Kister gave me this pattern
[IMFV]-x(3)-E-x(7,9)-[LVI]-x(2)-[ILVF]-x(8,10)-[VILA]-x-[YF]-x-[LVI]-x-G-x(4,9)-[IVL]-F-x-[IV]-x(3)-[TS]-G-x-[LVIM]-x(5)-[LMI]-x(7)-[YF]-x-L
I got this pattern using PRATT
G-x-[ILMV]-x(5)-[ILM]-D-R-E-x(15)-[AGT]-x(4)-[DEGNS]-[PQST]
with -PL 40 -PX 30 -FN 3 -FL 5 -FP 100
when I use 3motif to see the proteins matched these patterns,
I found my pattern is very interesting!
it target four points, two for sandwich's interlock, two for active sites.
Also, I found Shibata's idea is also interesting when I check interlocks with 3motif
1tf4: Y-x-F-x(10)-I-x-V-x(22)-V-x-I-x(20)-F-x-I
2004年11月21日
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