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Belozersky Institute

GeneBee

Russian EMBnet Node

Screening pattern or alignment against PROTEIN databank

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Protein databanks
Matrix
Minimum Helix Length
Mean Increment
Maximum Homology Percent
DotHelix Threshold
Number of Best Fragments
Gap Penalty
Begin of the Alignment
Receive bank sequences
Yes No
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