REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0061AL201_2 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : TATSUYA-AKUTSU 
REMARK  ---------------------------------------------------------- 
TARGET T0061  
AUTHOR 7648-2940-6918  
REMARK 2nd candidate   
REMARK   
METHOD We align a target sequence with structurally aligned sequences  
METHOD (i.e., multiple structure alignment), where a multiple structure  
METHOD alignment is computed from results of pairwise structure alignments  
METHOD for similar structures.   
METHOD Pairwise structure alignments are computed using a computer  
METHOD program STRALIGN [1] developed by the group-leader and they are  
METHOD combined into a multiple structure alignment using a method like  
METHOD center-star alignment.  
METHOD A simple dynamic programming procedure (Smith-Waterman like procedure)  
METHOD is used for computing an alignment between a target sequence and  
METHOD the aligned sequences.  
METHOD Finally, an alignment between a target and one of the aligned  
METHOD sequences (i.e., template sequence) is extracted and refined.  
METHOD Human knowledge is also used to find template structures and  
METHOD to refine alignments.  
METHOD  
METHOD [1] T. Akutsu: Protein structure alignment using dynamic programming  
METHOD and iterative alignment, IEICE Transactions on Information and Systems,  
METHOD vol. E79-D, pp. 1629--1636, 1996.  
METHOD  
METHOD Program code of STRALIGN is available via  
METHOD http://www.hgc.ims.u-tokyo.ac.jp/service/tooldoc/stralign/intro.html  
MODEL  2  
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1tdx 
ATOM      1  N   ASP    25      24.599  39.545  21.064  1.00  0.00              
ATOM      2  CA  ASP    25      23.368  38.813  20.566  1.00  0.00              
ATOM      3  C   ASP    25      22.398  38.261  21.604  1.00  0.00              
ATOM      4  O   ASP    25      21.261  38.725  21.713  1.00  0.00              
ATOM      5  N   GLU    26      22.827  37.250  22.360  1.00  0.00              
ATOM      6  CA  GLU    26      22.086  36.705  23.472  1.00  0.00              
ATOM      7  C   GLU    26      22.904  37.280  24.622  1.00  0.00              
ATOM      8  O   GLU    26      23.701  36.574  25.255  1.00  0.00              
ATOM      9  N   SER    27      22.743  38.585  24.779  1.00  0.00              
ATOM     10  CA  SER    27      23.470  39.359  25.790  1.00  0.00              
ATOM     11  C   SER    27      23.257  38.729  27.148  1.00  0.00              
ATOM     12  O   SER    27      22.114  38.527  27.585  1.00  0.00              
ATOM     13  N   PHE    28      24.377  38.441  27.752  1.00  0.00              
ATOM     14  CA  PHE    28      24.428  37.811  29.058  1.00  0.00              
ATOM     15  C   PHE    28      24.392  36.294  28.899  1.00  0.00              
ATOM     16  O   PHE    28      23.491  35.619  29.418  1.00  0.00              
ATOM     17  N   GLN    29      25.371  35.806  28.158  1.00  0.00              
ATOM     18  CA  GLN    29      25.580  34.364  27.993  1.00  0.00              
ATOM     19  C   GLN    29      26.266  33.897  29.263  1.00  0.00              
ATOM     20  O   GLN    29      27.004  34.671  29.871  1.00  0.00              
ATOM     21  N   PRO    30      30.767  28.095  31.317  1.00  0.00              
ATOM     22  CA  PRO    30      30.780  26.779  31.949  1.00  0.00              
ATOM     23  C   PRO    30      30.547  26.737  33.457  1.00  0.00              
ATOM     24  O   PRO    30      29.678  26.001  33.926  1.00  0.00              
ATOM     25  N   THR    31      31.288  27.563  34.203  1.00  0.00              
ATOM     26  CA  THR    31      31.148  27.669  35.649  1.00  0.00              
ATOM     27  C   THR    31      29.799  28.211  36.107  1.00  0.00              
ATOM     28  O   THR    31      29.229  27.733  37.090  1.00  0.00              
ATOM     29  N   ALA    32      29.271  29.201  35.383  1.00  0.00              
ATOM     30  CA  ALA    32      27.988  29.799  35.705  1.00  0.00              
ATOM     31  C   ALA    32      26.816  28.879  35.406  1.00  0.00              
ATOM     32  O   ALA    32      25.914  28.722  36.231  1.00  0.00              
ATOM     33  N   VAL    33      26.854  28.224  34.241  1.00  0.00              
ATOM     34  CA  VAL    33      25.787  27.357  33.762  1.00  0.00              
ATOM     35  C   VAL    33      25.549  26.142  34.648  1.00  0.00              
ATOM     36  O   VAL    33      24.399  25.751  34.849  1.00  0.00              
ATOM     37  N   GLY    34      26.607  25.565  35.222  1.00  0.00              
ATOM     38  CA  GLY    34      26.470  24.437  36.131  1.00  0.00              
ATOM     39  C   GLY    34      25.747  24.810  37.425  1.00  0.00              
ATOM     40  O   GLY    34      25.082  23.967  38.033  1.00  0.00              
ATOM     41  N   PHE    35      25.831  26.086  37.838  1.00  0.00              
ATOM     42  CA  PHE    35      25.110  26.560  39.012  1.00  0.00              
ATOM     43  C   PHE    35      23.658  26.831  38.659  1.00  0.00              
ATOM     44  O   PHE    35      22.772  26.534  39.463  1.00  0.00              
ATOM     45  N   ALA    36      23.401  27.391  37.467  1.00  0.00              
ATOM     46  CA  ALA    36      22.045  27.665  37.008  1.00  0.00              
ATOM     47  C   ALA    36      21.239  26.379  36.915  1.00  0.00              
ATOM     48  O   ALA    36      20.079  26.334  37.321  1.00  0.00              
ATOM     49  N   GLU    37      21.873  25.309  36.423  1.00  0.00              
ATOM     50  CA  GLU    37      21.279  23.984  36.381  1.00  0.00              
ATOM     51  C   GLU    37      21.026  23.485  37.802  1.00  0.00              
ATOM     52  O   GLU    37      19.945  22.964  38.069  1.00  0.00              
ATOM     53  N   ALA    38      21.974  23.692  38.730  1.00  0.00              
ATOM     54  CA  ALA    38      21.840  23.236  40.106  1.00  0.00              
ATOM     55  C   ALA    38      20.668  23.853  40.856  1.00  0.00              
ATOM     56  O   ALA    38      19.898  23.095  41.440  1.00  0.00              
ATOM     57  N   LEU    39      20.465  25.183  40.857  1.00  0.00              
ATOM     58  CA  LEU    39      19.319  25.776  41.550  1.00  0.00              
ATOM     59  C   LEU    39      17.998  25.525  40.836  1.00  0.00              
ATOM     60  O   LEU    39      16.932  25.661  41.437  1.00  0.00              
ATOM     61  N   ASN    40      18.039  25.156  39.551  1.00  0.00              
ATOM     62  CA  ASN    40      16.843  24.761  38.829  1.00  0.00              
ATOM     63  C   ASN    40      16.450  23.341  39.193  1.00  0.00              
ATOM     64  O   ASN    40      15.263  23.039  39.307  1.00  0.00              
ATOM     65  N   ASN    41      17.458  22.490  39.408  1.00  0.00              
ATOM     66  CA  ASN    41      17.279  21.105  39.803  1.00  0.00              
ATOM     67  C   ASN    41      16.655  21.110  41.194  1.00  0.00              
ATOM     68  O   ASN    41      15.589  20.534  41.399  1.00  0.00              
ATOM     69  N   LYS    42      17.299  21.824  42.130  1.00  0.00              
ATOM     70  CA  LYS    42      16.847  21.987  43.508  1.00  0.00              
ATOM     71  C   LYS    42      15.425  22.497  43.612  1.00  0.00              
ATOM     72  O   LYS    42      14.635  21.980  44.393  1.00  0.00              
ATOM     73  N   ASP    43      15.092  23.483  42.777  1.00  0.00              
ATOM     74  CA  ASP    43      13.771  24.088  42.737  1.00  0.00              
ATOM     75  C   ASP    43      12.713  23.094  42.266  1.00  0.00              
ATOM     76  O   ASP    43      11.666  22.956  42.897  1.00  0.00              
ATOM     77  N   LYS    44      12.967  22.400  41.156  1.00  0.00              
ATOM     78  CA  LYS    44      11.998  21.476  40.601  1.00  0.00              
ATOM     79  C   LYS    44      11.914  20.146  41.330  1.00  0.00              
ATOM     80  O   LYS    44      11.042  19.325  41.050  1.00  0.00              
ATOM     81  N   PRO    45      12.817  19.921  42.287  1.00  0.00              
ATOM     82  CA  PRO    45      12.693  18.793  43.188  1.00  0.00              
ATOM     83  C   PRO    45      11.994  19.279  44.447  1.00  0.00              
ATOM     84  O   PRO    45      11.260  18.515  45.066  1.00  0.00              
ATOM     85  N   GLU    46      12.162  20.563  44.801  1.00  0.00              
ATOM     86  CA  GLU    46      11.511  21.178  45.952  1.00  0.00              
ATOM     87  C   GLU    46      10.011  21.240  45.748  1.00  0.00              
ATOM     88  O   GLU    46       9.257  20.883  46.644  1.00  0.00              
ATOM     89  N   ASP    47       9.578  21.665  44.554  1.00  0.00              
ATOM     90  CA  ASP    47       8.169  21.723  44.177  1.00  0.00              
ATOM     91  C   ASP    47       7.581  20.327  44.062  1.00  0.00              
ATOM     92  O   ASP    47       6.433  20.103  44.438  1.00  0.00              
ATOM     93  N   ALA    48       8.369  19.372  43.552  1.00  0.00              
ATOM     94  CA  ALA    48       7.943  17.985  43.428  1.00  0.00              
ATOM     95  C   ALA    48       7.804  17.363  44.817  1.00  0.00              
ATOM     96  O   ALA    48       6.937  16.524  45.034  1.00  0.00              
ATOM     97  N   VAL    49       8.622  17.791  45.781  1.00  0.00              
ATOM     98  CA  VAL    49       8.562  17.333  47.165  1.00  0.00              
ATOM     99  C   VAL    49       7.347  17.919  47.869  1.00  0.00              
ATOM    100  O   VAL    49       6.500  17.176  48.361  1.00  0.00              
ATOM    101  N   LEU    50       7.231  19.252  47.848  1.00  0.00              
ATOM    102  CA  LEU    50       6.185  20.017  48.513  1.00  0.00              
ATOM    103  C   LEU    50       4.749  19.740  48.104  1.00  0.00              
ATOM    104  O   LEU    50       3.823  20.250  48.740  1.00  0.00              
ATOM    105  N   ASP    51       3.998  16.251  46.298  1.00  0.00              
ATOM    106  CA  ASP    51       3.826  14.794  46.290  1.00  0.00              
ATOM    107  C   ASP    51       3.598  14.283  47.704  1.00  0.00              
ATOM    108  O   ASP    51       2.763  13.414  47.949  1.00  0.00              
ATOM    109  N   VAL    52       4.397  14.805  48.634  1.00  0.00              
ATOM    110  CA  VAL    52       4.184  14.603  50.058  1.00  0.00              
ATOM    111  C   VAL    52       4.054  16.049  50.629  1.00  0.00              
ATOM    112  O   VAL    52       4.169  17.037  49.887  1.00  0.00              
ATOM    113  N   GLN    53       3.827  16.180  51.926  1.00  0.00              
ATOM    114  CA  GLN    53       3.591  17.504  52.591  1.00  0.00              
ATOM    115  C   GLN    53       2.195  18.021  52.189  1.00  0.00              
ATOM    116  O   GLN    53       1.546  18.758  52.939  1.00  0.00              
ATOM    117  N   GLY    54       1.997  18.179  50.888  1.00  0.00              
ATOM    118  CA  GLY    54       0.685  18.564  50.314  1.00  0.00              
ATOM    119  C   GLY    54       0.334  20.028  50.554  1.00  0.00              
ATOM    120  O   GLY    54      -0.804  20.359  50.915  1.00  0.00              
ATOM    121  N   ILE    55       1.302  20.882  50.325  1.00  0.00              
ATOM    122  CA  ILE    55       1.124  22.323  50.530  1.00  0.00              
ATOM    123  C   ILE    55       0.295  22.970  49.391  1.00  0.00              
ATOM    124  O   ILE    55       0.703  22.952  48.218  1.00  0.00              
ATOM    125  N   ASP    69      10.984  28.736  45.873  1.00  0.00              
ATOM    126  CA  ASP    69      11.852  29.803  45.408  1.00  0.00              
ATOM    127  C   ASP    69      12.785  30.196  46.552  1.00  0.00              
ATOM    128  O   ASP    69      13.886  30.700  46.297  1.00  0.00              
ATOM    129  N   LYS    70      12.368  29.982  47.804  1.00  0.00              
ATOM    130  CA  LYS    70      13.230  30.217  48.946  1.00  0.00              
ATOM    131  C   LYS    70      14.087  28.987  49.222  1.00  0.00              
ATOM    132  O   LYS    70      15.313  29.100  49.299  1.00  0.00              
ATOM    133  N   GLN    71      13.453  27.804  49.298  1.00  0.00              
ATOM    134  CA  GLN    71      14.111  26.529  49.587  1.00  0.00              
ATOM    135  C   GLN    71      15.255  26.141  48.664  1.00  0.00              
ATOM    136  O   GLN    71      16.229  25.550  49.136  1.00  0.00              
ATOM    137  N   ALA    72      15.165  26.468  47.367  1.00  0.00              
ATOM    138  CA  ALA    72      16.200  26.132  46.392  1.00  0.00              
ATOM    139  C   ALA    72      17.607  26.614  46.707  1.00  0.00              
ATOM    140  O   ALA    72      18.588  25.955  46.367  1.00  0.00              
ATOM    141  N   ASN    73      17.718  27.750  47.393  1.00  0.00              
ATOM    142  CA  ASN    73      19.006  28.334  47.734  1.00  0.00              
ATOM    143  C   ASN    73      19.648  27.731  48.978  1.00  0.00              
ATOM    144  O   ASN    73      20.812  27.987  49.297  1.00  0.00              
ATOM    145  N   PHE    74      18.782  24.214  49.967  1.00  0.00              
ATOM    146  CA  PHE    74      18.761  22.767  49.824  1.00  0.00              
ATOM    147  C   PHE    74      20.138  22.197  49.506  1.00  0.00              
ATOM    148  O   PHE    74      20.951  22.845  48.844  1.00  0.00              
ATOM    149  N   LYS    75      20.430  20.987  49.988  1.00  0.00              
ATOM    150  CA  LYS    75      21.706  20.356  49.685  1.00  0.00              
ATOM    151  C   LYS    75      21.600  19.536  48.414  1.00  0.00              
ATOM    152  O   LYS    75      20.514  19.224  47.927  1.00  0.00              
ATOM    153  N   ASP    76      22.766  19.172  47.883  1.00  0.00              
ATOM    154  CA  ASP    76      22.849  18.199  46.802  1.00  0.00              
ATOM    155  C   ASP    76      22.560  16.835  47.427  1.00  0.00              
ATOM    156  O   ASP    76      21.893  15.976  46.854  1.00  0.00              
ATOM    157  N   LYS    77      23.034  16.706  48.674  1.00  0.00              
ATOM    158  CA  LYS    77      22.853  15.554  49.549  1.00  0.00              
ATOM    159  C   LYS    77      21.382  15.238  49.826  1.00  0.00              
ATOM    160  O   LYS    77      21.004  14.083  50.011  1.00  0.00              
ATOM    161  N   VAL    78      20.540  16.278  49.843  1.00  0.00              
ATOM    162  CA  VAL    78      19.098  16.149  50.031  1.00  0.00              
ATOM    163  C   VAL    78      18.419  15.716  48.741  1.00  0.00              
ATOM    164  O   VAL    78      17.425  14.989  48.776  1.00  0.00              
ATOM    165  N   LYS    79      18.959  16.155  47.601  1.00  0.00              
ATOM    166  CA  LYS    79      18.416  15.798  46.302  1.00  0.00              
ATOM    167  C   LYS    79      18.658  14.339  45.963  1.00  0.00              
ATOM    168  O   LYS    79      17.794  13.703  45.360  1.00  0.00              
ATOM    169  N   GLY    80      19.827  13.817  46.364  1.00  0.00              
ATOM    170  CA  GLY    80      20.197  12.413  46.213  1.00  0.00              
ATOM    171  C   GLY    80      19.119  11.533  46.842  1.00  0.00              
ATOM    172  O   GLY    80      18.589  10.608  46.226  1.00  0.00              
ATOM    173  N   GLU    81      18.748  11.884  48.080  1.00  0.00              
ATOM    174  CA  GLU    81      17.707  11.197  48.829  1.00  0.00              
ATOM    175  C   GLU    81      16.328  11.391  48.209  1.00  0.00              
ATOM    176  O   GLU    81      15.566  10.432  48.088  1.00  0.00              
ATOM    177  N   TRP    82      16.026  12.618  47.762  1.00  0.00              
ATOM    178  CA  TRP    82      14.747  12.970  47.153  1.00  0.00              
ATOM    179  C   TRP    82      14.427  12.180  45.895  1.00  0.00              
ATOM    180  O   TRP    82      13.278  11.802  45.682  1.00  0.00              
ATOM    181  N   ASP    83      15.453  11.892  45.088  1.00  0.00              
ATOM    182  CA  ASP    83      15.332  11.108  43.864  1.00  0.00              
ATOM    183  C   ASP    83      14.768   9.704  44.119  1.00  0.00              
ATOM    184  O   ASP    83      14.051   9.157  43.276  1.00  0.00              
ATOM    185  N   LYS    84      15.043   9.115  45.293  1.00  0.00              
ATOM    186  CA  LYS    84      14.533   7.796  45.648  1.00  0.00              
ATOM    187  C   LYS    84      13.142   7.849  46.272  1.00  0.00              
ATOM    188  O   LYS    84      12.303   6.980  46.035  1.00  0.00              
ATOM    189  N   ILE    85      12.906   8.869  47.105  1.00  0.00              
ATOM    190  CA  ILE    85      11.649   9.029  47.827  1.00  0.00              
ATOM    191  C   ILE    85      10.480   9.389  46.906  1.00  0.00              
ATOM    192  O   ILE    85       9.357   8.912  47.095  1.00  0.00              
ATOM    193  N   LYS    86      10.736  10.220  45.893  1.00  0.00              
ATOM    194  CA  LYS    86       9.708  10.648  44.962  1.00  0.00              
ATOM    195  C   LYS    86       9.561   9.684  43.793  1.00  0.00              
ATOM    196  O   LYS    86      10.471   8.914  43.476  1.00  0.00              
ATOM    197  N   LYS    87       8.393   9.724  43.147  1.00  0.00              
ATOM    198  CA  LYS    87       8.112   8.824  42.039  1.00  0.00              
ATOM    199  C   LYS    87       8.351   9.483  40.684  1.00  0.00              
ATOM    200  O   LYS    87       9.278   9.116  39.960  1.00  0.00              
ATOM    201  N   ASP    88       7.514  10.464  40.312  1.00  0.00              
ATOM    202  CA  ASP    88       7.662  11.165  39.044  1.00  0.00              
ATOM    203  C   ASP    88       8.623  12.339  39.159  1.00  0.00              
ATOM    204  O   ASP    88       8.219  13.503  39.206  1.00  0.00              
END
