TABLE 1.

MaxQuant iBAQ quantitation of proteins coimmunoprecipitated with anti-A-LPS from a mix of 33277 wzy and 381 porU strains^a

Protein name	Locus tagd	LFQ intensity		LFQ ratio	iBAQ abundance	No. of peptides (mix)
		Mix	Negative
RgpBb	PGN_1466	7.6E+08	1.27E+08	6.0	2.5E+07	9
HBP35	PGN_0659	2.5E+08	2.4E+06	106.4	1.4E+07	7
RgpAc	PGN_1970	7.8E+08	1.4E+08	5.4	1.2E+07	11
RgpB	PGN_1466	7.8E+08	1.4E+08	5.4	1.2E+07
PPAD	PGN_0898	8.0E+07	0		2.7E+06	10
Unknown function	PGN_1321	1.3E+07	0		6.3E+05	3
Unknown function	PGN_1366	2.5E+07	9.6E+05	26.3	6.2E+05	6
47-kDa antigen	PGN_0852	7.8E+06	0		4.1E+05	4
Transketolase	PGN_1689	5.5E+06	0	2.1E+05	2
CPG70	PGN_0335	4.2E+06	0		1.2E+05	2
Ribonuclease E/G	PGN_1391	4.0E+06	0	8.3E+04	3
AcrB-type transporter	PGN_1430	5.2E+06	0	7.6E+04	2

^aT9SS cargo proteins are shaded.

^bRgpB is inferred considering that peptides in common between RgpA and RgpB were enriched in the mix, whereas the RgpA-specific peptides were depleted (see Materials and Methods and Fig. 5). These data were therefore produced by removing the RgpA sequence from the database.

^cBecause the sequences of RgpA and RgpB catalytic domains are very similar, the data generated using both sequences in the database could not distinguish between the two proteins.

^dThe locus tag can be found in the National Center for Biotechnology Information database (NCBI), https://www.ncbi.nlm.nih.gov.