LipoP

Description

LipoP produces predictions of lipoproteins and discriminates between lipoprotein signal peptides, other signal peptides and n-terminal membrane helices in Gram negative bacteria lipop.

Website

http://www.cbs.dtu.dk/services/LipoP/

Example

Input

>MY_PROTEIN_SEQ 
MKSAFSFLPNWPLAPDAIFWAGFALFAAGLCGELCYRAWRLPRITGYAVIGLVAGSFGFGVIDASTDDTSRLLVNVALGL
LLFELGSRLDLRWIRRNPWLIASSLAEATLTFVLVLAVLLLLKVPGMIALVLAAIAISTSPAMVIQLKTELRAEGQVSQR
LITLSALNSVYAVVLTKLVTSWLHQEAYGNVFATILQPIYLLAGSFIVAYLFARACNYLFRHVAATMRDEHSFVALFGLV
VLAIAVAQVLKLSTMLTLLLAGIIVKNLEARPQLWPEHFGTAGWLLTVILFVLTLTSFEGQDIAAGGLIAGALIATRFLA
KLVGVLAFAKPSGLGVKQGIALGVSLVPMSALAYLLVDDTYQLYPNFDPRLRAVVMCSIVVLQLIGPLVVYRSLSAVGER 
RDAS

Output - short

# MY_PROTEIN_SEQ TMH score=6.00601 margin=6.206923

Output - extensive

# MY_PROTEIN_SEQ TMH score=6.00601 margin=6.206923
# Cut-off=-3
MY_PROTEIN_SEQ	LipoP1.0:Best	TMH	1	1	6.00601
MY_PROTEIN_SEQ	LipoP1.0:Margin	TMH	1	1	6.206923
MY_PROTEIN_SEQ	LipoP1.0:Class	CYT	1	1	-0.200913
MY_PROTEIN_SEQ	LipoP1.0:Class	SpI	1	1	-2.05187
MY_PROTEIN_SEQ	LipoP1.0:Signal	CleavI	27	28	-2.20225	# FALFA|AGLCG

References

<biblio>

1. lipop pmid=12876315

</biblio>