REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0077AL201_1 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : TATSUYA-AKUTSU 
REMARK  ---------------------------------------------------------- 
TARGET T0077  
AUTHOR 7648-2940-6918  
REMARK It seems that T0077 consists of two domains.  
REMARK We only predict structure of the second domain since we are not  
REMARK sure of the first domain.  
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  1  
REMARK  ---------------------------------------------------------- 
REMARK  AL2TS service [v. 08/06/1998]: Adam Zemla, adamz@llnl.gov 
REMARK  ---------------------------------------------------------- 
REMARK  Coordinates assigned from PDB entry: 1sap 
ATOM      1  N   SER    63     -10.466   2.021  -1.644  1.00  0.00              
ATOM      2  CA  SER    63     -10.373   2.389  -0.246  1.00  0.00              
ATOM      3  C   SER    63      -8.978   2.864   0.199  1.00  0.00              
ATOM      4  O   SER    63      -8.857   3.318   1.333  1.00  0.00              
ATOM      5  N   LYS    64      -7.901   2.732  -0.589  1.00  0.00              
ATOM      6  CA  LYS    64      -6.563   3.015  -0.058  1.00  0.00              
ATOM      7  C   LYS    64      -6.293   4.521   0.012  1.00  0.00              
ATOM      8  O   LYS    64      -6.600   5.260  -0.920  1.00  0.00              
ATOM      9  N   THR    65      -5.747   4.966   1.152  1.00  0.00              
ATOM     10  CA  THR    65      -5.631   6.361   1.547  1.00  0.00              
ATOM     11  C   THR    65      -4.190   6.854   1.377  1.00  0.00              
ATOM     12  O   THR    65      -3.972   7.980   0.932  1.00  0.00              
ATOM     13  N   LYS    66      -3.204   6.023   1.734  1.00  0.00              
ATOM     14  CA  LYS    66      -1.785   6.364   1.647  1.00  0.00              
ATOM     15  C   LYS    66      -0.995   5.062   1.696  1.00  0.00              
ATOM     16  O   LYS    66      -1.451   4.118   2.338  1.00  0.00              
ATOM     17  N   VAL    67       0.199   5.027   1.098  1.00  0.00              
ATOM     18  CA  VAL    67       1.185   3.977   1.314  1.00  0.00              
ATOM     19  C   VAL    67       2.574   4.629   1.339  1.00  0.00              
ATOM     20  O   VAL    67       2.805   5.586   0.600  1.00  0.00              
ATOM     21  N   TYR    68       3.461   4.174   2.229  1.00  0.00              
ATOM     22  CA  TYR    68       4.811   4.679   2.412  1.00  0.00              
ATOM     23  C   TYR    68       5.636   3.564   3.065  1.00  0.00              
ATOM     24  O   TYR    68       5.078   2.537   3.452  1.00  0.00              
ATOM     25  N   TYR    69       6.949   3.764   3.199  1.00  0.00              
ATOM     26  CA  TYR    69       7.824   2.876   3.957  1.00  0.00              
ATOM     27  C   TYR    69       7.954   3.391   5.388  1.00  0.00              
ATOM     28  O   TYR    69       8.594   4.423   5.597  1.00  0.00              
ATOM     29  N   PHE    70       7.446   2.661   6.387  1.00  0.00              
ATOM     30  CA  PHE    70       7.851   2.904   7.766  1.00  0.00              
ATOM     31  C   PHE    70       9.222   2.257   7.967  1.00  0.00              
ATOM     32  O   PHE    70       9.363   1.216   8.608  1.00  0.00              
ATOM     33  N   GLN    71      10.251   2.886   7.387  1.00  0.00              
ATOM     34  CA  GLN    71      11.620   2.419   7.510  1.00  0.00              
ATOM     35  C   GLN    71      11.794   1.032   6.895  1.00  0.00              
ATOM     36  O   GLN    71      12.105   0.902   5.713  1.00  0.00              
ATOM     37  N   GLY    72      11.602   0.003   7.720  1.00  0.00              
ATOM     38  CA  GLY    72      11.717  -1.392   7.343  1.00  0.00              
ATOM     39  C   GLY    72      10.463  -1.867   6.608  1.00  0.00              
ATOM     40  O   GLY    72      10.571  -2.633   5.655  1.00  0.00              
ATOM     41  N   GLY    73       9.277  -1.482   7.096  1.00  0.00              
ATOM     42  CA  GLY    73       8.032  -2.132   6.695  1.00  0.00              
ATOM     43  C   GLY    73       7.230  -1.264   5.734  1.00  0.00              
ATOM     44  O   GLY    73       7.305  -0.036   5.776  1.00  0.00              
ATOM     45  N   ASN    74       6.435  -1.911   4.878  1.00  0.00              
ATOM     46  CA  ASN    74       5.491  -1.214   4.030  1.00  0.00              
ATOM     47  C   ASN    74       4.316  -0.886   4.934  1.00  0.00              
ATOM     48  O   ASN    74       3.758  -1.791   5.551  1.00  0.00              
ATOM     49  N   ASN    75       3.985   0.398   5.027  1.00  0.00              
ATOM     50  CA  ASN    75       2.945   0.953   5.869  1.00  0.00              
ATOM     51  C   ASN    75       1.927   1.635   4.959  1.00  0.00              
ATOM     52  O   ASN    75       2.335   2.375   4.066  1.00  0.00              
ATOM     53  N   GLU    76       0.628   1.434   5.176  1.00  0.00              
ATOM     54  CA  GLU    76      -0.412   2.172   4.480  1.00  0.00              
ATOM     55  C   GLU    76      -1.477   2.588   5.462  1.00  0.00              
ATOM     56  O   GLU    76      -1.605   2.001   6.535  1.00  0.00              
ATOM     57  N   LEU    77      -2.270   3.570   5.039  1.00  0.00              
ATOM     58  CA  LEU    77      -3.592   3.770   5.566  1.00  0.00              
ATOM     59  C   LEU    77      -4.560   3.408   4.452  1.00  0.00              
ATOM     60  O   LEU    77      -4.320   3.701   3.276  1.00  0.00              
ATOM     61  N   GLY    78      -5.620   2.704   4.826  1.00  0.00              
ATOM     62  CA  GLY    78      -6.691   2.312   3.942  1.00  0.00              
ATOM     63  C   GLY    78      -7.982   2.692   4.671  1.00  0.00              
ATOM     64  O   GLY    78      -7.955   2.978   5.869  1.00  0.00              
ATOM     65  N   THR    79      -9.093   2.718   3.947  1.00  0.00              
ATOM     66  CA  THR    79     -10.391   3.129   4.470  1.00  0.00              
ATOM     67  C   THR    79     -11.284   1.907   4.691  1.00  0.00              
ATOM     68  O   THR    79     -11.180   0.926   3.960  1.00  0.00              
ATOM     69  N   ALA    80     -12.189   1.956   5.667  1.00  0.00              
ATOM     70  CA  ALA    80     -13.262   0.989   5.813  1.00  0.00              
ATOM     71  C   ALA    80     -14.553   1.776   6.012  1.00  0.00              
ATOM     72  O   ALA    80     -14.761   2.364   7.070  1.00  0.00              
ATOM     73  N   VAL    81     -15.399   1.821   4.979  1.00  0.00              
ATOM     74  CA  VAL    81     -16.710   2.460   4.992  1.00  0.00              
ATOM     75  C   VAL    81     -16.715   3.847   5.647  1.00  0.00              
ATOM     76  O   VAL    81     -17.659   4.198   6.353  1.00  0.00              
ATOM     77  N   GLY    82     -15.685   4.653   5.377  1.00  0.00              
ATOM     78  CA  GLY    82     -15.622   6.046   5.795  1.00  0.00              
ATOM     79  C   GLY    82     -14.612   6.287   6.914  1.00  0.00              
ATOM     80  O   GLY    82     -14.044   7.374   6.981  1.00  0.00              
ATOM     81  N   LYS    83     -14.375   5.307   7.795  1.00  0.00              
ATOM     82  CA  LYS    83     -13.327   5.468   8.809  1.00  0.00              
ATOM     83  C   LYS    83     -11.997   5.023   8.204  1.00  0.00              
ATOM     84  O   LYS    83     -11.983   4.218   7.275  1.00  0.00              
ATOM     85  N   LEU    84     -10.874   5.530   8.716  1.00  0.00              
ATOM     86  CA  LEU    84      -9.554   5.135   8.249  1.00  0.00              
ATOM     87  C   LEU    84      -9.148   3.807   8.919  1.00  0.00              
ATOM     88  O   LEU    84      -9.965   3.149   9.564  1.00  0.00              
ATOM     89  N   PHE    85      -7.874   3.426   8.808  1.00  0.00              
ATOM     90  CA  PHE    85      -7.298   2.210   9.344  1.00  0.00              
ATOM     91  C   PHE    85      -5.882   2.144   8.779  1.00  0.00              
ATOM     92  O   PHE    85      -5.599   2.817   7.785  1.00  0.00              
ATOM     93  N   ARG    86      -4.996   1.381   9.424  1.00  0.00              
ATOM     94  CA  ARG    86      -3.591   1.230   9.077  1.00  0.00              
ATOM     95  C   ARG    86      -3.383  -0.222   8.680  1.00  0.00              
ATOM     96  O   ARG    86      -3.851  -1.117   9.382  1.00  0.00              
ATOM     97  N   GLY    88      -2.712  -0.452   7.555  1.00  0.00              
ATOM     98  CA  GLY    88      -2.288  -1.768   7.119  1.00  0.00              
ATOM     99  C   GLY    88      -0.780  -1.743   6.946  1.00  0.00              
ATOM    100  O   GLY    88      -0.180  -0.668   6.895  1.00  0.00              
ATOM    101  N   VAL    89      -0.158  -2.919   6.889  1.00  0.00              
ATOM    102  CA  VAL    89       1.276  -3.016   6.722  1.00  0.00              
ATOM    103  C   VAL    89       1.653  -4.431   6.310  1.00  0.00              
ATOM    104  O   VAL    89       0.887  -5.363   6.561  1.00  0.00              
ATOM    105  N   VAL    90       2.826  -4.577   5.690  1.00  0.00              
ATOM    106  CA  VAL    90       3.399  -5.853   5.272  1.00  0.00              
ATOM    107  C   VAL    90       4.928  -5.729   5.301  1.00  0.00              
ATOM    108  O   VAL    90       5.465  -4.618   5.265  1.00  0.00              
ATOM    109  N   SER    91       5.619  -6.870   5.336  1.00  0.00              
ATOM    110  CA  SER    91       7.042  -6.970   5.029  1.00  0.00              
ATOM    111  C   SER    91       7.215  -7.463   3.587  1.00  0.00              
ATOM    112  O   SER    91       6.515  -8.383   3.163  1.00  0.00              
ATOM    113  N   ILE    92       8.161  -6.871   2.853  1.00  0.00              
ATOM    114  CA  ILE    92       8.447  -7.110   1.434  1.00  0.00              
ATOM    115  C   ILE    92       8.331  -8.583   1.041  1.00  0.00              
ATOM    116  O   ILE    92       7.668  -8.916   0.060  1.00  0.00              
ATOM    117  N   LEU    93       8.966  -9.459   1.822  1.00  0.00              
ATOM    118  CA  LEU    93       9.051 -10.890   1.567  1.00  0.00              
ATOM    119  C   LEU    93       7.682 -11.523   1.308  1.00  0.00              
ATOM    120  O   LEU    93       7.596 -12.524   0.600  1.00  0.00              
ATOM    121  N   GLU    94       6.623 -10.951   1.893  1.00  0.00              
ATOM    122  CA  GLU    94       5.263 -11.437   1.773  1.00  0.00              
ATOM    123  C   GLU    94       4.308 -10.338   1.294  1.00  0.00              
ATOM    124  O   GLU    94       3.118 -10.382   1.595  1.00  0.00              
ATOM    125  N   ALA    95       4.822  -9.379   0.516  1.00  0.00              
ATOM    126  CA  ALA    95       4.066  -8.299  -0.108  1.00  0.00              
ATOM    127  C   ALA    95       3.861  -8.564  -1.610  1.00  0.00              
ATOM    128  O   ALA    95       4.733  -8.234  -2.407  1.00  0.00              
END
