.796  1.00  0.00              
ATOM    141  N   LYS    53      10.395  23.202  45.545  1.00  0.00              
ATOM    142  CA  LYS    53      10.866  21.809  45.586  1.00  0.00              
ATOM    143  C   LYS    53      11.846  21.517  44.447  1.00  0.00              
ATOM    144  O   LYS    53      12.878  20.856  44.659  1.00  0.00              
ATOM    145  N   SER    54      11.493  21.943  43.232  1.00  0.00              
ATOM    146  CA  SER    54      12.358  21.737  42.069  1.00  0.00              
ATOM    147  C   SER    54      13.718  22.456  42.187  1.00  0.00              
ATOM    148  O   SER    54      14.753  21.895  41.819  1.00  0.00              
ATOM    149  N   GLU    55      13.718  23.697  42.687  1.00  0.00              
ATOM    150  CA  GLU    55      14.969  24.455  42.880  1.00  0.00              
ATOM    151  C   GLU    55      15.912  23.732  43.849  1.00  0.00              
ATOM    152  O   GLU    55      17.101  23.572  43.549  1.00  0.00              
ATOM    153  N   LEU    56      15.382  23.279  44.988  1.00  0.00              
ATOM    154  CA  LEU    56      16.173  22.537  45.975  1.00  0.00              
ATOM    155  C   LEU    56      16.712  21.260  45.378  1.00  0.00              
ATOM    156  O   LEU    56      17.842  20.885  45.672  1.00  0.00              
ATOM    157  N   GLU    57      15.904  20.588  44.551  1.00  0.00              
ATOM    158  CA  GLU    57      16.303  19.333  43.901  1.00  0.00              
ATOM    159  C   GLU    57      17.500  19.544  42.980  1.00  0.00              
ATOM    160  O   GLU    57      18.433  18.723  42.982  1.00  0.00              
ATOM    161  N   TYR    58      17.496  20.637  42.211  1.00  0.00              
ATOM    162  CA  TYR    58      18.619  20.941  41.321  1.00  0.00              
ATOM    163  C   TYR    58      19.913  21.238  42.106  1.00  0.00              
ATOM    164  O   TYR    58      21.009  20.800  41.724  1.00  0.00              
ATOM    165  N   TYR    59      19.789  21.992  43.194  1.00  0.00              
ATOM    166  CA  TYR    59      20.950  22.337  44.028  1.00  0.00              
ATOM    167  C   TYR    59      21.553  21.075  44.666  1.00  0.00              
ATOM    168  O   TYR    59      22.771  20.894  44.633  1.00  0.00              
ATOM    169  N   ALA    60      20.708  20.189  45.209  1.00  0.00              
ATOM    170  CA  ALA    60      21.174  18.925  45.803  1.00  0.00              
ATOM    171  C   ALA    60      21.909  18.094  44.766  1.00  0.00              
ATOM    172  O   ALA    60      22.970  17.570  45.049  1.00  0.00              
ATOM    173  N   MET    61      21.369  18.018  43.553  1.00  0.00              
ATOM    174  CA  MET    61      21.985  17.248  42.462  1.00  0.00              
ATOM    175  C   MET    61      23.318  17.830  42.063  1.00  0.00              
ATOM    176  O   MET    61      24.282  17.107  41.839  1.00  0.00              
ATOM    177  N   LEU    62      23.359  19.149  41.959  1.00  0.00              
ATOM    178  CA  LEU    62      24.572  19.852  41.583  1.00  0.00              
ATOM    179  C   LEU    62      25.710  19.629  42.612  1.00  0.00              
ATOM    180  O   LEU    62      26.835  19.333  42.225  1.00  0.00              
ATOM    181  N   SER    63      25.409  19.693  43.912  1.00  0.00              
ATOM    182  CA  SER    63      26.430  19.498  44.964  1.00  0.00              
ATOM    183  C   SER    63      27.004  18.100  45.039  1.00  0.00              
ATOM    184  O   SER    63      28.165  17.920  45.436  1.00  0.00              
ATOM    185  N   THR    65      29.822  26.352  45.012  1.00  0.00              
ATOM    186  CA  THR    65      28.737  27.237  44.581  1.00  0.00              
ATOM    187  C   THR    65      29.053  28.647  45.087  1.00  0.00              
ATOM    188  O   THR    65      28.757  28.987  46.237  1.00  0.00              
ATOM    189  N   LYS    66      29.697  29.452  44.243  1.00  0.00              
ATOM    190  CA  LYS    66      30.080  30.821  44.600  1.00  0.00              
ATOM    191  C   LYS    66      28.876  31.738  44.763  1.00  0.00              
ATOM    192  O   LYS    66      28.803  32.514  45.712  1.00  0.00              
ATOM    193  N   VAL    67      27.927  31.646  43.843  1.00  0.00              
ATOM    194  CA  VAL    67      26.698  32.435  43.944  1.00  0.00              
ATOM    195  C   VAL    67      25.648  31.735  43.101  1.00  0.00              
ATOM    196  O   VAL    67      25.972  31.150  42.064  1.00  0.00              
ATOM    197  N   TYR    68      24.408  31.722  43.574  1.00  0.00              
ATOM    198  CA  TYR    68      23.320  31.038  42.880  1.00  0.00              
ATOM    199  C   TYR    68      22.170  32.021  42.648  1.00  0.00              
ATOM    200  O   TYR    68      21.884  32.849  43.523  1.00  0.00              
ATOM    201  N   TYR    69      21.525  31.917  41.479  1.00  0.00              
ATOM    202  CA  TYR    69      20.418  32.793  41.077  1.00  0.00              
ATOM    203  C   TYR    69      19.239  32.054  40.496  1.00  0.00              
ATOM    204  O   TYR    69      19.386  30.997  39.889  1.00  0.00              
ATOM    205  N   PHE    70      18.069  32.663  40.626  1.00  0.00              
ATOM    206  CA  PHE    70      16.839  32.144  40.040  1.00  0.00              
ATOM    207  C   PHE    70      16.448  33.282  39.075  1.00  0.00              
ATOM    208  O   PHE    70      16.592  34.460  39.424  1.00  0.00              
ATOM    209  N   GLN    71      15.982  32.950  37.873  1.00  0.00              
ATOM    210  CA  GLN    71      15.629  33.984  36.904  1.00  0.00              
ATOM    211  C   GLN    71      14.571  33.494  35.933  1.00  0.00              
ATOM    212  O   GLN    71      14.332  32.292  35.837  1.00  0.00              
ATOM    213  N   VAL    90      17.423  36.968  40.904  1.00  0.00              
ATOM    214  CA  VAL    90      17.233  37.025  42.340  1.00  0.00              
ATOM    215  C   VAL    90      18.336  36.134  42.918  1.00  0.00              
ATOM    216  O   VAL    90      18.467  34.994  42.493  1.00  0.00              
ATOM    217  N   SER    91      19.181  36.664  43.799  1.00  0.00              
ATOM    218  CA  SER    91      20.214  35.838  44.402  1.00  0.00              
ATOM    219  C   SER    91      19.629  35.025  45.556  1.00  0.00              
ATOM    220  O   SER    91      18.867  35.543  46.357  1.00  0.00              
ATOM    221  N   ILE    92      19.944  33.739  45.614  1.00  0.00              
ATOM    222  CA  ILE    92      19.401  32.886  46.661  1.00  0.00              
ATOM    223  C   ILE    92      20.434  32.149  47.487  1.00  0.00              
ATOM    224  O   ILE    92      21.587  31.960  47.076  1.00  0.00              
END
