Table 7. Genome-wide survey of F. alocis cell wall anchored proteins.

Features	F. alocis ATCC strain (n = 50)	F. alocis D-62D strain (n = 56)
Export features
Signal sequence a)	5	14
Signal peptidase I cleavageb)	4	9
Transmembrane helix domain c)	7	15
Cell wall anchored proteins
N or C-terminally anchored proteins d)	8	10
Sortase A. LP×TG anchors e)	–	2
Atypical sortase anchors e)	1	3
Sortase B motif e)	1	–
NP(Q/K)(T/S)(N/G/S)(D/A)
Sortase D motif e)	–	1
LP×TA
Peptidoglycan-binding domains f)	10	20
LysM domains g)	2	4
Lipoprotein anchors h)	–	2
GW repeats i)	5	10
WxL domains j)	3	6
Glycin-rich C terminal motif k)	–	25

^a)Signal sequence prediction was done with the hidden Markov model in SignalP3.0 [28], with p values of > 0.95 as the cutoff.

^b)Cleavage site prediction was done with the neural network model in SignalP3.0, with C_max values of > 0.52 and Y_max values of > 0.32 as cutoffs.

^c)TMMH prediction was made using SignalP3.0 [28].

^d)The N terminal and C terminal domains were identified using the HMM.

^e)LPXTG anchors, atypical sortase anchors, sortase D motifs were predicted by the hidden Markov model for sortase substrates [32].

^f)g)From the Pfam database, with a cutoff E value of ≤ 10⁻⁵.

^h)Lipoprotein prediction was done as described by Sutcliffe and Harrington [31].

ⁱ⁾Manual screening for the presence of GW residues in repetitive regions was performed.

^j)Prediction based on the presence of the [LI]TW[TS]L motif in the C-terminal sequence.

^k)Sequence alignment and C terminal motif identifications were made using MEGA version 4.0 [25].