Screening pattern or alignmemt against PROTEIN databank

Belozersky Institute

Russian EMBnet Node

Screening pattern or alignment against protein databank

Help

References

Simple Version

Protein databanks	Matrix	Minimum Helix Length	Mean Increment	Maximum Homology Percent
Protein databanks	Matrix	DotHelix Threshold	Number of Best Fragments	Gap Penalty

Begin of the Alignment	Receive bank sequences Yes No	Your E-mail address
End of the Alignment	Receive 3D coordinate Yes No	Input Data Type Pattern Alignment

Pattern (or alignment)

Pattern example 1:	Pattern example 2:
`G-P-H-V-T`	`[RK]-x-A-x(3,5)-{YWL}-x(2)-W`
Alignment example:
FA9_CAVPO GPHVTEVEGTNFLTGIISWGEE-CAMKGKYGIYTKVSRYVNW- FA9_PIG GPHVTEVEGTSFLTGIISWGEE-CAVKGKYGIYTKVSRYVNW- KAG_PIG GPLICNGM----WQGITSWGhtpCGSANKPSIYTKLIFYLDWI FA9_CAVPO FCAGFHEGGRDSCQGDSG FA9_PIG FCAGFHEGGKDSCLGDSG KAG_PIG LCAGYLPGGKDTCMGDSG

Last updated - August 14, 2000.
Any comments or suggestions are welcomed at: nik@genebee.msu.su