REMARK  ---------------------------------------------------------- 
REMARK  Molecule : T0073AL201_2 
REMARK  Alignment model prepared for CASP3 experiment 
REMARK  by group : TATSUYA-AKUTSU 
REMARK  ---------------------------------------------------------- 
TARGET T0073  
AUTHOR 7648-2940-6918  
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: 2tma_A 
ATOM      1  CA  ALA     4     -23.624  49.234-318.837  1.00  0.00              
ATOM      2  CA  LEU     5     -26.064  51.330-320.812  1.00  0.00              
ATOM      3  CA  LYS     6     -28.824  50.670-318.307  1.00  0.00              
ATOM      4  CA  SER     7     -26.558  51.631-315.424  1.00  0.00              
ATOM      5  CA  GLU     8     -25.514  54.807-317.180  1.00  0.00              
ATOM      6  CA  LEU     9     -29.113  55.777-317.800  1.00  0.00              
ATOM      7  CA  GLN    10     -29.984  55.238-314.154  1.00  0.00              
ATOM      8  CA  ALA    11     -27.014  57.303-313.050  1.00  0.00              
ATOM      9  CA  LEU    12     -27.965  60.109-315.389  1.00  0.00              
ATOM     10  CA  LYS    13     -31.505  60.155-314.057  1.00  0.00              
ATOM     11  CA  LYS    14     -30.249  60.261-310.489  1.00  0.00              
ATOM     12  CA  GLU    15     -27.879  63.083-311.309  1.00  0.00              
ATOM     13  CA  GLY    16     -30.649  65.083-312.921  1.00  0.00              
ATOM     14  CA  PHE    17     -32.871  64.610-309.896  1.00  0.00              
ATOM     15  CA  SER    18     -30.077  65.660-307.576  1.00  0.00              
ATOM     16  CA  PRO    19     -29.398  68.754-309.628  1.00  0.00              
ATOM     17  CA  GLU    20     -33.050  69.732-309.541  1.00  0.00              
ATOM     18  CA  GLU    21     -33.173  69.242-305.793  1.00  0.00              
ATOM     19  CA  LEU    22     -30.051  71.313-305.326  1.00  0.00              
ATOM     20  CA  ALA    23     -31.479  74.126-307.405  1.00  0.00              
ATOM     21  CA  ALA    24     -34.684  74.100-305.392  1.00  0.00              
ATOM     22  CA  LEU    25     -32.744  74.138-302.149  1.00  0.00              
ATOM     23  CA  GLU    26     -30.647  77.050-303.316  1.00  0.00              
ATOM     24  CA  SER    27     -33.737  79.024-304.253  1.00  0.00              
ATOM     25  CA  GLU    28     -35.312  78.301-300.890  1.00  0.00              
ATOM     26  CA  LEU    29     -32.168  79.352-299.084  1.00  0.00              
ATOM     27  CA  GLN    30     -32.040  82.615-300.984  1.00  0.00              
ATOM     28  CA  ALA    31     -35.663  83.341-300.145  1.00  0.00              
ATOM     29  CA  LEU    32     -35.064  82.546-296.499  1.00  0.00              
ATOM     30  CA  GLU    33     -32.063  84.832-296.384  1.00  0.00              
ATOM     31  CA  LYS    34     -34.056  87.684-297.879  1.00  0.00              
ATOM     32  CA  LYS    35     -36.853  87.139-295.383  1.00  0.00              
ATOM     33  CA  LEU    36     -34.405  87.075-292.509  1.00  0.00              
ATOM     34  CA  ALA    37     -32.847  90.333-293.621  1.00  0.00              
ATOM     35  CA  ALA    38     -36.256  91.984-293.841  1.00  0.00              
ATOM     36  CA  LEU    39     -37.193  90.692-290.413  1.00  0.00              
ATOM     37  CA  LYS    40     -33.980  91.997-288.924  1.00  0.00              
ATOM     38  CA  SER    41     -34.591  95.442-290.379  1.00  0.00              
ATOM     39  CA  LYS    42     -38.134  95.467-289.028  1.00  0.00              
ATOM     40  CA  LEU    43     -36.940  94.391-285.613  1.00  0.00              
ATOM     41  CA  GLN    44     -34.374  97.162-285.516  1.00  0.00              
END
