Table 1.

Surface interactome of N. meningitidis against hBMECs identified in our study by SWATH-MS.

No.	Entry	Protein name	Locus	Psortb	Cello	SignalP	LipoP	TMHMM	HMMTOP	Consensus
GROUP 1. HIGH PRIORITY CANDIDATES (OUTER MEMBRANE PROTEINS)
1	Q7DDI3	Class 5 outer membrane protein	NMB1053	Inner membrane	Outer membrane	Yes	SP1	Outside	Outside	Outer membrane
2	Q9K187	LPS-assembly protein LptD	NMB0280	Outer membrane	Outer membrane	Yes	SP1	Outside	Outside	Outer membrane
3	Q9JXN3	VacJ-related protein	NMB1961	Outer membrane	Outer membrane	Yes	SP1	Outside	Outside	Outer membrane
4	Q9JXK7	Putative adhesin/invasion	NMB1994	Outer membrane	Extracellular	Yes	SP1	Outside	Outside	Outer membrane
5	Q9JS44	Adhesin MafA1	NMB0375	Unknown	Outer membrane	No	SP2	Outside	Outside	Outer membrane
6	Q7DDH4	Putative lipoprotein	NMB1126	Unknown	Extracellular	Yes	SP2	Outside	Outside	Outer membrane
7	Q06379	Lactoferrin-binding protein A (Iron-regulated outer membrane protein A)	NMB1540	Outer membrane	Outer membrane	Yes	SP1	Outside	1 TMD	Outer membrane
8	P0DH58	Major outer membrane protein P.IA	NMB1429	Outer membrane	Outer membrane	Yes	SP1	Outside	1 TMD	Outer membrane
9	Q9K1M2	Putative outer membrane protein	NMB0088	Outer membrane	Outer membrane/Extracellular	Yes	SP1	Outside	1 TMD	Outer membrane
10	P30690	Major outer membrane protein P.IB	NMB2039	Outer membrane	Outer membrane	Yes	SP1	1 TMD	1 TMD	Outer membrane
11	P57026	Outer membrane protein H.8	NMB1533	Outer membrane	Periplasmic	Yes	SP2	Outside	Inside	Outer membrane
12	Q9K0A7	LPS-assembly lipoprotein LptE	NMB0707	Unknown	Cytoplasmic	No	SP2	Outside	Outside	Outer membrane
13	Q9K0K8	Putative adhesin	NMB0586	Outer membrane	Periplasmic	Yes	SP1	Outside	1 TMD	Outer membrane
14	Q9JXB7	Uncharacterized protein	NMB2134	Outer membrane	Outer membrane	No	SP1	1 TMD	1 TMD	Outer membrane
15	Q9K0U9	Transferrin-binding protein 1	NMB0461	Outer membrane	Outer membrane	Yes	SP1	Outside	Outside	Outer membrane
16	Q9K0V0	Transferrin-binding protein 2 (TBP-2)	NMB0460	Unknown	Extracellular	No	SP2	Outside	1 TMD	Outer membrane
17	Q7DDB6	Probable TonB-dependent receptor	NMB1497	Outer membrane	Outer membrane	No	SP1	Outside	Outside	Outer membrane
18	Q7DDJ2	Adhesin	NMB0992	Unknown	Extracellular	Yes	SP1	Outside	Outside	Outer membrane
19	Q9JYP9	Putative lipoprotein NlpD	NMB1483	Unknown	Periplasmic	Yes	SP2	Outside	Outside	Outer membrane
20	Q9JXL6	Adhesion and penetration protein	NMB1985	Outer membrane	Outer membrane	No	SP1	1 TMD	1 TMD	Outer membrane
21	Q9K165	TPR repeat-containing protein	NMB0313	Unknown	Outer membrane	Yes	SP1	Outside	1 TMD	Outer membrane
GROUP 2. MEDIUM PRIORITY CANDIDATES (INNER MEMBRANE PROTEINS)
22	Q9JXD8	Putative adhesin complex protein	NMB2095	Unknown	Periplasmic	Yes	SP1	Outside	1 TMD	Inner membrane
23	Q9JXT1	Lipoprotein	NMB1898	Unknown	Periplasmic	Yes	SP2	Outside	1 TMD	Inner membrane
24	Q9JYG9	Putative lipoprotein	NMB1592	Unknown	Periplasmic	No	SP2	Outside	1 TMD	Inner membrane
25	Q9K0S2	Uncharacterized protein	NMB0506	Unknown	Outer membrane/Periplasmic	Yes	SP1	1 TMD	1 TMD	Inner membrane
26	Q9JZN1	Uncharacterized protein	NMB0979	Inner membrane	Periplasmic/Inner membrane	Yes	SP1	1 TMD	1 TMD	Inner membrane
27	Q9JZR5	Uncharacterized protein	NMB0928	Inner membrane	Periplasmic	No	Cytoplasmic	Outside	1 TMD	Inner membrane
28	Q9JS13	Uncharacterized protein	NMB1147	Cytoplasmic	Periplasmic/Cytoplasmic	No	Cytoplasmic	1 TMD	1 TMD	Inner membrane
29	Q9JY47	Uncharacterized protein	NMB1749	Unknown	Periplasmic	No	Cytoplasmic	1 TMD	1 TMD	Inner membrane
30	Q9K1L2	Uncharacterized protein	NMB0102	Inner membrane	Inner membrane	No	Cytoplasmic	1 TMD	1 TMD	Inner membrane
31	Q9K173	ComEA-related protein	NMB0299	Inner membrane	Periplasmic	No	TMD	1 TMD	1 TMD	Inner membrane
32	Q9JXG2	Uncharacterized protein	NMB2064	Inner membrane	Inner membrane	No	TMD	1 TMD	1 TMD	Inner membrane
33	Q7DDI4	DedA protein	NMB1052	Unknown	Inner membrane	No	TMD	>1 TMD	>1 TMD	Inner membrane
34	Q7DDC1	Uncharacterized protein	NMB1397	Inner membrane	Cytoplasmic	No	TMD	1 TMD	1 TMD	Inner membrane
35	Q7DD63	Outer membrane lipoprotein	NMB1946	Inner membrane	Periplasmic	Yes	SP2	Outside	Outside	Inner membrane
GROUP 3. LOW PRIORITY CANDIDATES (SECRETORY PROTEINS)
36	Q9JYV5	Iron-regulated protein FrpC	NMB1415	Extracellular	Extracellular/	No	Cytoplasmic	Outside	Outside	Secretory protein
37	Q9K0T0	Hemagglutinin/hemolysin-related protein	NMB0493	Outer membrane	Extracellular	No	Cytoplasmic	Outside	Outside	Secretory protein secretory
38	Q9JY23	Hemagglutinin/hemolysin-related protein	NMB1779	Outer membrane	Extracellular	No	SP1	Outside	Outside	Secretory protein
39	Q9JYW0	FrpA/C-related protein	NMB1409	Unknown	Outer membrane	No	Cytoplasmic	Outside	Outside	Secretory protein
40	Q9K0K9	Iron-regulated protein FrpA	NMB0585	Extracellular	Extracellular	No	Cytoplasmic	Outside	Outside	Secretory protein
41	Q9JZ25	Uncharacterized protein	NMB1327	Extracellular	Periplasmic	No	Cytoplasmic	Outside	Outside	Secretory protein

Categories for the subcellular location were established according to Psortb and Cello. SignalP and LipoP discriminate proteins containing a SP-I type and SP-II type signal peptides, respectively; and proteins containing transmembrane domains (TMD) were predicted by TMHMM and HMMTOP.