
PFRMAT TS 
TARGET T0088
AUTHOR 1395-2891-7461
REMARK
REMARK Ugo Bastolla, Jochen Farwer and Ernst-Walter Knapp
REMARK Freie Universitaet Berlin, Institute of Crystallography
REMARK
METHOD For the given sequence and all sequence fragments with a length
METHOD of at least 35 residues decoy structures were generated by
METHOD threading using a set of 1015 proteins (Hobohm U, Sander C.
METHOD Enlarged representative set of protein structure.
METHOD Protein Sci 1994; 3: 522-524. List available at
METHOD ftp://ftp.embl-heidelberg.de/pub/databases/
METHOD protein_extras/pdb_select/recent.pdb_select).
METHOD For all fragments the decoy structure of lowest energy was determined
METHOD using a modification of the energy function described in
METHOD (Bastolla U, Vendruscolo M,
METHOD Knapp EW.
METHOD A statistical mechanical method to optimize energy functions for
METHOD protein folding.
METHOD Proc Natl Acad Sci USA 2000, 97: 3977-3981).
METHOD The z scores of all the lowest energy structures were calculated.
METHOD As a control secondary structure was predicted using NNSSP
METHOD (Salamov A.A., Solovyev V.V.
METHOD Prediction of protein secondary sturcture by combining
METHOD nearest-neighbor algorithms and multiple sequence alignments.
METHOD J.Mol.Biol.,1995, 247, 11-15.).
METHOD The most stable 47-residue fragment was chosen for the prediction.
MODEL 1
PARENT 1lpb_A
ATOM      1  N   LEU   56       -9.112   7.892  34.060  1.00  0.00          N
ATOM      2  CA  LEU   56       -8.038   8.861  34.092  1.00  0.00          C
ATOM      3  C   LEU   56       -8.495  10.273  33.723  1.00  0.00          C
ATOM      4  O   LEU   56       -9.444  10.464  32.946  1.00  0.00          O
ATOM      5  N   ASP   57       -7.754  11.249  34.243  1.00  0.00          N
ATOM      6  CA  ASP   57       -7.999  12.664  34.002  1.00  0.00          C
ATOM      7  C   ASP   57       -7.131  13.179  32.874  1.00  0.00          C
ATOM      8  O   ASP   57       -6.122  12.559  32.493  1.00  0.00          O
ATOM      9  N   GLY   58       -7.508  14.345  32.364  1.00  0.00          N
ATOM     10  CA  GLY   58       -6.775  14.959  31.279  1.00  0.00          C
ATOM     11  C   GLY   58       -5.334  15.206  31.744  1.00  0.00          C
ATOM     12  O   GLY   58       -5.096  15.465  32.929  1.00  0.00          O
ATOM     13  N   LYS   59       -4.373  15.000  30.848  1.00  0.00          N
ATOM     14  CA  LYS   59       -2.984  15.182  31.209  1.00  0.00          C
ATOM     15  C   LYS   59       -2.347  13.947  31.820  1.00  0.00          C
ATOM     16  O   LYS   59       -1.120  13.895  31.984  1.00  0.00          O
ATOM     17  N   VAL   60       -3.167  12.975  32.211  1.00  0.00          N
ATOM     18  CA  VAL   60       -2.647  11.735  32.770  1.00  0.00          C
ATOM     19  C   VAL   60       -2.239  10.853  31.593  1.00  0.00          C
ATOM     20  O   VAL   60       -2.907  10.862  30.557  1.00  0.00          O
ATOM     21  N   ASP   61       -1.109  10.164  31.699  1.00  0.00          N
ATOM     22  CA  ASP   61       -0.649   9.292  30.604  1.00  0.00          C
ATOM     23  C   ASP   61       -1.634   8.146  30.346  1.00  0.00          C
ATOM     24  O   ASP   61       -2.315   7.659  31.266  1.00  0.00          O
ATOM     25  N   LEU   62       -1.686   7.690  29.106  1.00  0.00          N
ATOM     26  CA  LEU   62       -2.572   6.608  28.773  1.00  0.00          C
ATOM     27  C   LEU   62       -1.985   5.834  27.625  1.00  0.00          C
ATOM     28  O   LEU   62       -1.103   6.311  26.916  1.00  0.00          O
ATOM     29  N   PRO   63       -2.498   4.623  27.470  1.00  0.00          N
ATOM     30  CA  PRO   63       -2.096   3.701  26.436  1.00  0.00          C
ATOM     31  C   PRO   63       -3.243   3.577  25.458  1.00  0.00          C
ATOM     32  O   PRO   63       -3.025   3.322  24.276  1.00  0.00          O
ATOM     33  N   VAL   64       -4.463   3.810  25.941  1.00  0.00          N
ATOM     34  CA  VAL   64       -5.666   3.690  25.116  1.00  0.00          C
ATOM     35  C   VAL   64       -6.824   4.577  25.612  1.00  0.00          C
ATOM     36  O   VAL   64       -7.030   4.710  26.824  1.00  0.00          O
ATOM     37  N   VAL   65       -7.624   5.108  24.683  1.00  0.00          N
ATOM     38  CA  VAL   65       -8.771   5.980  25.030  1.00  0.00          C
ATOM     39  C   VAL   65       -9.758   5.415  26.044  1.00  0.00          C
ATOM     40  O   VAL   65      -10.427   6.173  26.761  1.00  0.00          O
ATOM     41  N   GLY   66       -9.854   4.093  26.115  1.00  0.00          N
ATOM     42  CA  GLY   66      -10.761   3.473  27.064  1.00  0.00          C
ATOM     43  C   GLY   66      -10.435   3.941  28.480  1.00  0.00          C
ATOM     44  O   GLY   66      -11.335   4.099  29.308  1.00  0.00          O
ATOM     45  N   SER   67       -9.160   4.224  28.743  1.00  0.00          N
ATOM     46  CA  SER   67       -8.745   4.668  30.078  1.00  0.00          C
ATOM     47  C   SER   67       -9.139   6.113  30.455  1.00  0.00          C
ATOM     48  O   SER   67       -9.244   6.450  31.648  1.00  0.00          O
ATOM     49  N   LEU   68       -9.370   6.952  29.446  1.00  0.00          N
ATOM     50  CA  LEU   68       -9.672   8.356  29.673  1.00  0.00          C
ATOM     51  C   LEU   68      -11.129   8.712  29.802  1.00  0.00          C
ATOM     52  O   LEU   68      -11.935   8.305  28.965  1.00  0.00          O
ATOM     53  N   ASP   69      -11.456   9.501  30.832  1.00  0.00          N
ATOM     54  CA  ASP   69      -12.838   9.954  31.056  1.00  0.00          C
ATOM     55  C   ASP   69      -13.289  10.618  29.750  1.00  0.00          C
ATOM     56  O   ASP   69      -14.380  10.345  29.242  1.00  0.00          O
ATOM     57  N   GLY   70      -12.470  11.543  29.258  1.00  0.00          N
ATOM     58  CA  GLY   70      -12.717  12.194  27.985  1.00  0.00          C
ATOM     59  C   GLY   70      -12.204  11.051  27.137  1.00  0.00          C
ATOM     60  O   GLY   70      -11.045  10.670  27.279  1.00  0.00          O
ATOM     61  N   GLN   71      -13.023  10.470  26.282  1.00  0.00          N
ATOM     62  CA  GLN   71      -12.519   9.339  25.532  1.00  0.00          C
ATOM     63  C   GLN   71      -11.586   9.715  24.400  1.00  0.00          C
ATOM     64  O   GLN   71      -11.910   9.583  23.222  1.00  0.00          O
ATOM     65  N   SER   72      -10.396  10.165  24.778  1.00  0.00          N
ATOM     66  CA  SER   72       -9.381  10.564  23.818  1.00  0.00          C
ATOM     67  C   SER   72       -7.991  10.511  24.431  1.00  0.00          C
ATOM     68  O   SER   72       -7.647  11.348  25.262  1.00  0.00          O
ATOM     69  N   ILE   73       -7.239   9.463  24.129  1.00  0.00          N
ATOM     70  CA  ILE   73       -5.870   9.388  24.608  1.00  0.00          C
ATOM     71  C   ILE   73       -5.207  10.049  23.419  1.00  0.00          C
ATOM     72  O   ILE   73       -5.395   9.603  22.290  1.00  0.00          O
ATOM     73  N   TYR   74       -4.415  11.083  23.641  1.00  0.00          N
ATOM     74  CA  TYR   74       -3.864  11.796  22.505  1.00  0.00          C
ATOM     75  C   TYR   74       -2.375  12.059  22.587  1.00  0.00          C
ATOM     76  O   TYR   74       -1.791  12.048  23.666  1.00  0.00          O
ATOM     77  N   GLY   75       -1.754  12.230  21.429  1.00  0.00          N
ATOM     78  CA  GLY   75       -0.349  12.578  21.365  1.00  0.00          C
ATOM     79  C   GLY   75       -0.140  13.322  20.054  1.00  0.00          C
ATOM     80  O   GLY   75       -0.852  13.079  19.078  1.00  0.00          O
ATOM     81  N   LEU   76        0.776  14.283  20.064  1.00  0.00          N
ATOM     82  CA  LEU   76        1.036  15.098  18.889  1.00  0.00          C
ATOM     83  C   LEU   76        1.853  14.445  17.778  1.00  0.00          C
ATOM     84  O   LEU   76        1.631  14.715  16.598  1.00  0.00          O
ATOM     85  N   THR   77        2.783  13.573  18.139  1.00  0.00          N
ATOM     86  CA  THR   77        3.584  12.914  17.124  1.00  0.00          C
ATOM     87  C   THR   77        3.650  11.422  17.392  1.00  0.00          C
ATOM     88  O   THR   77        3.187  10.953  18.432  1.00  0.00          O
ATOM     89  N   GLU   78        4.221  10.680  16.450  1.00  0.00          N
ATOM     90  CA  GLU   78        4.340   9.225  16.558  1.00  0.00          C
ATOM     91  C   GLU   78        5.233   8.775  17.728  1.00  0.00          C
ATOM     92  O   GLU   78        4.842   7.941  18.546  1.00  0.00          O
ATOM     93  N   GLU   79        6.409   9.371  17.840  1.00  0.00          N
ATOM     94  CA  GLU   79        7.318   9.016  18.915  1.00  0.00          C
ATOM     95  C   GLU   79        7.203  10.027  20.054  1.00  0.00          C
ATOM     96  O   GLU   79        8.056  10.912  20.210  1.00  0.00          O
ATOM     97  N   VAL   80        6.109   9.930  20.804  1.00  0.00          N
ATOM     98  CA  VAL   80        5.860  10.811  21.940  1.00  0.00          C
ATOM     99  C   VAL   80        4.728  10.233  22.781  1.00  0.00          C
ATOM    100  O   VAL   80        3.783   9.626  22.252  1.00  0.00          O
ATOM    101  N   GLY   81        4.842  10.423  24.093  1.00  0.00          N
ATOM    102  CA  GLY   81        3.880   9.916  25.057  1.00  0.00          C
ATOM    103  C   GLY   81        2.496  10.508  24.904  1.00  0.00          C
ATOM    104  O   GLY   81        2.355  11.673  24.578  1.00  0.00          O
ATOM    105  N   LEU   82        1.463   9.713  25.144  1.00  0.00          N
ATOM    106  CA  LEU   82        0.109  10.224  24.991  1.00  0.00          C
ATOM    107  C   LEU   82       -0.619  10.333  26.316  1.00  0.00          C
ATOM    108  O   LEU   82       -0.434   9.499  27.200  1.00  0.00          O
ATOM    109  N   LEU   83       -1.401  11.395  26.480  1.00  0.00          N
ATOM    110  CA  LEU   83       -2.143  11.618  27.715  1.00  0.00          C
ATOM    111  C   LEU   83       -3.601  11.917  27.403  1.00  0.00          C
ATOM    112  O   LEU   83       -3.960  12.161  26.259  1.00  0.00          O
ATOM    113  N   ILE   84       -4.459  11.881  28.402  1.00  0.00          N
ATOM    114  CA  ILE   84       -5.854  12.139  28.144  1.00  0.00          C
ATOM    115  C   ILE   84       -6.077  13.591  27.784  1.00  0.00          C
ATOM    116  O   ILE   84       -5.548  14.489  28.442  1.00  0.00          O
ATOM    117  N   TRP   85       -6.852  13.824  26.728  1.00  0.00          N
ATOM    118  CA  TRP   85       -7.143  15.182  26.281  1.00  0.00          C
ATOM    119  C   TRP   85       -8.638  15.354  26.057  1.00  0.00          C
ATOM    120  O   TRP   85       -9.357  14.379  25.895  1.00  0.00          O
ATOM    121  N   MET   86       -9.119  16.590  26.105  1.00  0.00          N
ATOM    122  CA  MET   86      -10.545  16.848  25.866  1.00  0.00          C
ATOM    123  C   MET   86      -10.866  16.692  24.382  1.00  0.00          C
ATOM    124  O   MET   86       -9.997  16.915  23.534  1.00  0.00          O
ATOM    125  N   GLY   87      -12.093  16.269  24.076  1.00  0.00          N
ATOM    126  CA  GLY   87      -12.514  16.113  22.680  1.00  0.00          C
ATOM    127  C   GLY   87      -12.591  17.493  22.020  1.00  0.00          C
ATOM    128  O   GLY   87      -12.852  18.500  22.696  1.00  0.00          O
ATOM    129  N   ASP   88      -12.387  17.540  20.707  1.00  0.00          N
ATOM    130  CA  ASP   88      -12.413  18.802  19.963  1.00  0.00          C
ATOM    131  C   ASP   88      -13.749  19.550  20.033  1.00  0.00          C
ATOM    132  O   ASP   88      -14.818  18.958  19.848  1.00  0.00          O
ATOM    133  N   THR   89      -13.686  20.842  20.363  1.00  0.00          N
ATOM    134  CA  THR   89      -14.874  21.691  20.436  1.00  0.00          C
ATOM    135  C   THR   89      -15.232  22.071  19.001  1.00  0.00          C
ATOM    136  O   THR   89      -14.480  21.783  18.078  1.00  0.00          O
ATOM    137  N   ASN   90      -16.379  22.703  18.805  1.00  0.00          N
ATOM    138  CA  ASN   90      -16.800  23.105  17.462  1.00  0.00          C
ATOM    139  C   ASN   90      -15.783  24.023  16.779  1.00  0.00          C
ATOM    140  O   ASN   90      -15.145  24.847  17.433  1.00  0.00          O
ATOM    141  N   TYR   91      -15.640  23.828  15.470  1.00  0.00          N
ATOM    142  CA  TYR   91      -14.767  24.599  14.577  1.00  0.00          C
ATOM    143  C   TYR   91      -13.279  24.435  14.690  1.00  0.00          C
ATOM    144  O   TYR   91      -12.533  25.194  14.036  1.00  0.00          O
ATOM    145  N   SER   92      -12.837  23.468  15.501  1.00  0.00          N
ATOM    146  CA  SER   92      -11.413  23.207  15.657  1.00  0.00          C
ATOM    147  C   SER   92      -11.066  21.853  15.065  1.00  0.00          C
ATOM    148  O   SER   92      -11.946  21.082  14.679  1.00  0.00          O
ATOM    149  N   ARG   93       -9.781  21.561  14.971  1.00  0.00          N
ATOM    150  CA  ARG   93       -9.337  20.298  14.392  1.00  0.00          C
ATOM    151  C   ARG   93       -9.657  19.029  15.188  1.00  0.00          C
ATOM    152  O   ARG   93       -9.560  18.990  16.421  1.00  0.00          O
ATOM    153  N   GLY   94      -10.006  17.985  14.447  1.00  0.00          N
ATOM    154  CA  GLY   94      -10.377  16.709  15.023  1.00  0.00          C
ATOM    155  C   GLY   94       -9.837  15.544  14.206  1.00  0.00          C
ATOM    156  O   GLY   94       -9.060  15.719  13.260  1.00  0.00          O
ATOM    157  N   THR   95      -10.267  14.351  14.589  1.00  0.00          N
ATOM    158  CA  THR   95       -9.890  13.138  13.905  1.00  0.00          C
ATOM    159  C   THR   95      -11.110  12.265  13.881  1.00  0.00          C
ATOM    160  O   THR   95      -12.003  12.389  14.736  1.00  0.00          O
ATOM    161  N   ALA   96      -11.190  11.436  12.850  1.00  0.00          N
ATOM    162  CA  ALA   96      -12.311  10.524  12.738  1.00  0.00          C
ATOM    163  C   ALA   96      -12.039   9.398  13.747  1.00  0.00          C
ATOM    164  O   ALA   96      -10.881   8.999  13.939  1.00  0.00          O
ATOM    165  N   MET   97      -13.087   8.962  14.446  1.00  0.00          N
ATOM    166  CA  MET   97      -12.989   7.889  15.433  1.00  0.00          C
ATOM    167  C   MET   97      -12.055   6.808  14.886  1.00  0.00          C
ATOM    168  O   MET   97      -12.096   6.513  13.688  1.00  0.00          O
ATOM    169  N   SER   98      -11.178   6.262  15.723  1.00  0.00          N
ATOM    170  CA  SER   98      -10.264   5.244  15.223  1.00  0.00          C
ATOM    171  C   SER   98      -10.238   3.906  15.950  1.00  0.00          C
ATOM    172  O   SER   98      -10.892   3.727  16.979  1.00  0.00          O
ATOM    173  N   GLY   99       -9.478   2.973  15.368  1.00  0.00          N
ATOM    174  CA  GLY   99       -9.287   1.612  15.882  1.00  0.00          C
ATOM    175  C   GLY   99       -7.955   1.483  16.622  1.00  0.00          C
ATOM    176  O   GLY   99       -7.720   0.496  17.322  1.00  0.00          O
ATOM    177  N   ASN  100       -7.070   2.459  16.428  1.00  0.00          N
ATOM    178  CA  ASN  100       -5.760   2.440  17.068  1.00  0.00          C
ATOM    179  C   ASN  100       -5.738   2.813  18.548  1.00  0.00          C
ATOM    180  O   ASN  100       -4.709   2.672  19.218  1.00  0.00          O
ATOM    181  N   SER  101       -6.862   3.313  19.051  1.00  0.00          N
ATOM    182  CA  SER  101       -6.942   3.670  20.454  1.00  0.00          C
ATOM    183  C   SER  101       -6.477   5.064  20.821  1.00  0.00          C
ATOM    184  O   SER  101       -6.931   5.614  21.825  1.00  0.00          O
ATOM    185  N   TRP  102       -5.519   5.603  20.079  1.00  0.00          N
ATOM    186  CA  TRP  102       -5.030   6.949  20.349  1.00  0.00          C
ATOM    187  C   TRP  102       -5.240   7.822  19.117  1.00  0.00          C
ATOM    188  O   TRP  102       -5.448   7.309  18.004  1.00  0.00          O
TER
END


