Table 6.

Putative P. larvae based on matches to conserved domains.

Protein (E-value)	Domain, functional information from CDD
EFX44344 (2E-37)	AmpS [COG2309]: Leucyl aminopeptidase (aminopeptidase T)
EFX45451 (6E-13)	APP-like [cd01092]: Prolidase and Aminopeptidase P
EFX47002 (0)	clpC [CHL00095]: Clp protease ATP binding subunit
EFX46058 (4E-5)	ClpP [COG0740]: Protease subunit of ATP-dependent Clp proteases
EFX44161 (1E-85), EFX45289 (1E-82)	clpP [PRK00277]: Clp protease proteolytic subunit
EFX45288 (7E-170)	clpX [PRK05342]: Clp protease ATP-binding subunit
EFX45551 (7E-82),	COG0826 [COG0826]: Collagenase and related proteases
EFX45550 (4E-48),
EFX45481 (3E-19),
EFX44736 (1E-28)
EFX44399 (9E-8*)	COG1310 [COG1310]: Predicted metal-dependent protease of the PAD1/JAB1 superfamily
EFX46420 (8E-149)	COG2317 [COG2317]: Zn-dependent carboxypeptidase
EFX44401 (9E-45)	COG2738 [COG2738]: Predicted Zn-dependent protease
EFX44533 (2E-9), EFX45796 (2E-9)	COG2856 [COG2856]: Predicted Zn peptidase
EFX46883 (2E-31)	COG3740 [COG3740]: Phage head maturation protease
EFX45850 (6E-11)	COG4942 [COG4942]: Membrane-bound metallopeptidase
EFX46250 (1E-34), EFX44926 (2E-64)	degP_htrA_DO [TIGR02037]: periplasmic serine protease, Do/DeqQ family
EFX47184 (5E-45)	DegQ [COG0265]: Trypsin-like serine proteases, typically periplasmic
EFX46573 (5E-91),	FtsH_fam [TIGR01241]: ATP-dependent metalloprotease FtsH
EFX44535 (5E-20*),
EFX44172 (3E-17*)
EFX47022 (0)	HflB [COG0465]: ATP-dependent Zn proteases
EFX45319 (1E-36*), EFX44073 (5E-8*)	HflC [COG0330]: membrane protease subunits, stomatin/prohibitin homologs
EFX46036 (4E-157)	HslU [COG1220]: ATP-dependent protease HslVU (ClpYQ), ATPase subunit
EFX46037 (8E-65)	HslV [COG5405]: ATP-dependent protease HslVU (ClpYQ), peptidase subunit
EFX43995 (2E-97),	LasB [COG3227]: Zinc metalloprotease (elastase)
EFX45639 (1E-78),
EFX45177 (9E-58)
EFX45284 (0)	Lon [COG0466]: ATP-dependent Lon protease
EFX43687 (8E-131)	M3_fam_3 [TIGR02290]: oligoendopeptidase, pepF/M3 family
EFX44444 (2E-74)	M14_Endopeptidase_I [cd06229]: Peptidase M14-like domain of Gamma-D-glutamyl-L-diamino acid endopeptidase 1
EFX44181 (2E-45)	MrcA [COG5009]: Membrane carboxypeptidase/penicillin-binding protein
EFX45553 (4E-10*),	MrcB [COG0744]: Membrane carboxypeptidase (penicillin-binding protein)
EFX46407 (3E-97*),
EFX44298 (3E-75*),
EFX46175 (2E-122*),
EFX44515 (1E-12*),
EFX44516 (4E-11*)
EFX45371 (7E-9), EFX45028 (2E-7), EFX45493 (4E-25)	NlpD [COG0739]: Membrane proteins related to metalloendopeptidases
EFX44427 (8E-144)	pepF [TIGR00181]: oligoendopeptidase F
EFX46173 (4E-9)	PepN [COG0308]: Aminopeptidase N
EFX45105 (1E-66)	PepP [COG0006]: Xaa-Pro aminopeptidase
EFX47190 (3E-18)	Peptidase_M23 [pfam01551]: Peptidase family M23
EFX46425 (8E-126)	Peptidase_M6 [pfam05547]: Immune inhibitor A peptidase M6, a metallopeptidase from Bacillus thuringiensis that cleaves host antibacterial proteins
EFX47085 (4E-29)	Peptidase_M9_N [pfam08453]: Peptidase family M9 N-terminal
EFX46343 (8E-6*)	Peptidase_S24 [pfam00717]: Peptidase S24-like
EFX43847 (9E-13)	Peptidase_S41_CPP [cd07560]: C-terminal processing peptidase; serine protease family S41
EFX43943 (3E-27*)	Peptidase_S66 [pfam02016]: LD-carboxypeptidase; this cleaves the bond between an L- and a D-amino acid
EFX45480 (6E-38), EFX45479 (2E-8)	Peptidase_U32 [pfam01136]: Peptidase family U32
EFX43960 (8E-78), EFX45983 (2E-59)	Peptidases_S8_11 [cd04843]: Peptidase S8 family domain, uncharacterized subfamily 11
EFX46806 (8E-36)	Peptidases_S8_Lantibiotic_specific_protease [cd07482]: Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases
EFX44534 (5E-26), EFX45795 (1E-20*), EFX44174 (8E-25)	Peptidases_S8_Subtilisin_like_2 [cd04847]: Peptidase S8 family domain in Subtilisin-like proteins
EFX45938 (8E-46), EFX45020 (3E-62), EFX46180 (2E-50), EFX45070 (2E-20)	Peptidases_S8_Subtilisin_subset [cd07477]: Peptidase S8 family domain in Subtilisin proteins
EFX44839 (5E-67), EFX44567 (5E-47), EFX44567 (4E-55)	Peptidases_S8_Thermitase_like [cd07484]: Peptidase S8 family domain in Thermitase-like proteins
EFX47149 (7E-172)	peptidase-T [TIGR01882]: peptidase T
EFX45664 (5E-87)	PepT-like [TIGR01883]: peptidase T-like protein
EFX46054 (6E-33), EFX46055 (2E-7), EFX46066 (2E-67)	PqqL [COG0612]: Predicted Zn-dependent peptidases
EFX45492 (3E-73)	prc [TIGR00225]: C-terminal peptidase (prc)
EFX44827 (3E-16*)	PRK00016 [PRK00016]: putative metalloprotease
EFX44779 (1E-110)	PRK02858 [PRK02858]: germination protease
EFX45078 (5E-118)	PRK07318 [PRK07318]: dipeptidase PepV
EFX44480 (4E-11*)	PRK08554 [PRK08554]: peptidase
EFX45711 (2E-73)	PRK09795 [PRK09795]: aminopeptidase
EFX45631 (4E-24*), EFX44757 (1E-22*)	PRK13914 [PRK13914]: invasion associated secreted endopeptidase
EFX44490 (3E-22*)	PRK14791 [PRK14791]: lipoprotein signal peptidase
EFX46689 (1E-42)	S14_ClpP_1 [cd07016]: Caseinolytic protease (ClpP)
EFX44792 (2E-28)	S2P-M50_like_1 [cd06158]: Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms
EFX44503 (2E-42)	spore_II_GA [TIGR02854]: sigma-E processing peptidase SpoIIGA
EFX45851 (1E-12)	S2P-M50_SpoIVFB [cd06161]: SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP)
EFX47001 (2E-8*)	spore_lon_C[TIGR02903]: ATP-dependent protease, Lon family
EFX45285 (0)	spore_lonB [TIGR02902]: ATP-dependent protease LonB
EFX46081 (7E-45)	TIGR00054 [TIGR00054]: RIP metalloprotease RseP
EFX44693 (1E-61)	trio_M42_hydro [TIGR03106]: hydrolase, peptidase M42 family

*the listed match is not the one with the lowest E-value; it is displayed because it is the most informative