TABLE 1.

Proteomic analysis of phagosome proteins^a

Protein group and TIGR ID no. (EH)	NCBI accession no.	Protein name (organism source)	Identity (%)	Frequency (%)c
Lectins and surface proteins
6468		Adhesin p30b (Mycoplasma pneumoniae)	54	0.53 ± 0.19
879		Aminophospholipid translocase 2b (Homo sapiens)b	44	0.32 ± 0.08
4887		Gal/GalNAc lectin Hgl1-5b,d	100	3.0 ± 0.26
1189/175		Gal/GalNAc lectin Igl1, 2d	100	1.7 ± 0.64
385/4767/3450		Gal/GalNAc lectin Lgl1-5d	100	3.2 ± 1.6
2521	X55028	Immunodominant variable surface antigen	100	0.29 ± 0.15
2178		Multidrug resistance protein 2 (Canis familiaris)	31	3.4 ± 1.0
Vesicular trafficking, other small GTPases, and effectors
4532	AB054578	Rab1	100	0.34 ± 0.08
289	AF218311	Rab7Ab,e	100	0.26 ± 0.18
540	AB186363	Rab7Bb,e	100	0.35 ± 0.31
3974	AB186364	Rab7Cb,e	100	0.32 ± 0.08
2190	AB186365	Rab7Db,e	100	0.29 ± 0.41
1867	AB186366	Rab7Eb,e	100	1.9 ± 0.82
3360	AB197095	RabX17	100	0.24 ± 0.34
1740	AB054579	RabC1	100	0.24 ± 0.34
1174		Clathrin coat assembly protein ap50b (Dictyostelium discoideum)	48	0.39 ± 0.01
443		Receptor-mediated endocytosis protein 1b (Caenorhabditis elegans)	44	0.23 ± 0.05
2883	U29720	RacA	100	0.58 ± 0.26
1250	U29722	RacC	100	0.28 ± 0.01
830	AF055340	RacG	100	0.87 ± 0.28
1948	U01052	Rap2	100	1.2 ± 0.59
Hydrolytic enzymes and degradative proteins
4000		Acid phosphataseb,f (Homo sapiens)	25	0.38 ± 0.54
5274		Acid phosphataseb,f (Homo sapiens)	26	0.86 ± 0.27
4360		α-Amylase (Paenibacillus polymyxa)	27	0.23 ± 0.05
1563	AJ417748	β-Hexosaminidase B	100	3.1 ± 0.07
683	Q01957	Cysteine protease 1	100	0.46 ± 0.11
4021	Q01958	Cysteine protease 2	100	2.1 ± 0.57
2010	CAA62833	Cysteine protease 4	100	0.23 ± 0.05
881	CAA62835	Cysteine protease 5	100	4.1 ± 2.1
5015	AF059278	Dipeptidylaminopeptidase	100	1.2 ± 0.13
2776	X87610	Lysozyme 1b	100	0.23 ± 0.05
1921		Phospholipase A2	100	0.54 ± 0.36
5686		Phospholipase Bb,g (Dictyostelium discoideum)	31	0.68 ± 0.16
6042		Phospholipase Bg (Dictyostelium discoideum)	27	2.0 ± 0.17
790		Serine proteaseh (Caenorhabditis elegans)	31	0.82 ± 0.35
3172		Serine proteaseh (Caenorhabditis elegans)	30	1.1 ± 0.95
Calcium and proton pump
5038		Calcium-transporting ATPasei	100	0.63 ± 0.33
6704	U20321	Calcium-transporting ATPasei	100	0.53 ± 0.19
1033		V-ATPase Vo domain subunit ab (Homo sapiens)	33	0.32 ± 0.08
Other proteins
2856/5741	U13421	Pyridine nucleotide transhydrogenasej	100	8.6 ± 1.5
432	M16339	Actin	100	1.1 ± 0.01
4065		Talin (Dictyostelium discoideum)	25	0.98 ± 0.3
3098	X98567	Ubiquitin	100	0.32 ± 0.08
135		p21-activated protein kinase (Dictyostelium discoideum)	46	0.46 ± 0.11
4681	AF017993	Cyclophilin	100	0.50 ± 0.04
645	M92073	Elongation factor 1α	100	1.1 ± 0.22

^aWe list protein names with organism names in parentheses. Organism names are not indicated when detected peptides perfectly match the previously reported E. histolytica proteins. In cases where highest similarity is demonstrated against putative homologs from other organisms, protein names, organism sources in parentheses, and percent identities are shown. We show putative protein names in cases where (i) homologues with known or predicted functions were found and (ii) amino acid identity and E value are higher than 25% and better than 10⁻⁵, respectively.

^bAnnotation at NCBI nonredundant database is shown while this entry is annotated differently in the E. histolytica Genome Database at TIGR.

^cFrequency (%) = (number of peptides mapped to each protein)/(total number of peptides detected in the phagosome sample) × 100.

^dIsotypes of Hgl, Igl, and Lgl were not assigned due to high similarity among these isotypes.

^eRab7A shows 26 to 44% identity to other Rab7 isotypes.

^fEH5274 acid phosphatase shows 14% identity to EH4000.

^gEH5686 phospholipase B shows 8.3% identity to EH6042.

^hEH790 serine protease shows 16% identity to EH3172.

ⁱEH5038 calcium-transporting ATPase shows 83% identity to EH6704.

^jEH2856 and EH5741 encode partial proteins of a single pyridine nucleotide transhydrogenase.