A theoretical approach to spot active regions in antimicrobial proteins

Torrent, Marc; Nogués, Victòria M; Boix, Ester

doi:10.1186/1471-2105-10-373

BMC Bioinformatics

Table 3 Detail of the predicted sequences from the studied antimicrobial proteins.

From: A theoretical approach to spot active regions in antimicrobial proteins

Proteins	Identified sequences	Experimental data reported
hCAP 18	RKSKEKIGKEFKRIVQRIKD	LLGDFFRKSKEKIGKEFKRIVQRIKD FLRNLVPRTES [17]
CAP 11	LGGRRFRRMVGLRKKFRKTRKRIQKLGRKIGKTGRKVWKAW	GLRKKFRKTRKRIQKLGRKIGKTGRKVWKAW REYGQIPYPCRI [19]
CRAMP	RFKKKISLRAGLLRKGG.... EKLKKIGQKIKNFFQ SVRFRVKETV	ISLRAGLLRKGG EKIGEKLKKIGQKIKNFFQ KLVPQPE [21]
BPI	SVHVHISKSKVGWLIQLFHK NCIKISGKWKAQKRFLK	KSKVGWLIQLFHK K [23] ISNANIKISGKWKAQKRFLK MSGNFDLSI*
Histone H2A	GRGKQGGKVRAKAKTRS//GRVHRLLRKG KKTRIIPRHLQL	SGRGKQGGKVRAKAKSRSSR AGLQFPVGRVHRLLRKG NY [25]
Lysozyme	AKSRWYNQTPNRAKRVITTFRT	WDEAAVNLAKSRWYN[27]
Azurocidin	SGGRLSRFPRFVNV PNNVCTGVLTRRGGI	50% sequence identity with protegrin antimicrobial peptides
α-defensin	YGTCIYQGRLWAFCC	RYGTCIYQGRLWAFS[36]
β-defensin	TLQKYYCRVRGGRCAVLSC KCSTRGRKCCRRKK	GIINTLQKYYSRVRGGR KSSTRGRKSSRRKK[37]
θ-defensin	GLRCICTRGFCRLL	RCICTRGFCRLL[39]
Magainin precursor	IGKFLHSAKKFGK	GIGKFLHSAKKFGK AFVGEIMNS [40]
Moronecidin	HIFRGIVHVGKTIHRLVT	FFHHIFRGIVHVGKTIHKLVT G [44]
Pleurocidin	FFKKAAHVGKHVG	GWGSFFKKAAHVGKHVG KAALTHYL [45]
Bacteriocin enterocin	SCNKKGSCPGVKYGKKLGG	KYYGNGVSCNKKGCSV[49]
Helveticin J	VVQKGNVGSKYVYGLQLRKGA	No active peptide reported
Sarcotoxin IA	WLKKIGKKIERVGQ	W35 is described as a key residue in endotoxin neutralizing activity [52]
RNase 3	INNYRWRCKNQNTFLR VNVCGNQSIRCPHNRTLNNCHRSRFRVPL	TIAMRAINNYRWRSKNQNTFLR[61]
RNase 7	NINKHTKRCK SHGRVSLTMCKLTSGKYPNCRYKEKRQNKSYVVA	No active peptide reported
SPAG 11K	QLLRHPVKRAPIIRRIP	N -terminus suggested [68]
Hepcidin	LCRFCCKCCRNKGCGYCCKF	No active peptide reported
Ace AMP1	ICPRVNRIVT VNTRNLRRAACRCLVGVVNRNPGLRRNPR RNTFVRPFWWRPRIQCGRI	No active peptide reported

* United States Patent n° 5830860
The first column includes the identified sequences by the prediction approach. The corresponding active peptides previously described in the literature and tested experimentally are included in the adjacent column for comparison. Matching residues between the identified and experimentally active sequences are underlined and highlighted in bold.

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ISSN: 1471-2105

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