Sun Aug 27 15:35:54 PDT 2000	Kevin Karplus
>T0122 Tryptophan Synthase alpha subunit, Pyrococcus furiosus

	Blast finds 20 excellent hits: 1ttqA 1ttpA 1ubsA 2tysA 2trsA
	1bksA 1a50A 2wsyA 1a5sA 1c9dA 1cx9A 1cw2A 1c8vA 1c29A 1a5bA
	1a5aA 1beuA 2tsyA

	Double-blast finds the same 20.
	
	The t2k alignment has 118 sequences in it, of which 3 are in PDB.
	All the PDB sequences are TRPA_SALTY or slight modifications
	of it.  The many structures seem to be related to
	"ligand-induced structural change".
	
	Molecular replacement from 1bksA was attempted to solve this
	structure, but unsuccessfully.  The target is just one subunit
	of the complexes in the previous PDB files.

	The FSSP representative is 2tysA, and the RMS deviation is
	from 0.0 Ang (self) to 0.9 (1a5aA).
	Lacking any better way to determine which PDB file to use, we
	might as well just use 2tysA.

	I like the target alignments better than the template
	alignments, and choose T0122-2tysA-karplus.a2m
	as the preferred alignment.  (moved 2 deletions out of helices)
	
	It may be worth scrwling, but I'm not sure that the backbone is
	close enough to justify the effort.

Tue Sep  5 10:35:25 PDT 2000
remaking 2track