Automated classification of tailed bacteriophages according to their neck organization

BMC Genomics

Table 1 Functionally characterized head- and tail-completion proteins of tailed bacteriophages classified in Aclame

Phage	Order	Head-completion Ad	Head-completion Hc	Tail-completion Tc	Neck type
SPP1	Siphoviridae	gp15 ¹	gp16 ²	gp17 ³	1
Lambda	Siphoviridae	gpW	gpFII ²	gpU ³	1
HK97	Siphoviridae	gp6 ¹	gp7	gp9*	1
T4	Myoviridae	gp13	gp14	gp15 ³	2
P22	Podoviridae	gp4 ¹	gp10	-	3
Φ29	Podoviridae	gp11	-	-	4

*Refers to a protein identified through this study.
Head- and tail-completion proteins extracted from the literature are listed in this table. Proteins of known 3D structure are indicated in bold. Structural homologies between proteins that were experimentally demonstrated are indicated by similar numbers in superscript. Neck types result from the current analysis. In particular, SPP1, λ and HK97 are gathered within the same phage type because they are predicted as exhibiting homologous head- and tail completion proteins. GpW of Siphoviridae phage λ corresponds to a rare alternative playing the role of SPP1 gp15 at the head-to-tail connection (although gpW and gp15 share no homology at the sequence and structural levels).

ISSN: 1471-2164