Table 1

*List of all domains identified by described methods, as well as their likely function and number in S. coelicolor.*
*Pfam Accession No*	*Family Name*	*Pfam Type*	*Basic Function*	*No of copies in S. coelicolor*	*Antibiotic biosynthesis*	*Cell Wall Biosynth*	*Cell Wall/Periplasm*	*Replication*	*Secreted*

A) Novel Families

PF03457	HA	Domain	Putative RNA binding domain	21				X
PF03621	MbtH	Domain	Possibly involved in antibiotic biosynthesis	2	X
PF03625	DUF302	Domain	Unknown function	3			X		X
PF03640	Lipoprotein_15	Repeat	Unknown function	6			X		X
PF03703	DUF304	Domain	Unknown function	4			X		X
PF03704	BTAD	Family	Bacterial transcriptional activator domain	12	X
PF03710	GlnE	Domain	Glutamate-ammonia ligase adenylyltransferase	2
PF03713	DUF305	Domain	Unknown function	6			X		X
PF03714	PUD	Domain	Putative carbohydrate binding domain	2			X		X
PF03724	DUF306	Domain	Unknown function	2					X
PF03729	DUF308	Repeat	Unknown function	6			X		X
PF03733	DUF307	Domain	Unknown function	2			X		X
PF03752	ALF	Repeat	Putative signal transduction domains	16					X
PF03756	AfsA_repeat	Repeat	A-factor biosynthesis	2	X
PF03771	SPDB	Domain	(Probably) mobile element replication	16
PF03777	DUF320	Domain	Unknown function	11			X		X
PF03779	SPW	Repeat	Unknown function	2			X
PF03793	PASTA	Domain	Cell wall peptidoglycan sensor domain	9		X	X	X	X
PF03794	HHE	Domain	Unknown function	7		X
PF03795	YCII	Domain	Probably enzymatic domain	3
PF03860	DUF326	Domain	Unknown function	6			X
PF03984	DUF346	Repeat	Unknown function (β-propeller)	7			X		X
PF03988	DUF347	Repeat	Unknown function	4			X
PF03990	DUF348	Domain	Unknown function	3			X		X
PF03992	ABM	Domain	Antibiotic biosynthesis monooxygenase	3	X
PF03993	DUF349	Domain	Unknown function	3
PF03994	DUF350	Domain	Unknown function	2			X		X
PF03995	DUF351	Domain	Unknown function	4					X
PF04151	PPC	Domain	PKD-like peptidase C-terminal domain	3					X
PF04205	FMN_bind	Domain	FMN-binding domain	2			X		X
PF05120	GvpG	Domain	Gas vesicle protein G	2					X
PF05121	GvpK	Domain	Gas vesicle protein K	2
PF05122	SpdB	Domain	Mobile element transfer proteins	2

B) Previously Described New Pfam Families

PF03458	UPF0126¹	Domain	Unknown function	4			X		X
PF03459	TOBE²	Domain	Transport-associated OB fold domain	9			X
PF03707	MHYT³	Repeat	Putative ligand receptor	6			X		X
PF03989	DNA_gyraseA_C4	Repeat	DNA-binding β-propeller	8				X

C) Significantly Extended Families

PF00188	SCP	Domain	Unknown function	4			X		X
PF01839	FG-GAP	Repeat	Putative β-propeller	57			X		X

This table shows all new Pfam families added during this investigation. Part A shows entirely novel families. Part B shows families that are new to Pfam but have been previously described in the literature: (1) SWISS-PROT; (2) [54]; (3) [55]; (4) [56]. Part C shows families that have had significant extensions to them – for instance SCP was previously thought to be present only in eukaryotes. Domains highlighted in blue are discussed in further detail in section 3.2.
Yeats et al. BMC Microbiology 2003 3:3 doi:10.1186/1471-2180-3-3