Table 1.

Description of the 13 features used in S4TE to screen a bacterial genome

Feature number	Feature name	Description	References
1	De novo motif search	RRRSNTTTTY motif in the −300 bp (Supplementary Figure S1)	This work, http://meme.sdsc.edu/meme/cgi-bin/meme.cgi
2	Homology	Sequence identity to a known effector molecule; Blastp against effector database (e-value = 10−2)	(6,8)
3	Euk-like domains	Presence of eukaryotic domain: 58 eukaryotic domains	This work, Supplementary Table S1
4	Prok-like domains	3617 Domain of Unknown Function (DUF) domains	(29), http://pfam.sanger.ac.uk/search/
5	NLS (nuclear localization signal)	Monopartite NLS; [KR]-[KR]-[KR]-[KR]-[KR] and bipartite NLS; K-[KR]-X(6,20)-[KR]-[KR]-X-[KR]	(30,31)
6	MLS (mitochondrial localization signal)	Probability of a sequence containing a mitochondrial targeting peptide (P > 0.95)	(32), http://www.bioperl.org/
7	Prenylation domain	CaaX at the C-terminal; ‘C’ represents a cysteine residue, ‘a’ denotes an aliphatic amino acid and ‘X’ is one of four amino acids	(1,33,34)
8	Secondary structure	Probability of a coiled-coil structure for windows of 28 residues through a protein sequence (P > 0.95)	(35,36), http://emboss.bioinformatics.nl/cgi-bin/emboss/pepcoil
	Coiled coils
9	C-ter basicity	≤3 [HRK] in the C-terminal 25 amino acids	(3,7,22)
10	C-ter charges	Charge of C-terminal 25 amino acids ≥2; C-ter charge = number of [HRK]-number of [ED]-1 (COO-)	(3,7,22)
11	C-ter hydrophobicity	Hydropathy of C-terminal 25 amino acids; Hydrophobic residue at the −3rd or −4th position	(9,11,37,38)
12	Global hydrophilicity	Hydropathy of total protein <−200	(9,11,37)
13	E-block	EEXXE in the C-terminal 30 amino acids	(39)