REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0079AL212_1 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : BRYANT 
REMARK  ---------------------------------------------------------- 
TARGET T0079  
REMARK =======================================================================  
AUTHOR 2738-1421-4442  
REMARK This prediction was prepared by Anna Panchenko, Aron Marchler-Bauer, and  
REMARK Steve Bryant, NCBI.   
REMARK =======================================================================  
METHOD Predictions were made with the potential and alignment model used in   
METHOD CASP1 and CASP2 predictions, as described by Madej et al. in Proteins   
METHOD 23:356-369, 1995. Convergence control has been added to the Gibbs-  
METHOD Sampling alignment model. In addition to contact-based threading   
METHOD potentials, PSSMs summarizing sequence conservation in the family   
METHOD represented by the template structure are used to score threading  
METHOD alignments. Threading "cores" summarizing the conserved substructure   
METHOD in the templates used for models below have been based on structure  
METHOD superpositions generated by VAST (Gibrat et al., Curr Opin Struct  
METHOD Biol 1996 Jun;6(3):377-385 ).  
METHOD The alignments have been calculated with the Gibbs Sampling threading  
METHOD engine. The template has been identifed based on the presence  
METHOD of the repeated helix-turn-helix motif in the target and based on  
METHOD sequence similarity searches (BLAST). No threading database search  
METHOD seemed necessary. Attempts to align the target sequence to the dimer  
METHOD of the template (and to account for the repeated motif in this way)  
METHOD have been unsuccessful - the target sequence seems to short. Instead  
METHOD we list alignments for two separate regions of the target sequence,  
METHOD residues 1-64 and residues 65-129. Both of them have been aligned to  
METHOD the same template, and we do NOT specify the overall topological  
METHOD arrangement of the two "domains" with respect to each other.   
REMARK =======================================================================  
MODEL  1  
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1smt_A 
ATOM      1  N   SER     4       1.019  35.328  27.101  1.00  0.00              
ATOM      2  CA  SER     4       1.188  35.907  28.422  1.00  0.00              
ATOM      3  C   SER     4       2.638  36.354  28.596  1.00  0.00              
ATOM      4  O   SER     4       2.885  37.448  29.103  1.00  0.00              
ATOM      5  N   ARG     5       3.578  35.517  28.145  1.00  0.00              
ATOM      6  CA  ARG     5       5.016  35.815  28.218  1.00  0.00              
ATOM      7  C   ARG     5       5.330  37.106  27.448  1.00  0.00              
ATOM      8  O   ARG     5       6.027  37.982  27.950  1.00  0.00              
ATOM      9  N   ARG     6       4.775  37.228  26.246  1.00  0.00              
ATOM     10  CA  ARG     6       4.968  38.417  25.416  1.00  0.00              
ATOM     11  C   ARG     6       4.422  39.646  26.106  1.00  0.00              
ATOM     12  O   ARG     6       4.940  40.739  25.923  1.00  0.00              
ATOM     13  N   ASN     7       3.302  39.476  26.806  1.00  0.00              
ATOM     14  CA  ASN     7       2.659  40.581  27.517  1.00  0.00              
ATOM     15  C   ASN     7       3.594  41.136  28.602  1.00  0.00              
ATOM     16  O   ASN     7       3.781  42.348  28.716  1.00  0.00              
ATOM     17  N   THR     8       4.180  40.241  29.387  1.00  0.00              
ATOM     18  CA  THR     8       5.099  40.640  30.443  1.00  0.00              
ATOM     19  C   THR     8       6.375  41.255  29.901  1.00  0.00              
ATOM     20  O   THR     8       6.958  42.136  30.527  1.00  0.00              
ATOM     21  N   ASP     9       6.802  40.783  28.734  1.00  0.00              
ATOM     22  CA  ASP     9       8.007  41.296  28.083  1.00  0.00              
ATOM     23  C   ASP     9       7.812  42.775  27.726  1.00  0.00              
ATOM     24  O   ASP     9       8.714  43.595  27.921  1.00  0.00              
ATOM     25  N   ALA    10       6.616  43.096  27.229  1.00  0.00              
ATOM     26  CA  ALA    10       6.227  44.453  26.850  1.00  0.00              
ATOM     27  C   ALA    10       6.275  45.392  28.058  1.00  0.00              
ATOM     28  O   ALA    10       6.615  46.565  27.934  1.00  0.00              
ATOM     29  N   ILE    11       5.964  44.864  29.235  1.00  0.00              
ATOM     30  CA  ILE    11       5.980  45.663  30.454  1.00  0.00              
ATOM     31  C   ILE    11       7.376  45.783  31.061  1.00  0.00              
ATOM     32  O   ILE    11       7.578  46.563  31.998  1.00  0.00              
ATOM     33  N   THR    12       8.320  44.983  30.562  1.00  0.00              
ATOM     34  CA  THR    12       9.695  45.010  31.073  1.00  0.00              
ATOM     35  C   THR    12      10.488  46.153  30.436  1.00  0.00              
ATOM     36  O   THR    12      11.491  45.931  29.772  1.00  0.00              
ATOM     37  N   ILE    13      10.029  47.374  30.665  1.00  0.00              
ATOM     38  CA  ILE    13      10.637  48.575  30.113  1.00  0.00              
ATOM     39  C   ILE    13      10.359  49.667  31.145  1.00  0.00              
ATOM     40  O   ILE    13       9.210  50.052  31.350  1.00  0.00              
ATOM     41  N   HIS    14      11.416  50.201  31.779  1.00  0.00              
ATOM     42  CA  HIS    14      11.341  51.251  32.805  1.00  0.00              
ATOM     43  C   HIS    14      10.591  52.523  32.418  1.00  0.00              
ATOM     44  O   HIS    14       9.843  53.081  33.227  1.00  0.00              
ATOM     45  N   SER    15      10.806  52.992  31.197  1.00  0.00              
ATOM     46  CA  SER    15      10.137  54.193  30.720  1.00  0.00              
ATOM     47  C   SER    15       8.639  53.994  30.624  1.00  0.00              
ATOM     48  O   SER    15       7.870  54.898  30.942  1.00  0.00              
ATOM     49  N   ILE    16       8.230  52.821  30.154  1.00  0.00              
ATOM     50  CA  ILE    16       6.816  52.511  30.026  1.00  0.00              
ATOM     51  C   ILE    16       6.181  52.469  31.387  1.00  0.00              
ATOM     52  O   ILE    16       5.065  52.972  31.563  1.00  0.00              
ATOM     53  N   LEU    17       6.900  51.883  32.348  1.00  0.00              
ATOM     54  CA  LEU    17       6.407  51.765  33.719  1.00  0.00              
ATOM     55  C   LEU    17       6.264  53.113  34.419  1.00  0.00              
ATOM     56  O   LEU    17       5.341  53.306  35.209  1.00  0.00              
ATOM     57  N   ASP    18       7.171  54.043  34.134  1.00  0.00              
ATOM     58  CA  ASP    18       7.084  55.368  34.738  1.00  0.00              
ATOM     59  C   ASP    18       5.841  56.066  34.218  1.00  0.00              
ATOM     60  O   ASP    18       5.207  56.816  34.942  1.00  0.00              
ATOM     61  N   TRP    19       5.513  55.826  32.952  1.00  0.00              
ATOM     62  CA  TRP    19       4.323  56.410  32.346  1.00  0.00              
ATOM     63  C   TRP    19       3.076  55.786  32.954  1.00  0.00              
ATOM     64  O   TRP    19       2.124  56.489  33.273  1.00  0.00              
ATOM     65  N   ILE    20       3.095  54.465  33.121  1.00  0.00              
ATOM     66  CA  ILE    20       1.967  53.759  33.700  1.00  0.00              
ATOM     67  C   ILE    20       1.748  54.155  35.152  1.00  0.00              
ATOM     68  O   ILE    20       0.602  54.225  35.603  1.00  0.00              
ATOM     69  N   GLU    21       2.836  54.441  35.873  1.00  0.00              
ATOM     70  CA  GLU    21       2.732  54.812  37.287  1.00  0.00              
ATOM     71  C   GLU    21       1.951  56.112  37.486  1.00  0.00              
ATOM     72  O   GLU    21       1.365  56.336  38.537  1.00  0.00              
ATOM     73  N   ASP    22       1.969  56.985  36.485  1.00  0.00              
ATOM     74  CA  ASP    22       1.236  58.237  36.579  1.00  0.00              
ATOM     75  C   ASP    22      -0.231  57.966  36.237  1.00  0.00              
ATOM     76  O   ASP    22      -1.137  58.336  36.997  1.00  0.00              
ATOM     77  N   ASN    23      -0.457  57.245  35.138  1.00  0.00              
ATOM     78  CA  ASN    23      -1.814  56.917  34.707  1.00  0.00              
ATOM     79  C   ASN    23      -2.557  56.032  35.695  1.00  0.00              
ATOM     80  O   ASN    23      -3.778  56.008  35.697  1.00  0.00              
ATOM     81  N   LEU    24      -1.821  55.319  36.545  1.00  0.00              
ATOM     82  CA  LEU    24      -2.443  54.457  37.536  1.00  0.00              
ATOM     83  C   LEU    24      -3.156  55.305  38.593  1.00  0.00              
ATOM     84  O   LEU    24      -4.072  54.822  39.255  1.00  0.00              
ATOM     85  N   GLU    25      -2.773  56.577  38.711  1.00  0.00              
ATOM     86  CA  GLU    25      -3.380  57.479  39.689  1.00  0.00              
ATOM     87  C   GLU    25      -4.347  58.495  39.095  1.00  0.00              
ATOM     88  O   GLU    25      -5.205  59.034  39.795  1.00  0.00              
ATOM     89  N   SER    26      -4.251  58.727  37.797  1.00  0.00              
ATOM     90  CA  SER    26      -5.129  59.704  37.185  1.00  0.00              
ATOM     91  C   SER    26      -4.975  59.789  35.681  1.00  0.00              
ATOM     92  O   SER    26      -3.860  59.671  35.153  1.00  0.00              
ATOM     93  N   PRO    27      -6.099  59.977  34.991  1.00  0.00              
ATOM     94  CA  PRO    27      -6.077  60.162  33.547  1.00  0.00              
ATOM     95  C   PRO    27      -5.389  61.514  33.350  1.00  0.00              
ATOM     96  O   PRO    27      -5.557  62.423  34.172  1.00  0.00              
ATOM     97  N   LEU    28      -4.601  61.644  32.286  1.00  0.00              
ATOM     98  CA  LEU    28      -3.850  62.871  32.044  1.00  0.00              
ATOM     99  C   LEU    28      -3.644  63.161  30.574  1.00  0.00              
ATOM    100  O   LEU    28      -3.668  62.254  29.745  1.00  0.00              
ATOM    101  N   LEU    30      -1.311  64.791  27.361  1.00  0.00              
ATOM    102  CA  LEU    30       0.075  64.660  26.945  1.00  0.00              
ATOM    103  C   LEU    30       0.957  65.712  27.638  1.00  0.00              
ATOM    104  O   LEU    30       2.084  65.412  28.050  1.00  0.00              
ATOM    105  N   GLU    31       0.409  66.915  27.822  1.00  0.00              
ATOM    106  CA  GLU    31       1.138  67.995  28.465  1.00  0.00              
ATOM    107  C   GLU    31       1.470  67.724  29.920  1.00  0.00              
ATOM    108  O   GLU    31       2.543  68.097  30.393  1.00  0.00              
ATOM    109  N   LYS    32       0.542  67.092  30.637  1.00  0.00              
ATOM    110  CA  LYS    32       0.749  66.759  32.046  1.00  0.00              
ATOM    111  C   LYS    32       1.798  65.669  32.160  1.00  0.00              
ATOM    112  O   LYS    32       2.628  65.691  33.069  1.00  0.00              
ATOM    113  N   VAL    33       1.732  64.702  31.249  1.00  0.00              
ATOM    114  CA  VAL    33       2.669  63.588  31.241  1.00  0.00              
ATOM    115  C   VAL    33       4.076  64.047  30.920  1.00  0.00              
ATOM    116  O   VAL    33       5.033  63.600  31.544  1.00  0.00              
ATOM    117  N   SER    34       4.199  64.939  29.945  1.00  0.00              
ATOM    118  CA  SER    34       5.501  65.461  29.541  1.00  0.00              
ATOM    119  C   SER    34       6.186  66.145  30.719  1.00  0.00              
ATOM    120  O   SER    34       7.303  65.797  31.081  1.00  0.00              
ATOM    121  N   GLU    35       5.492  67.092  31.339  1.00  0.00              
ATOM    122  CA  GLU    35       6.032  67.808  32.484  1.00  0.00              
ATOM    123  C   GLU    35       6.470  66.903  33.625  1.00  0.00              
ATOM    124  O   GLU    35       7.562  67.083  34.160  1.00  0.00              
ATOM    125  N   ARG    36       5.615  65.953  34.006  1.00  0.00              
ATOM    126  CA  ARG    36       5.898  65.026  35.107  1.00  0.00              
ATOM    127  C   ARG    36       7.108  64.143  34.859  1.00  0.00              
ATOM    128  O   ARG    36       7.803  63.751  35.801  1.00  0.00              
ATOM    129  N   SER    37       7.346  63.823  33.593  1.00  0.00              
ATOM    130  CA  SER    37       8.472  62.990  33.192  1.00  0.00              
ATOM    131  C   SER    37       9.683  63.858  32.813  1.00  0.00              
ATOM    132  O   SER    37      10.821  63.390  32.806  1.00  0.00              
ATOM    133  N   GLY    38       9.431  65.135  32.540  1.00  0.00              
ATOM    134  CA  GLY    38      10.496  66.048  32.167  1.00  0.00              
ATOM    135  C   GLY    38      11.017  65.860  30.751  1.00  0.00              
ATOM    136  O   GLY    38      12.204  66.057  30.498  1.00  0.00              
ATOM    137  N   TYR    39      10.149  65.443  29.832  1.00  0.00              
ATOM    138  CA  TYR    39      10.540  65.247  28.430  1.00  0.00              
ATOM    139  C   TYR    39       9.587  66.014  27.519  1.00  0.00              
ATOM    140  O   TYR    39       8.624  66.628  27.989  1.00  0.00              
ATOM    141  N   TRP    42       6.347  65.724  22.341  1.00  0.00              
ATOM    142  CA  TRP    42       6.605  64.961  21.141  1.00  0.00              
ATOM    143  C   TRP    42       7.054  63.541  21.496  1.00  0.00              
ATOM    144  O   TRP    42       6.583  62.560  20.905  1.00  0.00              
ATOM    145  N   HIS    43       7.954  63.442  22.472  1.00  0.00              
ATOM    146  CA  HIS    43       8.466  62.150  22.912  1.00  0.00              
ATOM    147  C   HIS    43       7.366  61.337  23.581  1.00  0.00              
ATOM    148  O   HIS    43       7.249  60.129  23.347  1.00  0.00              
ATOM    149  N   LEU    44       6.568  62.004  24.413  1.00  0.00              
ATOM    150  CA  LEU    44       5.479  61.343  25.114  1.00  0.00              
ATOM    151  C   LEU    44       4.467  60.771  24.121  1.00  0.00              
ATOM    152  O   LEU    44       4.053  59.620  24.269  1.00  0.00              
ATOM    153  N   GLN    45       4.126  61.537  23.081  1.00  0.00              
ATOM    154  CA  GLN    45       3.174  61.087  22.047  1.00  0.00              
ATOM    155  C   GLN    45       3.628  59.810  21.349  1.00  0.00              
ATOM    156  O   GLN    45       2.802  58.979  20.977  1.00  0.00              
ATOM    157  N   ARG    46       4.938  59.681  21.139  1.00  0.00              
ATOM    158  CA  ARG    46       5.516  58.491  20.510  1.00  0.00              
ATOM    159  C   ARG    46       5.316  57.251  21.396  1.00  0.00              
ATOM    160  O   ARG    46       4.866  56.208  20.918  1.00  0.00              
ATOM    161  N   MET    47       5.660  57.375  22.680  1.00  0.00              
ATOM    162  CA  MET    47       5.516  56.282  23.632  1.00  0.00              
ATOM    163  C   MET    47       4.061  55.876  23.800  1.00  0.00              
ATOM    164  O   MET    47       3.756  54.688  23.909  1.00  0.00              
ATOM    165  N   PHE    48       3.170  56.867  23.832  1.00  0.00              
ATOM    166  CA  PHE    48       1.734  56.611  23.991  1.00  0.00              
ATOM    167  C   PHE    48       1.164  55.900  22.776  1.00  0.00              
ATOM    168  O   PHE    48       0.252  55.084  22.895  1.00  0.00              
ATOM    169  N   LYS    49       1.723  56.221  21.611  1.00  0.00              
ATOM    170  CA  LYS    49       1.323  55.617  20.347  1.00  0.00              
ATOM    171  C   LYS    49       1.556  54.117  20.470  1.00  0.00              
ATOM    172  O   LYS    49       0.683  53.306  20.162  1.00  0.00              
ATOM    173  N   LYS    50       2.732  53.768  20.982  1.00  0.00              
ATOM    174  CA  LYS    50       3.112  52.381  21.179  1.00  0.00              
ATOM    175  C   LYS    50       2.202  51.669  22.185  1.00  0.00              
ATOM    176  O   LYS    50       1.779  50.543  21.944  1.00  0.00              
ATOM    177  N   GLU    51       1.896  52.334  23.298  1.00  0.00              
ATOM    178  CA  GLU    51       1.032  51.773  24.342  1.00  0.00              
ATOM    179  C   GLU    51      -0.423  51.625  23.882  1.00  0.00              
ATOM    180  O   GLU    51      -1.143  50.741  24.350  1.00  0.00              
ATOM    181  N   SER    55      -7.574  45.816  35.274  1.00  0.00              
ATOM    182  CA  SER    55      -6.608  44.729  35.440  1.00  0.00              
ATOM    183  C   SER    55      -5.190  45.261  35.400  1.00  0.00              
ATOM    184  O   SER    55      -4.350  44.854  36.194  1.00  0.00              
ATOM    185  N   LEU    56      -4.936  46.179  34.479  1.00  0.00              
ATOM    186  CA  LEU    56      -3.622  46.777  34.362  1.00  0.00              
ATOM    187  C   LEU    56      -3.288  47.473  35.669  1.00  0.00              
ATOM    188  O   LEU    56      -2.174  47.356  36.166  1.00  0.00              
ATOM    189  N   GLY    57      -4.259  48.188  36.232  1.00  0.00              
ATOM    190  CA  GLY    57      -4.043  48.894  37.492  1.00  0.00              
ATOM    191  C   GLY    57      -3.732  47.885  38.588  1.00  0.00              
ATOM    192  O   GLY    57      -2.766  48.045  39.334  1.00  0.00              
ATOM    193  N   GLN    58      -4.546  46.835  38.656  1.00  0.00              
ATOM    194  CA  GLN    58      -4.385  45.795  39.661  1.00  0.00              
ATOM    195  C   GLN    58      -3.067  45.032  39.561  1.00  0.00              
ATOM    196  O   GLN    58      -2.423  44.803  40.583  1.00  0.00              
ATOM    197  N   TYR    59      -2.654  44.649  38.351  1.00  0.00              
ATOM    198  CA  TYR    59      -1.403  43.903  38.206  1.00  0.00              
ATOM    199  C   TYR    59      -0.205  44.792  38.508  1.00  0.00              
ATOM    200  O   TYR    59       0.773  44.342  39.085  1.00  0.00              
ATOM    201  N   ILE    60      -0.319  46.072  38.181  1.00  0.00              
ATOM    202  CA  ILE    60       0.740  47.026  38.467  1.00  0.00              
ATOM    203  C   ILE    60       0.916  47.194  39.996  1.00  0.00              
ATOM    204  O   ILE    60       2.043  47.149  40.507  1.00  0.00              
ATOM    205  N   ARG    61      -0.185  47.402  40.718  1.00  0.00              
ATOM    206  CA  ARG    61      -0.120  47.560  42.168  1.00  0.00              
ATOM    207  C   ARG    61       0.423  46.316  42.865  1.00  0.00              
ATOM    208  O   ARG    61       1.274  46.425  43.748  1.00  0.00              
ATOM    209  N   SER    62      -0.074  45.141  42.471  1.00  0.00              
ATOM    210  CA  SER    62       0.362  43.866  43.055  1.00  0.00              
ATOM    211  C   SER    62       1.832  43.525  42.820  1.00  0.00              
ATOM    212  O   SER    62       2.480  42.941  43.694  1.00  0.00              
ATOM    213  N   ARG    63       2.337  43.859  41.631  1.00  0.00              
ATOM    214  CA  ARG    63       3.735  43.612  41.284  1.00  0.00              
ATOM    215  C   ARG    63       4.615  44.458  42.215  1.00  0.00              
ATOM    216  O   ARG    63       5.609  43.982  42.776  1.00  0.00              
END
