Table 1:

Distribution of apicomplexan proteins in various biological processes

Category	GOSlim Term / Source	Crypto		Coccidia				Piroplasmida			Plasmodium
		Cmur	Cpar	Eten	Ncan	Tgon	Hham	Bbov	Tpar	Tann	Pfal	Pber	Pviv
Proteome size		3980	3886	8634	7266	8920	8176	3781	3845	4167	5777	5254	5626
Housekeeping
cellular protein modification process	GO:0006464	163	144	193	236	245	185	88	102	87	265	149	228
translation	GO:0006412	120	118	163	195	207	164	197	237	175	315	233	266
biosynthetic process	GO:0009058	202	183	248	216	327	265	178	240	172	495	274	356
catabolic process	GO:0009056	66	60	77	89	94	71	54	60	55	148	72	111
protein folding	GO:0006457	38	34	36	52	50	36	37	47	35	100	60	65
nucleobase-containing compound catabolic process	GO:0034655	35	32	41	53	56	32	31	31	30	49	42	45
cell cycle	GO:0007049	18	16	10	15	17	12	8	13	9	72	12	32
response to stress	GO:0006950	43	39	48	69	94	64	31	46	34	111	47	89
homeostatic process	GO:0042592	25	20	20	35	34	30	18	16	15	47	29	38
Metabolism
cellular nitrogen compound metabolic process	GO:0034641	209	161	236	183	298	234	192	233	177	492	290	399
DNA metabolic process	GO:0006259	92	87	100	108	128	94	77	96	83	155	98	134
small molecule metabolic process	GO:0044281	93	80	120	148	155	105	88	100	81	245	145	193
lipid metabolic process	GO:0006629	43	33	50	74	84	63	28	34	24	138	53	77
carbohydrate metabolic process	GO:0005975	41	43	78	82	91	78	27	29	25	64	39	60
cellular amino acid metabolic process	GO:0006520	35	38	64	88	93	75	46	52	47	92	69	80
tRNA metabolic process	GO:0006399	49	45	55	62	65	57	52	55	54	84	59	68
Signaling
signal transduction	GO:0007165	70	55	79	88	98	81	45	77	40	97	64	77
Transport
transport	GO:0006810	154	125	145	190	210	130	102	149	111	344	168	200
transmembrane transport	GO:0055085	68	62	80	98	111	98	49	66	70	78	62	64
vesicle-mediated transport	GO:0016192	47	41	48	58	59	44	38	37	40	95	58	69
Invasion
Inner membrane complex	(1)*, (2)#, (3)@, EupathDB	11*	12*	9*	11*	41*#	22	-	14*	12*	28@	21	20
Rhoptry neck proteins	(4)*, EupathDB	1*	1*	3*	7*	11	10	4*	4*	4*	7	7	7
Micronemal proteins	(5)*, (6)#, EupathDB	-	3*	8*	5	25	25	0	0	1	17#	10*	2
Host associated processes
ROPK	(7)	0	0	27	44	55	0	0	0	0	0	0	0
Non-ROPK rhoptry proteins	(6)*, EupathDB	0	0	2	-	23*	23	2	0	3	22*	11	10
FIKK	EupathDB	0	0	0	0	1	1	0	0	0	21	1	1
SVSP	(8)	0	0	0	0	0	0	0	85	51	0	0	0
SRS	(8)*, EupathDB	0	0	0	227*	111	95	0	0	0	0	0	0
SAG	EupathDB	0	0	87	0	0	0	0	0	0	0	0	0
Dense granule proteins	(9)*, EupathDB	1*	1*	1	0	16	15	0	0	0	0	0	0
Var	(8)	0	0	0	0	0	0	0	0	0	60	0	0
|Rifin	EupathDB	0	0	0	0	0	0	0	0	0	185	0	0
stevor	EupathDB	0	0	0	0	0	0	0	0	0	42	0	0
Pir	(8)	0	0	0	0	0	0	0	0	0	0	100	346
PHIST	(8)*, EupathDB	0	0	0	0	0	0	0	0	0	79	3	39*
ves	(8)	0	0	0	0	0	0	72	0	0	0	0	0
tpr/tar	(8)	0	0	0	0	0	0	0	39	93	0	0	0
Transcription factors
AP2	(6)	-	9	15	53	53	-	20	19	18	26	25	27
Unknown function
Hypothetical proteins	EupathDB	2148	1478	5850	4096	4285	3966	1846	2983	2113	2112	1905	2320

The table shows the distribution of number of proteins for various species according to different categories. The top 20 GOSlim terms were grouped into functionally related categories, such as Housekeeping, Metabolism, Transport, and Signaling. The numbers for P. falciparum may have some annotation bias associated with them. The details of proteins involved in apicomplexan-specific processes such as invasion and host-parasite interactions were sourced from specific literature sources wherever available (indicated as *), and from EupathDB otherwise. An estimate of number of proteins of currently unknown function was also obtained from EupathDB.