PFRMAT AL 
TARGET T0071 
REMARK ======================================================================= 
AUTHOR 2738-1421-4442 
REMARK Prepared by Anna Panchenko, Aron Marchler-Bauer, and 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. Models 1-2 have been calculated with PSSMs and a weight of 
METHOD 0.5. Models 3 and 4 have been calculated using contact-based scoring  
METHOD parameters. The models represent top scoring hits in database 
METHOD searches with different parameters. Model 5 indicates that no template 
METHOD was identified for domain 2 of T0071. 
REMARK ======================================================================= 
MODEL  5 
PARENT NONE 126 238 
TER 
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