Non-canonical peroxisome targeting signals: identification of novel PTS1 tripeptides and characterization of enhancer elements by computational permutation analysis

Table 1 Summary of prediction data for selected Arabidopsis proteins carrying novel PTS1 tripeptides and/or residues

AGI code	Annotation	Acronym	C-terminal 14 aa	PWM model				RI model			*In vivo*subcelluar targeting	Figure2
				Hier. pos.	Pred. score	Post prob.	Perox. pred.	Hier. pos.	Pred. score	Perox. pred.
At5g50580.1/2/At5g50680.1/2	SUMO-activating enzyme 1B	SAE1B	EDGKGVIEDLS H KL >	315¹	0,450	0,719	P	473²	0,013	C	cytosol	B
At2g32120.1/2	Heat-shock protein 70 T-2	HSP70T-2	YGATLDLITLQ R KM >	321³	0,448	0,706	P	1100	0,207	C	cytosol	C
At5g45160.1	ROOT HAIR DEFECTIVE 3 homolog 2	RHD3H2	RNTNNVQESEI SQM >	337	0,440	0,667	P	619	0,073	C	peroxisome	E, F, J
At1g18700.2	DNAJ heat shock N-terminal domain-containing protein	DNAJ	ILSSVRSMKGF Q RL >	338	0,440	0,666	P	300	0,082	C	peroxisome	D, I
At5g03730.1/2	CONSTITUTIVE TRIPLE RESPONSE 1 (protein kinase superfamily protein)	CTR1, SIS1	LIKSAVPPPNR S D L >	522/3	0,336	0,117	C	632/3	0,079	C	peroxisome	G, H, K

The three alternative gene models for the DNAJ heat-shock protein (At1g18700.1/3/4) differ in the C-terminal domain (Figure3) and are not predicted as peroxisome-targeted by the PTS1 pathway (PWM prediction pos. 30486–8, PWM score −1.298). Potentially novel PTS1 tripeptide residues are underlined. ‚¹ 315–18, ² 473–476, ³ 321/2.

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