REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0079AL084_1 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : DIFRANCESCO 
REMARK  ---------------------------------------------------------- 
TARGET T0079  
AUTHOR 7278-7379-8158  
METHOD  The method is based on a combination of hidden Markov models and   
METHOD  secondary structure prediction. Each HMM represents a structural family   
METHOD  of proteins and it is trained from known secondary structure sequences   
METHOD  of proteins belonging to the structural family.  
METHOD  Secondary structure prediction is performed for the target sequence   
METHOD  using several types of prediction algorithms (GOR, QL, PHD, etc.). The   
METHOD  predicted fold of the target protein is the fold described by the HMM   
METHOD  that fits one (or most) of the predicted secondary structure sequences   
METHOD  the best.  
METHOD  At present the library consists of about 300 HMMs  
METHOD  Di Francesco et al. JMB (1997) 267, 446-463  
METHOD  Di Francesco et al. Proteins, Supplement 1 (1997) 123-128  
REMARK  Chosen models  
REMARK  1tam, a HIV matrix protein, a helical non bundle protein  
REMARK  Predator prediction without homologues was used for the alignment  
MODEL   1  
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1tam 
ATOM      1  N   SER    37     -24.964  -7.953   9.510  1.00  0.00              
ATOM      2  CA  SER    37     -25.632  -7.904  10.845  1.00  0.00              
ATOM      3  C   SER    37     -27.088  -8.363  10.704  1.00  0.00              
ATOM      4  O   SER    37     -27.503  -8.822   9.657  1.00  0.00              
ATOM      5  N   GLY    38     -27.860  -8.248  11.755  1.00  0.00              
ATOM      6  CA  GLY    38     -29.290  -8.682  11.699  1.00  0.00              
ATOM      7  C   GLY    38     -30.118  -7.667  10.900  1.00  0.00              
ATOM      8  O   GLY    38     -31.149  -8.001  10.347  1.00  0.00              
ATOM      9  N   TYR    39     -29.685  -6.431  10.842  1.00  0.00              
ATOM     10  CA  TYR    39     -30.458  -5.396  10.087  1.00  0.00              
ATOM     11  C   TYR    39     -30.597  -5.809   8.617  1.00  0.00              
ATOM     12  O   TYR    39     -31.557  -5.456   7.956  1.00  0.00              
ATOM     13  N   SER    40     -29.650  -6.553   8.103  1.00  0.00              
ATOM     14  CA  SER    40     -29.726  -6.989   6.676  1.00  0.00              
ATOM     15  C   SER    40     -30.873  -7.983   6.501  1.00  0.00              
ATOM     16  O   SER    40     -31.729  -7.814   5.652  1.00  0.00              
ATOM     17  N   LYS    41     -30.886  -9.027   7.290  1.00  0.00              
ATOM     18  CA  LYS    41     -31.962 -10.052   7.169  1.00  0.00              
ATOM     19  C   LYS    41     -33.329  -9.409   7.422  1.00  0.00              
ATOM     20  O   LYS    41     -34.329  -9.861   6.906  1.00  0.00              
ATOM     21  N   TRP    42     -33.378  -8.359   8.201  1.00  0.00              
ATOM     22  CA  TRP    42     -34.685  -7.688   8.469  1.00  0.00              
ATOM     23  C   TRP    42     -35.100  -6.919   7.214  1.00  0.00              
ATOM     24  O   TRP    42     -36.250  -6.920   6.815  1.00  0.00              
ATOM     25  N   HIS    43     -34.154  -6.272   6.586  1.00  0.00              
ATOM     26  CA  HIS    43     -34.445  -5.498   5.345  1.00  0.00              
ATOM     27  C   HIS    43     -34.995  -6.442   4.266  1.00  0.00              
ATOM     28  O   HIS    43     -36.082  -6.256   3.759  1.00  0.00              
ATOM     29  N   LEU    44     -34.228  -7.430   3.901  1.00  0.00              
ATOM     30  CA  LEU    44     -34.662  -8.385   2.838  1.00  0.00              
ATOM     31  C   LEU    44     -35.850  -9.228   3.310  1.00  0.00              
ATOM     32  O   LEU    44     -36.631  -9.705   2.511  1.00  0.00              
ATOM     33  N   GLN    45     -35.988  -9.433   4.593  1.00  0.00              
ATOM     34  CA  GLN    45     -37.118 -10.266   5.097  1.00  0.00              
ATOM     35  C   GLN    45     -38.441  -9.548   4.859  1.00  0.00              
ATOM     36  O   GLN    45     -39.333 -10.070   4.226  1.00  0.00              
ATOM     37  N   ARG    46     -38.574  -8.363   5.379  1.00  0.00              
ATOM     38  CA  ARG    46     -39.852  -7.606   5.213  1.00  0.00              
ATOM     39  C   ARG    46     -40.042  -7.165   3.761  1.00  0.00              
ATOM     40  O   ARG    46     -41.107  -7.313   3.191  1.00  0.00              
ATOM     41  N   MET    47     -39.027  -6.601   3.173  1.00  0.00              
ATOM     42  CA  MET    47     -39.137  -6.112   1.768  1.00  0.00              
ATOM     43  C   MET    47     -39.309  -7.275   0.786  1.00  0.00              
ATOM     44  O   MET    47     -40.240  -7.299   0.000  1.00  0.00              
ATOM     45  N   PHE    48     -38.409  -8.222   0.802  1.00  0.00              
ATOM     46  CA  PHE    48     -38.510  -9.360  -0.162  1.00  0.00              
ATOM     47  C   PHE    48     -39.743 -10.213   0.134  1.00  0.00              
ATOM     48  O   PHE    48     -40.360 -10.733  -0.774  1.00  0.00              
ATOM     49  N   LYS    49     -40.121 -10.358   1.380  1.00  0.00              
ATOM     50  CA  LYS    49     -41.336 -11.174   1.687  1.00  0.00              
ATOM     51  C   LYS    49     -42.555 -10.444   1.127  1.00  0.00              
ATOM     52  O   LYS    49     -43.446 -11.046   0.560  1.00  0.00              
ATOM     53  N   LYS    50     -42.580  -9.145   1.275  1.00  0.00              
ATOM     54  CA  LYS    50     -43.717  -8.333   0.752  1.00  0.00              
ATOM     55  C   LYS    50     -43.690  -8.335  -0.780  1.00  0.00              
ATOM     56  O   LYS    50     -44.707  -8.174  -1.426  1.00  0.00              
ATOM     57  N   GLU    51     -42.534  -8.506  -1.363  1.00  0.00              
ATOM     58  CA  GLU    51     -42.432  -8.516  -2.851  1.00  0.00              
ATOM     59  C   GLU    51     -43.009  -9.815  -3.418  1.00  0.00              
ATOM     60  O   GLU    51     -43.916  -9.808  -4.227  1.00  0.00              
ATOM     61  N   THR    52     -42.458 -10.925  -3.010  1.00  0.00              
ATOM     62  CA  THR    52     -42.923 -12.245  -3.523  1.00  0.00              
ATOM     63  C   THR    52     -44.375 -12.469  -3.120  1.00  0.00              
ATOM     64  O   THR    52     -45.223 -12.712  -3.955  1.00  0.00              
ATOM     65  N   GLY    53     -44.655 -12.373  -1.842  1.00  0.00              
ATOM     66  CA  GLY    53     -46.055 -12.563  -1.308  1.00  0.00              
ATOM     67  C   GLY    53     -46.812 -13.681  -2.048  1.00  0.00              
ATOM     68  O   GLY    53     -47.969 -13.526  -2.395  1.00  0.00              
ATOM     69  N   HIS    54     -46.176 -14.807  -2.288  1.00  0.00              
ATOM     70  CA  HIS    54     -46.878 -15.924  -3.001  1.00  0.00              
ATOM     71  C   HIS    54     -45.932 -17.124  -3.226  1.00  0.00              
ATOM     72  O   HIS    54     -46.269 -18.224  -2.834  1.00  0.00              
ATOM     73  N   SER    55     -44.791 -16.916  -3.869  1.00  0.00              
ATOM     74  CA  SER    55     -43.865 -18.030  -4.141  1.00  0.00              
ATOM     75  C   SER    55     -43.278 -18.573  -2.837  1.00  0.00              
ATOM     76  O   SER    55     -42.911 -19.731  -2.751  1.00  0.00              
ATOM     77  N   LEU    56     -43.169 -17.744  -1.828  1.00  0.00              
ATOM     78  CA  LEU    56     -42.583 -18.209  -0.532  1.00  0.00              
ATOM     79  C   LEU    56     -41.155 -18.699  -0.785  1.00  0.00              
ATOM     80  O   LEU    56     -40.681 -19.627  -0.158  1.00  0.00              
ATOM     81  N   GLY    57     -40.481 -18.082  -1.721  1.00  0.00              
ATOM     82  CA  GLY    57     -39.089 -18.500  -2.059  1.00  0.00              
ATOM     83  C   GLY    57     -38.147 -18.294  -0.870  1.00  0.00              
ATOM     84  O   GLY    57     -37.043 -18.803  -0.864  1.00  0.00              
ATOM     85  N   GLN    58     -38.557 -17.559   0.131  1.00  0.00              
ATOM     86  CA  GLN    58     -37.660 -17.345   1.303  1.00  0.00              
ATOM     87  C   GLN    58     -37.401 -18.684   2.001  1.00  0.00              
ATOM     88  O   GLN    58     -36.336 -18.916   2.541  1.00  0.00              
ATOM     89  N   TYR    59     -38.371 -19.563   1.994  1.00  0.00              
ATOM     90  CA  TYR    59     -38.196 -20.889   2.657  1.00  0.00              
ATOM     91  C   TYR    59     -37.399 -21.839   1.759  1.00  0.00              
ATOM     92  O   TYR    59     -36.427 -22.436   2.181  1.00  0.00              
ATOM     93  N   ILE    60     -37.823 -22.001   0.533  1.00  0.00              
ATOM     94  CA  ILE    60     -37.121 -22.933  -0.396  1.00  0.00              
ATOM     95  C   ILE    60     -36.205 -22.160  -1.348  1.00  0.00              
ATOM     96  O   ILE    60     -36.478 -21.034  -1.711  1.00  0.00              
ATOM     97  N   ARG    61     -35.118 -22.766  -1.754  1.00  0.00              
ATOM     98  CA  ARG    61     -34.170 -22.083  -2.683  1.00  0.00              
ATOM     99  C   ARG    61     -34.715 -22.122  -4.116  1.00  0.00              
ATOM    100  O   ARG    61     -34.404 -21.270  -4.925  1.00  0.00              
ATOM    101  N   SER    62     -35.520 -23.105  -4.438  1.00  0.00              
ATOM    102  CA  SER    62     -36.080 -23.202  -5.823  1.00  0.00              
ATOM    103  C   SER    62     -36.894 -21.953  -6.139  1.00  0.00              
ATOM    104  O   SER    62     -36.863 -21.452  -7.249  1.00  0.00              
ATOM    105  N   ARG    63     -37.602 -21.433  -5.173  1.00  0.00              
ATOM    106  CA  ARG    63     -38.392 -20.201  -5.421  1.00  0.00              
ATOM    107  C   ARG    63     -37.417 -19.045  -5.624  1.00  0.00              
ATOM    108  O   ARG    63     -37.684 -18.113  -6.359  1.00  0.00              
ATOM    109  N   LYS    64     -36.284 -19.099  -4.961  1.00  0.00              
ATOM    110  CA  LYS    64     -35.278 -18.008  -5.091  1.00  0.00              
ATOM    111  C   LYS    64     -34.821 -17.911  -6.541  1.00  0.00              
ATOM    112  O   LYS    64     -34.676 -16.843  -7.074  1.00  0.00              
ATOM    113  N   MET    65     -34.606 -19.024  -7.187  1.00  0.00              
ATOM    114  CA  MET    65     -34.161 -19.001  -8.619  1.00  0.00              
ATOM    115  C   MET    65     -35.116 -18.131  -9.451  1.00  0.00              
ATOM    116  O   MET    65     -34.727 -17.520 -10.431  1.00  0.00              
ATOM    117  N   THR    66     -36.360 -18.092  -9.067  1.00  0.00              
ATOM    118  CA  THR    66     -37.368 -17.292  -9.829  1.00  0.00              
ATOM    119  C   THR    66     -37.112 -15.773  -9.734  1.00  0.00              
ATOM    120  O   THR    66     -36.934 -15.110 -10.747  1.00  0.00              
ATOM    121  N   GLU    67     -37.137 -15.203  -8.545  1.00  0.00              
ATOM    122  CA  GLU    67     -36.953 -13.715  -8.436  1.00  0.00              
ATOM    123  C   GLU    67     -35.515 -13.295  -8.743  1.00  0.00              
ATOM    124  O   GLU    67     -35.291 -12.221  -9.259  1.00  0.00              
ATOM    125  N   ILE    68     -34.547 -14.118  -8.438  1.00  0.00              
ATOM    126  CA  ILE    68     -33.135 -13.740  -8.734  1.00  0.00              
ATOM    127  C   ILE    68     -32.931 -13.816 -10.247  1.00  0.00              
ATOM    128  O   ILE    68     -32.303 -12.962 -10.840  1.00  0.00              
ATOM    129  N   ALA    69     -33.478 -14.827 -10.877  1.00  0.00              
ATOM    130  CA  ALA    69     -33.335 -14.956 -12.359  1.00  0.00              
ATOM    131  C   ALA    69     -34.000 -13.756 -13.035  1.00  0.00              
ATOM    132  O   ALA    69     -33.469 -13.184 -13.968  1.00  0.00              
ATOM    133  N   GLN    70     -35.158 -13.368 -12.562  1.00  0.00              
ATOM    134  CA  GLN    70     -35.869 -12.197 -13.162  1.00  0.00              
ATOM    135  C   GLN    70     -35.162 -10.892 -12.763  1.00  0.00              
ATOM    136  O   GLN    70     -35.269  -9.888 -13.439  1.00  0.00              
ATOM    137  N   LYS    71     -34.470 -10.898 -11.652  1.00  0.00              
ATOM    138  CA  LYS    71     -33.768  -9.668 -11.170  1.00  0.00              
ATOM    139  C   LYS    71     -32.441  -9.464 -11.917  1.00  0.00              
ATOM    140  O   LYS    71     -31.943  -8.359 -12.006  1.00  0.00              
ATOM    141  N   LEU    72     -31.849 -10.524 -12.416  1.00  0.00              
ATOM    142  CA  LEU    72     -30.526 -10.416 -13.129  1.00  0.00              
ATOM    143  C   LEU    72     -30.500  -9.229 -14.128  1.00  0.00              
ATOM    144  O   LEU    72     -29.589  -8.427 -14.077  1.00  0.00              
ATOM    145  N   LYS    73     -31.482  -9.137 -15.010  1.00  0.00              
ATOM    146  CA  LYS    73     -31.528  -8.041 -15.994  1.00  0.00              
ATOM    147  C   LYS    73     -31.842  -6.728 -15.277  1.00  0.00              
ATOM    148  O   LYS    73     -31.427  -5.663 -15.692  1.00  0.00              
ATOM    149  N   GLU    74     -32.582  -6.809 -14.203  1.00  0.00              
ATOM    150  CA  GLU    74     -32.947  -5.580 -13.440  1.00  0.00              
ATOM    151  C   GLU    74     -31.726  -5.027 -12.687  1.00  0.00              
ATOM    152  O   GLU    74     -31.771  -3.937 -12.154  1.00  0.00              
ATOM    153  N   SER    75     -30.642  -5.763 -12.629  1.00  0.00              
ATOM    154  CA  SER    75     -29.437  -5.264 -11.900  1.00  0.00              
ATOM    155  C   SER    75     -28.811  -4.086 -12.657  1.00  0.00              
ATOM    156  O   SER    75     -28.103  -3.282 -12.079  1.00  0.00              
ATOM    157  N   ASN    76     -29.048  -3.985 -13.943  1.00  0.00              
ATOM    158  CA  ASN    76     -28.447  -2.866 -14.731  1.00  0.00              
ATOM    159  C   ASN    76     -29.377  -1.642 -14.757  1.00  0.00              
ATOM    160  O   ASN    76     -29.142  -0.709 -15.504  1.00  0.00              
ATOM    161  N   GLU    77     -30.420  -1.624 -13.958  1.00  0.00              
ATOM    162  CA  GLU    77     -31.339  -0.442 -13.961  1.00  0.00              
ATOM    163  C   GLU    77     -31.307   0.259 -12.596  1.00  0.00              
ATOM    164  O   GLU    77     -31.614   1.433 -12.492  1.00  0.00              
ATOM    165  N   PRO    78     -30.941  -0.444 -11.552  1.00  0.00              
ATOM    166  CA  PRO    78     -30.892   0.187 -10.199  1.00  0.00              
ATOM    167  C   PRO    78     -30.018  -0.657  -9.271  1.00  0.00              
ATOM    168  O   PRO    78     -30.424  -1.036  -8.197  1.00  0.00              
ATOM    169  N   ILE    79     -28.817  -0.950  -9.690  1.00  0.00              
ATOM    170  CA  ILE    79     -27.877  -1.780  -8.863  1.00  0.00              
ATOM    171  C   ILE    79     -27.802  -1.292  -7.403  1.00  0.00              
ATOM    172  O   ILE    79     -27.394  -2.031  -6.529  1.00  0.00              
ATOM    173  N   LEU    80     -28.163  -0.064  -7.125  1.00  0.00              
ATOM    174  CA  LEU    80     -28.089   0.435  -5.714  1.00  0.00              
ATOM    175  C   LEU    80     -28.911  -0.477  -4.794  1.00  0.00              
ATOM    176  O   LEU    80     -28.369  -1.190  -3.970  1.00  0.00              
ATOM    177  N   TYR    81     -30.208  -0.464  -4.940  1.00  0.00              
ATOM    178  CA  TYR    81     -31.075  -1.334  -4.086  1.00  0.00              
ATOM    179  C   TYR    81     -31.068  -2.761  -4.640  1.00  0.00              
ATOM    180  O   TYR    81     -30.978  -3.725  -3.908  1.00  0.00              
ATOM    181  N   LEU    82     -31.173  -2.890  -5.935  1.00  0.00              
ATOM    182  CA  LEU    82     -31.186  -4.238  -6.592  1.00  0.00              
ATOM    183  C   LEU    82     -30.018  -5.098  -6.102  1.00  0.00              
ATOM    184  O   LEU    82     -30.199  -6.202  -5.632  1.00  0.00              
ATOM    185  N   ALA    83     -28.824  -4.596  -6.237  1.00  0.00              
ATOM    186  CA  ALA    83     -27.614  -5.362  -5.813  1.00  0.00              
ATOM    187  C   ALA    83     -27.698  -5.717  -4.327  1.00  0.00              
ATOM    188  O   ALA    83     -27.161  -6.718  -3.895  1.00  0.00              
ATOM    189  N   GLU    84     -28.360  -4.904  -3.543  1.00  0.00              
ATOM    190  CA  GLU    84     -28.471  -5.195  -2.085  1.00  0.00              
ATOM    191  C   GLU    84     -29.367  -6.420  -1.875  1.00  0.00              
ATOM    192  O   GLU    84     -28.983  -7.396  -1.241  1.00  0.00              
ATOM    193  N   ARG    85     -30.555  -6.383  -2.423  1.00  0.00              
ATOM    194  CA  ARG    85     -31.493  -7.538  -2.287  1.00  0.00              
ATOM    195  C   ARG    85     -30.829  -8.789  -2.852  1.00  0.00              
ATOM    196  O   ARG    85     -31.084  -9.895  -2.419  1.00  0.00              
ATOM    197  N   THR    93     -17.615 -15.216   2.818  1.00  0.00              
ATOM    198  CA  THR    93     -17.857 -13.763   2.566  1.00  0.00              
ATOM    199  C   THR    93     -18.995 -13.592   1.561  1.00  0.00              
ATOM    200  O   THR    93     -19.418 -14.533   0.917  1.00  0.00              
ATOM    201  N   LEU    94     -19.487 -12.389   1.424  1.00  0.00              
ATOM    202  CA  LEU    94     -20.596 -12.126   0.464  1.00  0.00              
ATOM    203  C   LEU    94     -20.061 -12.157  -0.969  1.00  0.00              
ATOM    204  O   LEU    94     -20.759 -12.537  -1.886  1.00  0.00              
ATOM    205  N   THR    95     -18.830 -11.756  -1.169  1.00  0.00              
ATOM    206  CA  THR    95     -18.247 -11.753  -2.548  1.00  0.00              
ATOM    207  C   THR    95     -18.267 -13.172  -3.123  1.00  0.00              
ATOM    208  O   THR    95     -18.542 -13.376  -4.290  1.00  0.00              
ATOM    209  N   ARG    96     -17.982 -14.147  -2.305  1.00  0.00              
ATOM    210  CA  ARG    96     -17.983 -15.563  -2.780  1.00  0.00              
ATOM    211  C   ARG    96     -19.426 -16.072  -2.884  1.00  0.00              
ATOM    212  O   ARG    96     -19.725 -16.962  -3.656  1.00  0.00              
ATOM    213  N   THR    97     -20.314 -15.517  -2.101  1.00  0.00              
ATOM    214  CA  THR    97     -21.739 -15.958  -2.126  1.00  0.00              
ATOM    215  C   THR    97     -22.367 -15.664  -3.486  1.00  0.00              
ATOM    216  O   THR    97     -23.030 -16.499  -4.069  1.00  0.00              
ATOM    217  N   PHE    98     -22.181 -14.473  -3.974  1.00  0.00              
ATOM    218  CA  PHE    98     -22.783 -14.086  -5.285  1.00  0.00              
ATOM    219  C   PHE    98     -22.055 -14.801  -6.428  1.00  0.00              
ATOM    220  O   PHE    98     -22.620 -15.031  -7.479  1.00  0.00              
ATOM    221  N   LYS    99     -20.810 -15.155  -6.233  1.00  0.00              
ATOM    222  CA  LYS    99     -20.055 -15.860  -7.312  1.00  0.00              
ATOM    223  C   LYS    99     -20.589 -17.288  -7.467  1.00  0.00              
ATOM    224  O   LYS    99     -21.037 -17.685  -8.529  1.00  0.00              
ATOM    225  N   ASN   100     -20.540 -18.060  -6.414  1.00  0.00              
ATOM    226  CA  ASN   100     -21.033 -19.469  -6.480  1.00  0.00              
ATOM    227  C   ASN   100     -22.520 -19.479  -6.841  1.00  0.00              
ATOM    228  O   ASN   100     -22.965 -20.272  -7.649  1.00  0.00              
ATOM    229  N   TYR   101     -23.286 -18.600  -6.249  1.00  0.00              
ATOM    230  CA  TYR   101     -24.746 -18.549  -6.557  1.00  0.00              
ATOM    231  C   TYR   101     -24.921 -18.164  -8.034  1.00  0.00              
ATOM    232  O   TYR   101     -25.827 -18.619  -8.703  1.00  0.00              
ATOM    233  N   PHE   102     -24.040 -17.335  -8.535  1.00  0.00              
ATOM    234  CA  PHE   102     -24.120 -16.919  -9.964  1.00  0.00              
ATOM    235  C   PHE   102     -23.722 -18.102 -10.849  1.00  0.00              
ATOM    236  O   PHE   102     -24.136 -18.200 -11.984  1.00  0.00              
ATOM    237  N   ASP   103     -22.911 -18.996 -10.341  1.00  0.00              
ATOM    238  CA  ASP   103     -22.486 -20.169 -11.158  1.00  0.00              
ATOM    239  C   ASP   103     -23.662 -21.139 -11.327  1.00  0.00              
ATOM    240  O   ASP   103     -23.788 -21.798 -12.342  1.00  0.00              
ATOM    241  N   VAL   104     -24.515 -21.238 -10.338  1.00  0.00              
ATOM    242  CA  VAL   104     -25.678 -22.176 -10.431  1.00  0.00              
ATOM    243  C   VAL   104     -26.795 -21.572 -11.290  1.00  0.00              
ATOM    244  O   VAL   104     -27.283 -22.191 -12.216  1.00  0.00              
ATOM    245  N   PRO   105     -27.211 -20.376 -10.975  1.00  0.00              
ATOM    246  CA  PRO   105     -28.311 -19.719 -11.747  1.00  0.00              
ATOM    247  C   PRO   105     -27.851 -19.451 -13.181  1.00  0.00              
ATOM    248  O   PRO   105     -28.522 -19.789 -14.137  1.00  0.00              
END
