TABLE 2.

Summary of the different ORFs present in the major contigs assembled following the fucose screen

Contig or clone	Strain A2-194 protein				Related protein
	ORF	ORF length (in amino acids)	Predicted function of protein in strain A2-194	Functional equivalenta	% Identity	Name of closest relative	Closest species	E value
Contig 1-5-2	1	244b	Putative transposase		35	Putative transposase	Clostridium thermocellum	5e-36
	2	282	Histidinol phosphatase		35	PHP family proteinc	Clostridium acetobutylicum	2e-33
	3	117	Polyhedral bodies	PduU	55	Propanediol utilization protein PduU	Clostridium perfringens	3e-30
	4	147	Unknown	PduV	42	Propanediol utilization protein PduV	Salmonella enterica	2e-23
	5	264	l-Fuculose aldolase	FucA	35	l-Fuculose phosphate aldolase	Rhodopirellula baltica	3e-45
	6	118	Polyhedral bodies	PduO?	48	Uncharacterized Pdu protein (36% PduO)	Rhodospirillum rubrum	2e-23
	7	457	Propionaldehyde dehydrogenase	PduP	48	CoA-dependent propionaldehyde dehydrogenase	Listeria monocytogenes	1e-108
	8	403	Putative propanol dehydrogenase	PduQ	48	Zn-dependent alcohol dehydrogenase	Oenococcus oeni	6e-96
	9	112	Polyhedral bodies	PduA	35	Polyhedral body shell protein PduA	Listeria monocytogenes	2e-06
	10	93	Polyhedral bodies	PduJ	80	Polyhedral body shell protein PduJ	Salmonella enterica	2e-19
	11	118	Polyhedral bodies	PduJ	38	Carboxysome protein	Desulfitobacterium hafniense	5e-10
	12	94	Polyhedral bodies	PduA	72	Polyhedral body shell protein PduA	Listeria monocytogenes	9e-20
	13	203	Unknown	PduL	50	Propanediol utilization protein PduL	Desulfitobacterium hafniense	4e-46
	14	90	Polyhedral bodies	PduN	51	Carboxysome protein	Desulfitobacterium hafniense	1e-15
	15	441	NADH oxidoreductase	PduS?	41	Predicted oxidoreductase (38% pduS)	Desulfitobacterium hafniense	5e-89
	16	181	Polyhedral bodies	PduT	39	Carboxysome protein	Desulfitobacterium hafniense	6e-32
	17	259	Transcriptional regulator		41	Transcriptional regulator (of sugar metabolism)	Oceanobacillus iheyensis	3e-45
	18	841	Propanediol dehydratase	PduCDE	53	B12-independent glycerol dehydratase	Clostridium butyricum	0.0
	19	264	Propanediol dehydratase activator	PduGH	35	Glycerol dehydratase activator	Clostridium butyricum	3e-53
Contig 3	1	464	l-Fuculose kinase	FucK	40	Rhamnulokinase/ l-fuculose kinase	Bacteroides thetaiotaomicron	7e-92
	2	144	Hypothetical protein			No match
	3	147	Fucose transport	FucU	49	Fucose operon protein, FucU	Streptococcus pneumoniae	8e-34
	4	287b	ABC sugar transporter		31	ABC sugar transporter	various	2e-23
Clone p4p5	1	270	Putative outer membrane protein		23	Secreted protein with vWA domaind	Streptomyces coelicolor	0.003
	2	199	AgrB	AgrB	29	Accessory gene regulator AgrB	Staphylococcus aureus	0.072
	3	50	Predicted AIP peptide precursor	AgrD		No match
	4	431	Histidine kinase ATPase	AgrC	32	Histidine kinase related ATPase	Treponema denticola	1e-21
	5	219	Two-component response regulator	AgrA	28	Two-component response regulator	Enterococcus faecalis	3e-24
	6	113	Transcriptional regulator		35	Predicted transcriptional regulator	Clostridium acetobutylicum	1e-11
	7	124	Hypothetical protein			No match
Contig 6	1	236b	Zn-dependent alcohol dehydrogenase		24	Alcohol dehydrogenase (zinc)	Pyrobaculum aerophilum	0.44
	2	257	Transcriptional regulator		24	AraC/XylS transcriptional regulator	Bacillus halodurans	3e-15
	3	599	l-Fucose isomerase	FucI	61	l-Fucose isomerase	Bacteroides thetaiotaomicron	0.0
	4	170	Hypothetical protein			No match

^aPdu, propanediol utilization nomenclature based on that of Salmonella serovar Typhimurium LT2; Fuc, fucose utilization nomenclature based on that of E. coli; Agr, quorum-sensing system from S. aureus.

^bIncomplete ORF.

^cPHP, phosphohistidinol phosphatase.

^dvWA, von Willebrand factor type A domain.