PROTCOMP: a novel sequence analyser

Antimicrobial peptides (AMPs)

Each filename is formed by 7 tags separated by an underscore character. When the tag is not applicable, it is replaced by 0.

 TYPE_SOURCE_TARGET_STRUCTURE_MIC_WEIGHT(XSEQ)

 

TYPE

SOURCE

TARGET

STRUCTURE

MIC

WEIGHT

nSEQ

AMP

TMP

PRO

BOO

AMPH

INSE

MAMM

EC

PA

SA

BS

CA

A

B

C

U

#+

#-

W

(nseq)

Indicates the string type (AntiMicrobial Peptide, BOOks, etc.)

Amphibia

Insect

Mammalia

E. coli

P. aeruginosa

S. aureus

B. subtilis

C. albicans

Alpha helix

Beta

Cyclic

Unspecified

# is the MIC value

+ indicates MIC #

- indicates MIC #

The string is populated with a number of copies of each peptide proportional to the antimicrobial activity

Number of sequences

 Example

AMP_0_BS_A_65-_W(147SEQ)

This name indicates a group of 147 sequences of antimicrobial peptides, from more than one source organism, active against B. subtilis, helix peptides, with MIC value lower than 65?M, populated as function of the antimicrobial actitivity.

About the algorithms:

Intersezione semplice

Immagine in linea 2

 

Intersezione semplice (norm=1)

Immagine in linea 1

 

Intersezione pesata

Immagine in linea 3

 

Intersezione pesata (norm=1)

Immagine in linea 4

 

Intersezione semplice con coeff. diff. cdom

Immagine in linea 7

 

Intersezione semplice con coeff. diff. cdom (norm=1)

 

Immagine in linea 8

 

Intersezione pesata con coeff. diff. cdom

Immagine in linea 5

 

 

Intersezione pesata con coeff. diff. cdom (norm=1)

Immagine in linea 6