#                                                                           --- full sequence ---- --- best 1 domain ---- --- domain number estimation ----
# target name        accession  query name                       accession    E-value  score  bias   E-value  score  bias   exp reg clu  ov env dom rep inc description of target
#------------------- ----------             -------------------- ---------- --------- ------ ----- --------- ------ -----   --- --- --- --- --- --- --- --- ---------------------
Cdc6_C	PF09079.11	gi|389848446|ref|YP_006350684.1|	-	2.1e-11	43.6	0.0	5.2e-11	42.4	0.0	1.6	1	0	0	1	1	1	1	CDC6,	C	terminal	winged	helix	domain
AAA_16	PF13191.6	gi|389848446|ref|YP_006350684.1|	-	3e-08	34.3	1.5	4.2e-08	33.7	0.2	2.0	2	1	0	2	2	2	1	AAA	ATPase	domain
AAA_22	PF13401.6	gi|389848446|ref|YP_006350684.1|	-	2.2e-07	31.2	0.0	6.5e-07	29.7	0.0	1.7	1	0	0	1	1	1	1	AAA	domain
AAA	PF00004.29	gi|389848446|ref|YP_006350684.1|	-	1.1e-06	29.1	0.0	3.2e-06	27.6	0.0	1.7	1	1	0	1	1	1	1	ATPase	family	associated	with	various	cellular	activities	(AAA)
NACHT	PF05729.12	gi|389848446|ref|YP_006350684.1|	-	0.0011	18.9	0.0	0.0028	17.6	0.0	1.7	2	0	0	2	2	2	1	NACHT	domain
AAA_2	PF07724.14	gi|389848446|ref|YP_006350684.1|	-	0.0034	17.5	0.0	0.0068	16.5	0.0	1.4	1	0	0	1	1	1	1	AAA	domain	(Cdc48	subfamily)
AAA_5	PF07728.14	gi|389848446|ref|YP_006350684.1|	-	0.0071	16.4	0.4	1.1	9.3	0.1	2.8	3	0	0	3	3	3	1	AAA	domain	(dynein-related	subfamily)
DUF2791	PF10923.8	gi|389848446|ref|YP_006350684.1|	-	0.016	14.1	0.1	0.029	13.2	0.1	1.3	1	0	0	1	1	1	0	P-loop	Domain	of	unknown	function	(DUF2791)
ABC_tran	PF00005.27	gi|389848446|ref|YP_006350684.1|	-	0.026	15.0	0.0	0.066	13.7	0.0	1.8	1	0	0	1	1	1	0	ABC	transporter
DUF815	PF05673.13	gi|389848446|ref|YP_006350684.1|	-	0.03	13.5	0.0	0.046	12.9	0.0	1.2	1	0	0	1	1	1	0	Protein	of	unknown	function	(DUF815)
Sigma54_activat	PF00158.26	gi|389848446|ref|YP_006350684.1|	-	0.037	13.7	0.0	0.11	12.1	0.1	1.8	2	0	0	2	2	2	0	Sigma-54	interaction	domain
AAA_18	PF13238.6	gi|389848446|ref|YP_006350684.1|	-	0.12	12.9	0.1	0.36	11.4	0.1	1.8	1	0	0	1	1	1	0	AAA	domain
AAA_31	PF13614.6	gi|389848448|ref|YP_006350686.1|	-	2.9e-20	72.9	0.0	4.1e-20	72.4	0.0	1.1	1	0	0	1	1	1	1	AAA	domain
CbiA	PF01656.23	gi|389848448|ref|YP_006350686.1|	-	1.9e-10	40.9	0.0	2.7e-10	40.4	0.0	1.3	1	0	0	1	1	1	1	CobQ/CobB/MinD/ParA	nucleotide	binding	domain
ArsA_ATPase	PF02374.15	gi|389848448|ref|YP_006350686.1|	-	4.6e-07	29.3	0.0	7.5e-07	28.6	0.0	1.2	1	0	0	1	1	1	1	Anion-transporting	ATPase
ParA	PF10609.9	gi|389848448|ref|YP_006350686.1|	-	5.8e-05	22.7	0.0	0.00017	21.1	0.0	1.6	2	0	0	2	2	2	1	NUBPL	iron-transfer	P-loop	NTPase
MipZ	PF09140.11	gi|389848448|ref|YP_006350686.1|	-	0.00036	19.9	0.0	0.016	14.5	0.0	2.2	1	1	1	2	2	2	1	ATPase	MipZ
Fer4_NifH	PF00142.18	gi|389848448|ref|YP_006350686.1|	-	0.0046	16.4	0.0	0.0077	15.7	0.0	1.3	1	0	0	1	1	1	1	4Fe-4S	iron	sulfur	cluster	binding	proteins,	NifH/frxC	family
SRP54	PF00448.22	gi|389848448|ref|YP_006350686.1|	-	0.019	14.6	0.0	0.045	13.4	0.0	1.5	1	0	0	1	1	1	0	SRP54-type	protein,	GTPase	domain
CBP_BcsQ	PF06564.12	gi|389848448|ref|YP_006350686.1|	-	0.071	12.6	0.0	0.18	11.2	0.0	1.6	1	1	0	1	1	1	0	Cellulose	biosynthesis	protein	BcsQ
CLP1_P	PF16575.5	gi|389848448|ref|YP_006350686.1|	-	0.22	11.3	0.0	0.44	10.3	0.0	1.4	1	0	0	1	1	1	0	mRNA	cleavage	and	polyadenylation	factor	CLP1	P-loop
DZR	PF12773.7	gi|389848449|ref|YP_006350687.1|	-	0.002	18.1	0.2	0.0024	17.9	0.2	1.2	1	0	0	1	1	1	1	Double	zinc	ribbon
zinc_ribbon_2	PF13240.6	gi|389848449|ref|YP_006350687.1|	-	0.0079	15.9	0.1	0.015	15.0	0.1	1.5	1	0	0	1	1	1	1	zinc-ribbon	domain
Rubredoxin_2	PF18073.1	gi|389848449|ref|YP_006350687.1|	-	0.018	14.7	1.3	0.04	13.7	0.0	1.9	2	0	0	2	2	2	0	Rubredoxin	metal	binding	domain
Zn-ribbon_8	PF09723.10	gi|389848449|ref|YP_006350687.1|	-	0.029	14.5	1.1	0.12	12.6	1.2	1.8	1	1	0	1	1	1	0	Zinc	ribbon	domain
Rhodanese_C	PF12368.8	gi|389848449|ref|YP_006350687.1|	-	0.031	14.6	0.4	2.2	8.7	0.0	2.0	1	1	1	2	2	2	0	Rhodanase	C-terminal
zinc_ribbon_9	PF14369.6	gi|389848449|ref|YP_006350687.1|	-	0.057	13.7	2.3	3.3	8.0	0.4	2.2	2	0	0	2	2	2	0	zinc-ribbon
DiS_P_DiS	PF06750.13	gi|389848449|ref|YP_006350687.1|	-	0.063	13.4	0.3	0.17	12.0	0.1	1.7	1	1	1	2	2	2	0	Bacterial	Peptidase	A24	N-terminal	domain
zf-ribbon_3	PF13248.6	gi|389848449|ref|YP_006350687.1|	-	0.063	12.7	1.5	0.65	9.5	0.3	2.1	2	0	0	2	2	2	0	zinc-ribbon	domain
Terminase_GpA	PF05876.12	gi|389848449|ref|YP_006350687.1|	-	0.11	11.0	0.1	0.11	11.0	0.1	1.0	1	0	0	1	1	1	0	Phage	terminase	large	subunit	(GpA)
TFIIS_C	PF01096.18	gi|389848449|ref|YP_006350687.1|	-	0.14	12.1	2.8	0.7	9.8	2.9	1.9	1	1	0	1	1	1	0	Transcription	factor	S-II	(TFIIS)
HTH_10	PF04967.12	gi|389848450|ref|YP_006350688.1|	-	7.4e-21	73.7	0.7	1.3e-20	72.9	0.7	1.4	1	0	0	1	1	1	1	HTH	DNA	binding	domain
CHAD	PF05235.14	gi|389848450|ref|YP_006350688.1|	-	0.0021	18.0	4.1	0.0038	17.2	4.1	1.3	1	0	0	1	1	1	1	CHAD	domain
HTH_24	PF13412.6	gi|389848450|ref|YP_006350688.1|	-	0.016	14.7	0.0	0.071	12.7	0.0	2.1	2	0	0	2	2	2	0	Winged	helix-turn-helix	DNA-binding
UPF0122	PF04297.14	gi|389848450|ref|YP_006350688.1|	-	0.047	13.9	0.1	0.16	12.2	0.1	1.9	2	0	0	2	2	2	0	Putative	helix-turn-helix	protein,	YlxM	/	p13	like
HTH_IclR	PF09339.10	gi|389848450|ref|YP_006350688.1|	-	0.065	13.1	0.0	0.18	11.7	0.0	1.7	1	0	0	1	1	1	0	IclR	helix-turn-helix	domain
Lactamase_B	PF00753.27	gi|389848451|ref|YP_006350689.1|	-	6e-14	52.5	7.3	6.4e-13	49.2	7.3	2.3	1	1	0	1	1	1	1	Metallo-beta-lactamase	superfamily
Rhodanese	PF00581.20	gi|389848451|ref|YP_006350689.1|	-	1.1e-13	51.6	0.0	2.8e-13	50.3	0.0	1.7	2	0	0	2	2	2	1	Rhodanese-like	domain
Lactamase_B_2	PF12706.7	gi|389848451|ref|YP_006350689.1|	-	0.0013	18.3	1.9	0.0056	16.2	1.9	1.9	1	1	0	1	1	1	1	Beta-lactamase	superfamily	domain
MFS_1	PF07690.16	gi|389848452|ref|YP_006350690.1|	-	7.9e-37	127.0	39.6	9.9e-19	67.5	19.7	2.0	1	1	1	2	2	2	2	Major	Facilitator	Superfamily
MFS_1_like	PF12832.7	gi|389848452|ref|YP_006350690.1|	-	9.4e-06	24.7	19.9	0.014	14.3	5.5	3.4	2	2	0	2	2	2	2	MFS_1	like	family
adh_short_C2	PF13561.6	gi|389848454|ref|YP_006350692.1|	-	3e-62	210.2	1.9	3.9e-62	209.9	1.9	1.0	1	0	0	1	1	1	1	Enoyl-(Acyl	carrier	protein)	reductase
adh_short	PF00106.25	gi|389848454|ref|YP_006350692.1|	-	5.5e-61	205.4	0.9	7e-61	205.1	0.9	1.1	1	0	0	1	1	1	1	short	chain	dehydrogenase
KR	PF08659.10	gi|389848454|ref|YP_006350692.1|	-	2.7e-14	53.5	0.1	3.5e-14	53.1	0.1	1.1	1	0	0	1	1	1	1	KR	domain
Epimerase	PF01370.21	gi|389848454|ref|YP_006350692.1|	-	8.1e-05	22.2	0.1	0.00014	21.4	0.1	1.6	1	1	0	1	1	1	1	NAD	dependent	epimerase/dehydratase	family
THF_DHG_CYH_C	PF02882.19	gi|389848454|ref|YP_006350692.1|	-	0.0086	15.4	0.0	0.02	14.2	0.0	1.6	1	1	0	1	1	1	1	Tetrahydrofolate	dehydrogenase/cyclohydrolase,	NAD(P)-binding	domain
RmlD_sub_bind	PF04321.17	gi|389848454|ref|YP_006350692.1|	-	0.022	13.8	0.1	0.058	12.5	0.1	1.7	1	1	1	2	2	2	0	RmlD	substrate	binding	domain
F420_oxidored	PF03807.17	gi|389848454|ref|YP_006350692.1|	-	0.057	14.0	0.0	0.12	13.0	0.0	1.5	1	0	0	1	1	1	0	NADP	oxidoreductase	coenzyme	F420-dependent
GDP_Man_Dehyd	PF16363.5	gi|389848454|ref|YP_006350692.1|	-	0.087	12.2	0.0	0.14	11.6	0.0	1.4	1	0	0	1	1	1	0	GDP-mannose	4,6	dehydratase
HAD_2	PF13419.6	gi|389848456|ref|YP_006350694.1|	-	4.5e-21	75.7	0.0	5.3e-21	75.5	0.0	1.3	1	0	0	1	1	1	1	Haloacid	dehalogenase-like	hydrolase
Hydrolase	PF00702.26	gi|389848456|ref|YP_006350694.1|	-	3.6e-13	50.3	0.1	1.7e-12	48.1	0.1	1.8	1	1	0	1	1	1	1	haloacid	dehalogenase-like	hydrolase
Hydrolase_like	PF13242.6	gi|389848456|ref|YP_006350694.1|	-	1e-10	41.5	0.5	3e-10	40.0	0.5	1.8	1	0	0	1	1	1	1	HAD-hyrolase-like
Acyl-CoA_dh_1	PF00441.24	gi|389848457|ref|YP_006350695.1|	-	1.1e-39	136.0	3.5	1.5e-39	135.6	3.5	1.2	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	C-terminal	domain
Acyl-CoA_dh_M	PF02770.19	gi|389848457|ref|YP_006350695.1|	-	3.7e-23	81.6	0.0	7.6e-23	80.5	0.0	1.6	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	middle	domain
Acyl-CoA_dh_N	PF02771.16	gi|389848457|ref|YP_006350695.1|	-	7.1e-18	65.3	0.0	1.5e-17	64.3	0.0	1.6	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	N-terminal	domain
Acyl-CoA_dh_2	PF08028.11	gi|389848457|ref|YP_006350695.1|	-	2.8e-16	60.0	5.9	2.8e-16	60.0	5.9	1.9	1	1	1	2	2	2	1	Acyl-CoA	dehydrogenase,	C-terminal	domain
HpaB_N	PF11794.8	gi|389848457|ref|YP_006350695.1|	-	0.0032	17.2	0.0	0.0075	16.0	0.0	1.6	2	0	0	2	2	2	1	4-hydroxyphenylacetate	3-hydroxylase	N	terminal
APH	PF01636.23	gi|389848459|ref|YP_006350697.1|	-	6.9e-46	157.1	5.3	9.8e-46	156.6	5.3	1.2	1	0	0	1	1	1	1	Phosphotransferase	enzyme	family
EcKinase	PF02958.20	gi|389848459|ref|YP_006350697.1|	-	0.00069	19.0	0.0	0.0012	18.2	0.0	1.4	1	0	0	1	1	1	1	Ecdysteroid	kinase
HTH_33	PF13592.6	gi|389848459|ref|YP_006350697.1|	-	0.022	14.4	0.3	0.2	11.4	0.1	2.5	3	0	0	3	3	3	0	Winged	helix-turn	helix
DUF1679	PF07914.11	gi|389848459|ref|YP_006350697.1|	-	0.027	13.3	0.0	0.038	12.9	0.0	1.1	1	0	0	1	1	1	0	Protein	of	unknown	function	(DUF1679)
3HCDH_N	PF02737.18	gi|389848460|ref|YP_006350698.1|	-	2.7e-61	206.6	0.0	4.5e-61	205.9	0.0	1.4	1	0	0	1	1	1	1	3-hydroxyacyl-CoA	dehydrogenase,	NAD	binding	domain
ECH_1	PF00378.20	gi|389848460|ref|YP_006350698.1|	-	3.7e-54	183.7	0.0	5e-54	183.2	0.0	1.2	1	0	0	1	1	1	1	Enoyl-CoA	hydratase/isomerase
3HCDH	PF00725.22	gi|389848460|ref|YP_006350698.1|	-	7.9e-44	148.2	0.3	2.9e-22	79.1	0.0	3.2	3	0	0	3	3	3	2	3-hydroxyacyl-CoA	dehydrogenase,	C-terminal	domain
ECH_2	PF16113.5	gi|389848460|ref|YP_006350698.1|	-	8.3e-31	107.7	0.0	4e-27	95.6	0.0	2.5	2	1	1	3	3	3	2	Enoyl-CoA	hydratase/isomerase
NAD_binding_2	PF03446.15	gi|389848460|ref|YP_006350698.1|	-	0.0078	16.4	0.1	0.021	15.0	0.1	1.7	1	1	0	1	1	1	1	NAD	binding	domain	of	6-phosphogluconate	dehydrogenase
NAD_Gly3P_dh_N	PF01210.23	gi|389848460|ref|YP_006350698.1|	-	0.061	13.3	0.0	0.11	12.5	0.0	1.4	1	0	0	1	1	1	0	NAD-dependent	glycerol-3-phosphate	dehydrogenase	N-terminus
F420_oxidored	PF03807.17	gi|389848460|ref|YP_006350698.1|	-	0.13	12.8	0.3	0.51	11.0	0.3	2.1	2	1	0	2	2	2	0	NADP	oxidoreductase	coenzyme	F420-dependent
UDPG_MGDP_dh_N	PF03721.14	gi|389848460|ref|YP_006350698.1|	-	0.16	11.5	0.1	0.34	10.5	0.1	1.5	1	0	0	1	1	1	0	UDP-glucose/GDP-mannose	dehydrogenase	family,	NAD	binding	domain
Pup	PF05639.11	gi|389848460|ref|YP_006350698.1|	-	2.1	9.3	11.0	1.7	9.6	2.7	3.5	3	0	0	3	3	3	0	Pup-like	protein
HTH_Tnp_Tc3_2	PF01498.18	gi|389848461|ref|YP_006350699.1|	-	0.0002	21.5	0.1	0.00059	20.0	0.1	1.7	2	0	0	2	2	2	1	Transposase
HTH_24	PF13412.6	gi|389848461|ref|YP_006350699.1|	-	0.00062	19.3	0.5	0.017	14.7	0.2	2.4	2	0	0	2	2	2	1	Winged	helix-turn-helix	DNA-binding
HTH_32	PF13565.6	gi|389848461|ref|YP_006350699.1|	-	0.0081	16.8	0.4	0.016	15.8	0.1	1.7	2	0	0	2	2	2	1	Homeodomain-like	domain
HTH_AsnC-type	PF13404.6	gi|389848461|ref|YP_006350699.1|	-	0.16	11.9	0.8	0.31	10.9	0.8	1.6	1	1	0	1	1	1	0	AsnC-type	helix-turn-helix	domain
Acyl-CoA_dh_1	PF00441.24	gi|389848462|ref|YP_006350700.1|	-	1.1e-54	184.8	2.3	1.6e-54	184.2	2.3	1.2	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	C-terminal	domain
Acyl-CoA_dh_N	PF02771.16	gi|389848462|ref|YP_006350700.1|	-	1.6e-31	109.3	0.4	1.6e-31	109.3	0.4	2.1	3	0	0	3	3	3	1	Acyl-CoA	dehydrogenase,	N-terminal	domain
Acyl-CoA_dh_M	PF02770.19	gi|389848462|ref|YP_006350700.1|	-	4.5e-28	97.3	0.1	8.2e-28	96.5	0.1	1.5	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	middle	domain
Acyl-CoA_dh_2	PF08028.11	gi|389848462|ref|YP_006350700.1|	-	1.5e-27	96.5	9.8	2.5e-27	95.8	9.8	1.4	1	0	0	1	1	1	1	Acyl-CoA	dehydrogenase,	C-terminal	domain
HpaB_N	PF11794.8	gi|389848462|ref|YP_006350700.1|	-	1.6e-05	24.8	1.2	0.00012	21.9	1.2	2.2	1	1	0	1	1	1	1	4-hydroxyphenylacetate	3-hydroxylase	N	terminal
HpaB	PF03241.13	gi|389848462|ref|YP_006350700.1|	-	0.0035	16.5	0.5	0.0073	15.4	0.5	1.6	1	1	0	1	1	1	1	4-hydroxyphenylacetate	3-hydroxylase	C	terminal
AMP-binding	PF00501.28	gi|389848464|ref|YP_006350702.1|	-	3.6e-111	371.8	0.0	4.2e-111	371.5	0.0	1.0	1	0	0	1	1	1	1	AMP-binding	enzyme
AMP-binding_C	PF13193.6	gi|389848464|ref|YP_006350702.1|	-	3.9e-23	82.2	0.5	1.4e-22	80.5	0.6	2.0	2	0	0	2	2	2	1	AMP-binding	enzyme	C-terminal	domain
SCP2	PF02036.17	gi|389848465|ref|YP_006350703.1|	-	9.6e-07	29.2	0.0	1.1e-06	29.1	0.0	1.2	1	0	0	1	1	1	1	SCP-2	sterol	transfer	family
CBM_10	PF02013.16	gi|389848465|ref|YP_006350703.1|	-	0.68	10.5	5.8	3.4	8.2	0.4	2.4	2	0	0	2	2	2	0	Cellulose	or	protein	binding	domain
ADH_N	PF08240.12	gi|389848466|ref|YP_006350704.1|	-	9e-27	93.1	0.1	2.7e-26	91.6	0.1	1.8	1	0	0	1	1	1	1	Alcohol	dehydrogenase	GroES-like	domain
ADH_zinc_N	PF00107.26	gi|389848466|ref|YP_006350704.1|	-	2e-23	82.8	0.0	3.2e-23	82.2	0.0	1.3	1	0	0	1	1	1	1	Zinc-binding	dehydrogenase
ADH_zinc_N_2	PF13602.6	gi|389848466|ref|YP_006350704.1|	-	7.1e-05	23.9	0.0	0.00017	22.6	0.0	1.6	2	0	0	2	2	2	1	Zinc-binding	dehydrogenase
AlaDh_PNT_C	PF01262.21	gi|389848466|ref|YP_006350704.1|	-	0.00011	21.5	0.6	0.00017	21.0	0.6	1.3	1	0	0	1	1	1	1	Alanine	dehydrogenase/PNT,	C-terminal	domain
Glu_dehyd_C	PF16912.5	gi|389848466|ref|YP_006350704.1|	-	0.0018	17.8	0.4	0.003	17.1	0.4	1.3	1	0	0	1	1	1	1	Glucose	dehydrogenase	C-terminus
TrkA_N	PF02254.18	gi|389848466|ref|YP_006350704.1|	-	0.029	14.6	0.4	0.048	13.9	0.4	1.3	1	0	0	1	1	1	0	TrkA-N	domain
Methyltransf_11	PF08241.12	gi|389848466|ref|YP_006350704.1|	-	0.03	15.0	0.1	0.058	14.0	0.1	1.4	1	0	0	1	1	1	0	Methyltransferase	domain
2-Hacid_dh_C	PF02826.19	gi|389848466|ref|YP_006350704.1|	-	0.069	12.5	0.1	0.11	11.8	0.1	1.2	1	0	0	1	1	1	0	D-isomer	specific	2-hydroxyacid	dehydrogenase,	NAD	binding	domain
Methyltransf_25	PF13649.6	gi|389848466|ref|YP_006350704.1|	-	0.11	13.2	0.1	0.19	12.5	0.1	1.5	1	0	0	1	1	1	0	Methyltransferase	domain
Aldedh	PF00171.22	gi|389848467|ref|YP_006350705.1|	-	4.8e-158	526.5	0.0	5.4e-158	526.3	0.0	1.0	1	0	0	1	1	1	1	Aldehyde	dehydrogenase	family
DUF1487	PF07368.11	gi|389848467|ref|YP_006350705.1|	-	0.0022	17.5	0.0	0.11	12.0	0.0	2.2	2	0	0	2	2	2	2	Protein	of	unknown	function	(DUF1487)
Invasin_D3	PF09134.10	gi|389848467|ref|YP_006350705.1|	-	0.0023	18.2	2.7	0.0052	17.1	2.7	1.6	1	0	0	1	1	1	1	Invasin,	domain	3
MFS_1	PF07690.16	gi|389848468|ref|YP_006350706.1|	-	1.9e-36	125.7	47.9	5.3e-24	84.8	24.7	2.0	1	1	1	2	2	2	2	Major	Facilitator	Superfamily
Sugar_tr	PF00083.24	gi|389848468|ref|YP_006350706.1|	-	4.6e-08	32.4	8.0	4.6e-08	32.4	8.0	2.1	2	0	0	2	2	2	1	Sugar	(and	other)	transporter
MFS_Mycoplasma	PF07672.13	gi|389848468|ref|YP_006350706.1|	-	0.071	12.4	4.4	0.092	12.0	1.3	2.4	3	0	0	3	3	3	0	Mycoplasma	MFS	transporter
Alkyl_sulf_dimr	PF14863.6	gi|389848469|ref|YP_006350707.1|	-	1.5e-26	93.5	0.1	3.3e-26	92.4	0.1	1.5	1	0	0	1	1	1	1	Alkyl	sulfatase	dimerisation
Lactamase_B	PF00753.27	gi|389848469|ref|YP_006350707.1|	-	4.4e-20	72.5	3.7	8.9e-20	71.5	3.7	1.5	1	0	0	1	1	1	1	Metallo-beta-lactamase	superfamily
Lactamase_B_2	PF12706.7	gi|389848469|ref|YP_006350707.1|	-	3e-06	26.9	1.0	6.1e-06	25.9	1.0	1.6	1	1	0	1	1	1	1	Beta-lactamase	superfamily	domain
Alkyl_sulf_dimr	PF14863.6	gi|389848470|ref|YP_006350708.1|	-	7.1e-09	36.2	0.2	8.3e-09	36.0	0.2	1.0	1	0	0	1	1	1	1	Alkyl	sulfatase	dimerisation
HTH_10	PF04967.12	gi|389848471|ref|YP_006350709.1|	-	8.8e-16	57.5	0.1	1.6e-15	56.6	0.1	1.5	1	0	0	1	1	1	1	HTH	DNA	binding	domain
Sigma70_r4	PF04545.16	gi|389848471|ref|YP_006350709.1|	-	2.2e-05	23.8	0.3	4.8e-05	22.8	0.3	1.5	1	0	0	1	1	1	1	Sigma-70,	region	4
Sigma70_r4_2	PF08281.12	gi|389848471|ref|YP_006350709.1|	-	0.0057	16.3	0.9	0.1	12.3	0.2	2.8	2	1	0	2	2	2	1	Sigma-70,	region	4
SgrR_N	PF12793.7	gi|389848471|ref|YP_006350709.1|	-	0.013	15.7	0.0	0.026	14.7	0.0	1.4	1	0	0	1	1	1	0	Sugar	transport-related	sRNA	regulator	N-term
HTH_1	PF00126.27	gi|389848471|ref|YP_006350709.1|	-	0.049	13.6	0.0	0.12	12.4	0.0	1.6	1	0	0	1	1	1	0	Bacterial	regulatory	helix-turn-helix	protein,	lysR	family
HTH_Tnp_4	PF13613.6	gi|389848471|ref|YP_006350709.1|	-	0.06	13.1	0.0	0.11	12.2	0.0	1.5	1	0	0	1	1	1	0	Helix-turn-helix	of	DDE	superfamily	endonuclease
GerE	PF00196.19	gi|389848471|ref|YP_006350709.1|	-	0.061	12.9	0.2	14	5.3	0.0	2.4	2	0	0	2	2	2	0	Bacterial	regulatory	proteins,	luxR	family
HBM	PF16591.5	gi|389848471|ref|YP_006350709.1|	-	0.065	12.7	0.0	0.11	11.9	0.0	1.3	1	0	0	1	1	1	0	Helical	bimodular	sensor	domain
Vac_Fusion	PF02346.16	gi|389848471|ref|YP_006350709.1|	-	0.09	12.4	0.0	0.22	11.2	0.0	1.6	1	0	0	1	1	1	0	Chordopoxvirus	multifunctional	envelope	protein	A27
HTH_Mga	PF08280.11	gi|389848471|ref|YP_006350709.1|	-	0.099	12.7	0.0	0.2	11.7	0.0	1.4	1	0	0	1	1	1	0	M	protein	trans-acting	positive	regulator	(MGA)	HTH	domain
Homeodomain	PF00046.29	gi|389848471|ref|YP_006350709.1|	-	0.11	12.4	0.1	0.24	11.3	0.1	1.5	1	0	0	1	1	1	0	Homeodomain
Acetyltransf_11	PF13720.6	gi|389848471|ref|YP_006350709.1|	-	0.14	12.6	0.1	0.33	11.4	0.1	1.6	1	0	0	1	1	1	0	Udp	N-acetylglucosamine	O-acyltransferase;	Domain	2
UpxZ	PF06603.11	gi|389848472|ref|YP_006350710.1|	-	0.0044	17.3	0.2	0.0067	16.7	0.2	1.4	1	0	0	1	1	1	1	UpxZ	family	of	transcription	anti-terminator	antagonists
Sulfotransfer_4	PF17784.1	gi|389848472|ref|YP_006350710.1|	-	0.062	13.1	1.1	0.075	12.8	1.1	1.1	1	0	0	1	1	1	0	Sulfotransferase	domain
ECH_1	PF00378.20	gi|389848472|ref|YP_006350710.1|	-	0.13	11.6	0.1	0.15	11.4	0.1	1.1	1	0	0	1	1	1	0	Enoyl-CoA	hydratase/isomerase
Z1	PF10593.9	gi|389848472|ref|YP_006350710.1|	-	0.37	10.3	3.5	0.41	10.1	3.5	1.1	1	0	0	1	1	1	0	Z1	domain
Carbpep_Y_N	PF05388.11	gi|389848472|ref|YP_006350710.1|	-	0.59	10.7	3.3	8.6	6.9	0.2	2.1	1	1	1	2	2	2	0	Carboxypeptidase	Y	pro-peptide
MRPL52	PF18699.1	gi|389848472|ref|YP_006350710.1|	-	0.61	10.3	5.6	8.9	6.6	2.2	2.2	1	1	1	2	2	2	0	Mitoribosomal	protein	mL52
EHN	PF06441.12	gi|389848472|ref|YP_006350710.1|	-	0.74	10.2	2.9	0.97	9.8	2.5	1.4	1	1	0	1	1	1	0	Epoxide	hydrolase	N	terminus
DDE_Tnp_IS240	PF13610.6	gi|389848473|ref|YP_006350711.1|	-	2.6e-07	30.9	0.0	2.7e-07	30.9	0.0	1.0	1	0	0	1	1	1	1	DDE	domain
Uds1	PF15456.6	gi|389848476|ref|YP_006350714.1|	-	0.065	13.4	0.2	0.065	13.4	0.2	1.6	2	0	0	2	2	2	0	Up-regulated	During	Septation
NYD-SP28	PF14772.6	gi|389848476|ref|YP_006350714.1|	-	0.49	10.5	4.7	0.23	11.5	0.7	2.2	2	0	0	2	2	2	0	Sperm	tail
DUF1910	PF08928.10	gi|389848476|ref|YP_006350714.1|	-	1	9.4	5.5	10	6.1	0.7	2.4	1	1	1	2	2	2	0	Domain	of	unknown	function	(DUF1910)
RHH_1	PF01402.21	gi|389848477|ref|YP_006350715.1|	-	0.038	13.9	0.3	8.6	6.5	0.0	2.3	1	1	1	2	2	2	0	Ribbon-helix-helix	protein,	copG	family
GIDE	PF12483.8	gi|389848479|ref|YP_006350717.1|	-	7.5e-06	25.4	1.2	8.9e-05	21.9	0.0	2.3	3	0	0	3	3	3	2	E3	Ubiquitin	ligase
Mor	PF08765.11	gi|389848483|ref|YP_006350721.1|	-	0.087	12.8	0.0	0.13	12.2	0.0	1.7	1	1	0	1	1	1	0	Mor	transcription	activator	family
SMC_ScpB	PF04079.16	gi|389848483|ref|YP_006350721.1|	-	0.14	11.8	0.0	0.2	11.3	0.0	1.2	1	0	0	1	1	1	0	Segregation	and	condensation	complex	subunit	ScpB
DMAP_binding	PF06464.11	gi|389848483|ref|YP_006350721.1|	-	0.2	12.5	3.1	0.27	12.1	0.1	2.2	2	1	1	3	3	3	0	DMAP1-binding	Domain
CytB6-F_Fe-S	PF08802.10	gi|389848484|ref|YP_006350722.1|	-	0.033	14.2	0.1	0.054	13.5	0.1	1.3	1	0	0	1	1	1	0	Cytochrome	B6-F	complex	Fe-S	subunit
HTH_27	PF13463.6	gi|389848485|ref|YP_006350723.1|	-	6.7e-06	26.5	0.1	1e-05	25.9	0.1	1.3	1	0	0	1	1	1	1	Winged	helix	DNA-binding	domain
MarR	PF01047.22	gi|389848485|ref|YP_006350723.1|	-	1.3e-05	25.0	0.1	1.8e-05	24.6	0.1	1.2	1	0	0	1	1	1	1	MarR	family
HTH_20	PF12840.7	gi|389848485|ref|YP_006350723.1|	-	2.1e-05	24.5	0.4	3.6e-05	23.7	0.4	1.4	1	0	0	1	1	1	1	Helix-turn-helix	domain
MarR_2	PF12802.7	gi|389848485|ref|YP_006350723.1|	-	6.6e-05	22.7	0.2	0.00013	21.8	0.2	1.4	1	0	0	1	1	1	1	MarR	family
TrmB	PF01978.19	gi|389848485|ref|YP_006350723.1|	-	0.0035	17.2	0.0	0.0045	16.8	0.0	1.3	1	0	0	1	1	1	1	Sugar-specific	transcriptional	regulator	TrmB
Phage_rep_org_N	PF09681.10	gi|389848485|ref|YP_006350723.1|	-	0.014	15.4	0.0	0.02	14.8	0.0	1.2	1	0	0	1	1	1	0	N-terminal	phage	replisome	organiser	(Phage_rep_org_N)
HTH_24	PF13412.6	gi|389848485|ref|YP_006350723.1|	-	0.023	14.2	0.7	0.034	13.7	0.7	1.3	1	0	0	1	1	1	0	Winged	helix-turn-helix	DNA-binding
DUF2250	PF10007.9	gi|389848485|ref|YP_006350723.1|	-	0.1	12.7	0.0	0.15	12.2	0.0	1.2	1	0	0	1	1	1	0	Uncharacterized	protein	conserved	in	archaea	(DUF2250)
DDE_Tnp_IS240	PF13610.6	gi|389848486|ref|YP_006350724.1|	-	6.6e-20	71.8	0.2	9.7e-20	71.2	0.0	1.4	2	0	0	2	2	2	1	DDE	domain
rve	PF00665.26	gi|389848486|ref|YP_006350724.1|	-	0.0073	16.5	0.0	0.01	16.0	0.0	1.3	1	0	0	1	1	1	1	Integrase	core	domain
rve_3	PF13683.6	gi|389848487|ref|YP_006350725.1|	-	4.7e-09	35.9	0.0	4.7e-09	35.9	0.0	1.0	1	0	0	1	1	1	1	Integrase	core	domain
DUF2384	PF09722.10	gi|389848487|ref|YP_006350725.1|	-	0.028	14.5	0.1	0.099	12.7	0.0	1.8	2	0	0	2	2	2	0	Protein	of	unknown	function	(DUF2384)
rve_2	PF13333.6	gi|389848487|ref|YP_006350725.1|	-	0.098	12.8	0.0	0.1	12.8	0.0	1.1	1	0	0	1	1	1	0	Integrase	core	domain
SBP_bac_5	PF00496.22	gi|389848489|ref|YP_006350727.1|	-	4.2e-74	249.8	4.9	5.1e-74	249.5	4.9	1.1	1	0	0	1	1	1	1	Bacterial	extracellular	solute-binding	proteins,	family	5	Middle
TAT_signal	PF10518.9	gi|389848489|ref|YP_006350727.1|	-	0.00064	19.5	2.2	0.0013	18.4	2.2	1.5	1	0	0	1	1	1	1	TAT	(twin-arginine	translocation)	pathway	signal	sequence
Pox_C7_F8A	PF03287.14	gi|389848489|ref|YP_006350727.1|	-	0.067	13.2	0.0	0.14	12.1	0.0	1.5	1	0	0	1	1	1	0	Poxvirus	C7/F8A	protein
BPD_transp_1	PF00528.22	gi|389848490|ref|YP_006350728.1|	-	9.6e-37	126.5	12.0	9.6e-37	126.5	12.0	1.7	2	0	0	2	2	2	1	Binding-protein-dependent	transport	system	inner	membrane	component
Ninjurin	PF04923.12	gi|389848490|ref|YP_006350728.1|	-	1.9	8.5	4.9	0.96	9.4	0.7	2.5	2	1	0	2	2	2	0	Ninjurin
BPD_transp_1	PF00528.22	gi|389848491|ref|YP_006350729.1|	-	7.7e-26	91.0	9.1	7.7e-26	91.0	9.1	2.0	2	1	0	2	2	2	1	Binding-protein-dependent	transport	system	inner	membrane	component
OppC_N	PF12911.7	gi|389848491|ref|YP_006350729.1|	-	5.1e-15	55.2	0.1	5.1e-15	55.2	0.1	2.7	3	0	0	3	3	3	1	N-terminal	TM	domain	of	oligopeptide	transport	permease	C
DUF3927	PF13064.6	gi|389848491|ref|YP_006350729.1|	-	1.1	9.3	4.5	0.37	10.8	0.7	2.2	2	0	0	2	2	2	0	Protein	of	unknown	function	(DUF3927)
E1-E2_ATPase	PF00122.20	gi|389848491|ref|YP_006350729.1|	-	1.8	8.0	5.3	3.3	7.2	2.8	2.4	2	1	0	2	2	2	0	E1-E2	ATPase
Ctr	PF04145.15	gi|389848491|ref|YP_006350729.1|	-	7.8	7.1	6.4	1.8	9.2	0.3	2.6	2	1	1	3	3	3	0	Ctr	copper	transporter	family
ABC_tran	PF00005.27	gi|389848492|ref|YP_006350730.1|	-	2.2e-27	96.2	0.0	3.1e-27	95.8	0.0	1.2	1	0	0	1	1	1	1	ABC	transporter
oligo_HPY	PF08352.12	gi|389848492|ref|YP_006350730.1|	-	2.5e-21	75.9	0.2	4.6e-21	75.1	0.2	1.5	1	0	0	1	1	1	1	Oligopeptide/dipeptide	transporter,	C-terminal	region
AAA_22	PF13401.6	gi|389848492|ref|YP_006350730.1|	-	1e-05	25.8	0.3	0.029	14.7	0.0	2.2	2	0	0	2	2	2	2	AAA	domain
SMC_N	PF02463.19	gi|389848492|ref|YP_006350730.1|	-	0.00044	19.8	0.6	0.008	15.6	0.6	2.1	1	1	0	1	1	1	1	RecF/RecN/SMC	N	terminal	domain
ATP-synt_ab	PF00006.25	gi|389848492|ref|YP_006350730.1|	-	0.0063	16.2	0.0	0.0093	15.6	0.0	1.3	1	0	0	1	1	1	1	ATP	synthase	alpha/beta	family,	nucleotide-binding	domain
AAA_7	PF12775.7	gi|389848492|ref|YP_006350730.1|	-	0.011	15.3	0.0	0.032	13.7	0.1	1.7	2	0	0	2	2	2	0	P-loop	containing	dynein	motor	region
DUF87	PF01935.17	gi|389848492|ref|YP_006350730.1|	-	0.013	15.6	0.0	0.024	14.7	0.0	1.3	1	0	0	1	1	1	0	Helicase	HerA,	central	domain
NACHT	PF05729.12	gi|389848492|ref|YP_006350730.1|	-	0.013	15.4	0.0	0.21	11.5	0.0	2.2	2	0	0	2	2	2	0	NACHT	domain
NTPase_1	PF03266.15	gi|389848492|ref|YP_006350730.1|	-	0.014	15.3	0.1	1.2	9.1	0.0	2.3	2	0	0	2	2	2	0	NTPase
AAA_16	PF13191.6	gi|389848492|ref|YP_006350730.1|	-	0.016	15.6	1.7	0.076	13.4	0.1	2.3	2	1	0	3	3	3	0	AAA	ATPase	domain
NB-ARC	PF00931.22	gi|389848492|ref|YP_006350730.1|	-	0.028	13.6	0.0	0.32	10.1	0.0	1.9	2	0	0	2	2	2	0	NB-ARC	domain
AAA	PF00004.29	gi|389848492|ref|YP_006350730.1|	-	0.032	14.7	0.3	0.28	11.6	0.3	2.3	1	1	0	1	1	1	0	ATPase	family	associated	with	various	cellular	activities	(AAA)
AAA_5	PF07728.14	gi|389848492|ref|YP_006350730.1|	-	0.032	14.2	0.1	0.6	10.1	0.0	2.2	2	0	0	2	2	2	0	AAA	domain	(dynein-related	subfamily)
T2SSE	PF00437.20	gi|389848492|ref|YP_006350730.1|	-	0.11	11.5	0.0	0.17	10.9	0.0	1.3	1	0	0	1	1	1	0	Type	II/IV	secretion	system	protein
AAA_29	PF13555.6	gi|389848492|ref|YP_006350730.1|	-	0.12	12.1	0.0	0.23	11.2	0.0	1.4	1	0	0	1	1	1	0	P-loop	containing	region	of	AAA	domain
RNA_helicase	PF00910.22	gi|389848492|ref|YP_006350730.1|	-	0.14	12.5	0.0	0.44	10.9	0.0	1.8	2	0	0	2	2	2	0	RNA	helicase
PRK	PF00485.18	gi|389848492|ref|YP_006350730.1|	-	0.18	11.5	0.0	0.33	10.7	0.0	1.4	1	0	0	1	1	1	0	Phosphoribulokinase	/	Uridine	kinase	family
AAA_30	PF13604.6	gi|389848492|ref|YP_006350730.1|	-	0.22	11.2	0.6	1.3	8.7	0.1	2.0	2	0	0	2	2	2	0	AAA	domain
AAA_25	PF13481.6	gi|389848492|ref|YP_006350730.1|	-	0.25	10.9	0.9	4.4	6.8	0.1	2.3	2	0	0	2	2	2	0	AAA	domain
ABC_tran	PF00005.27	gi|389848493|ref|YP_006350731.1|	-	2.5e-36	125.2	0.0	3.6e-36	124.7	0.0	1.2	1	0	0	1	1	1	1	ABC	transporter
oligo_HPY	PF08352.12	gi|389848493|ref|YP_006350731.1|	-	5.8e-18	65.2	1.7	9.8e-18	64.4	1.7	1.4	1	0	0	1	1	1	1	Oligopeptide/dipeptide	transporter,	C-terminal	region
AAA_21	PF13304.6	gi|389848493|ref|YP_006350731.1|	-	5.1e-09	36.4	4.1	3.5e-06	27.0	0.4	2.3	1	1	0	2	2	2	2	AAA	domain,	putative	AbiEii	toxin,	Type	IV	TA	system
SMC_N	PF02463.19	gi|389848493|ref|YP_006350731.1|	-	3e-07	30.1	0.0	5e-07	29.4	0.0	1.3	1	0	0	1	1	1	1	RecF/RecN/SMC	N	terminal	domain
AAA_16	PF13191.6	gi|389848493|ref|YP_006350731.1|	-	9e-05	22.9	0.5	0.00028	21.3	0.5	1.9	1	1	1	2	2	2	1	AAA	ATPase	domain
AAA_22	PF13401.6	gi|389848493|ref|YP_006350731.1|	-	0.00038	20.8	0.5	0.002	18.4	0.5	2.1	1	1	0	1	1	1	1	AAA	domain
AAA_29	PF13555.6	gi|389848493|ref|YP_006350731.1|	-	0.00056	19.6	0.6	0.0011	18.6	0.6	1.4	1	0	0	1	1	1	1	P-loop	containing	region	of	AAA	domain
AAA	PF00004.29	gi|389848493|ref|YP_006350731.1|	-	0.0032	17.9	0.0	0.085	13.3	0.0	2.3	1	1	0	1	1	1	1	ATPase	family	associated	with	various	cellular	activities	(AAA)
RsgA_GTPase	PF03193.16	gi|389848493|ref|YP_006350731.1|	-	0.015	15.2	0.0	0.023	14.6	0.0	1.3	1	0	0	1	1	1	0	RsgA	GTPase
AAA_25	PF13481.6	gi|389848493|ref|YP_006350731.1|	-	0.016	14.8	0.3	0.11	12.1	0.3	2.2	1	1	0	1	1	1	0	AAA	domain
DUF3645	PF12359.8	gi|389848493|ref|YP_006350731.1|	-	0.023	14.0	0.1	0.06	12.8	0.1	1.7	1	0	0	1	1	1	0	Protein	of	unknown	function	(DUF3645)
AAA_5	PF07728.14	gi|389848493|ref|YP_006350731.1|	-	0.024	14.6	0.3	0.19	11.7	0.0	2.5	3	0	0	3	3	3	0	AAA	domain	(dynein-related	subfamily)
Zeta_toxin	PF06414.12	gi|389848493|ref|YP_006350731.1|	-	0.03	13.6	0.1	0.072	12.4	0.1	1.6	2	0	0	2	2	2	0	Zeta	toxin
IstB_IS21	PF01695.17	gi|389848493|ref|YP_006350731.1|	-	0.041	13.6	0.1	0.15	11.8	0.0	1.8	2	0	0	2	2	2	0	IstB-like	ATP	binding	protein
AAA_24	PF13479.6	gi|389848493|ref|YP_006350731.1|	-	0.053	13.2	0.0	0.081	12.6	0.0	1.3	1	0	0	1	1	1	0	AAA	domain
Sigma54_activat	PF00158.26	gi|389848493|ref|YP_006350731.1|	-	0.088	12.5	0.7	0.54	9.9	0.1	2.1	2	0	0	2	2	2	0	Sigma-54	interaction	domain
AAA_23	PF13476.6	gi|389848493|ref|YP_006350731.1|	-	0.18	12.3	0.0	0.21	12.0	0.0	1.2	1	0	0	1	1	1	0	AAA	domain
SbcCD_C	PF13558.6	gi|389848493|ref|YP_006350731.1|	-	0.19	12.0	0.1	2.5	8.4	0.1	2.5	1	1	0	1	1	1	0	Putative	exonuclease	SbcCD,	C	subunit
NACHT	PF05729.12	gi|389848493|ref|YP_006350731.1|	-	0.2	11.6	0.8	0.39	10.6	0.8	1.5	1	0	0	1	1	1	0	NACHT	domain
DUF87	PF01935.17	gi|389848493|ref|YP_006350731.1|	-	0.24	11.5	0.9	0.49	10.5	0.9	1.5	1	0	0	1	1	1	0	Helicase	HerA,	central	domain
TniB	PF05621.11	gi|389848493|ref|YP_006350731.1|	-	0.24	10.8	0.4	26	4.2	0.0	2.7	2	1	1	3	3	3	0	Bacterial	TniB	protein
AAA_33	PF13671.6	gi|389848493|ref|YP_006350731.1|	-	0.54	10.4	2.8	0.66	10.1	0.5	2.1	2	1	0	2	2	2	0	AAA	domain
DUF917	PF06032.12	gi|389848494|ref|YP_006350732.1|	-	1.8e-132	441.5	1.1	2e-132	441.3	1.1	1.0	1	0	0	1	1	1	1	Protein	of	unknown	function	(DUF917)
Hydant_A_N	PF05378.13	gi|389848495|ref|YP_006350733.1|	-	2.3e-43	148.0	5.6	6e-41	140.1	0.5	2.6	2	0	0	2	2	2	2	Hydantoinase/oxoprolinase	N-terminal	region
Hydantoinase_A	PF01968.18	gi|389848495|ref|YP_006350733.1|	-	2.1e-34	119.2	17.6	1.1e-33	116.7	6.6	3.1	2	1	1	3	3	3	3	Hydantoinase/oxoprolinase
MutL	PF13941.6	gi|389848495|ref|YP_006350733.1|	-	2.2e-08	33.1	5.0	0.00027	19.7	0.1	3.2	3	0	0	3	3	3	2	MutL	protein
BcrAD_BadFG	PF01869.20	gi|389848495|ref|YP_006350733.1|	-	5.1e-05	22.9	1.0	5.1e-05	22.9	1.0	2.4	2	1	0	2	2	2	1	BadF/BadG/BcrA/BcrD	ATPase	family
StbA	PF06406.11	gi|389848495|ref|YP_006350733.1|	-	0.00041	19.7	2.7	0.034	13.4	0.0	2.6	3	0	0	3	3	3	2	StbA	protein
ROK	PF00480.20	gi|389848495|ref|YP_006350733.1|	-	0.0041	16.6	0.1	0.019	14.4	0.1	2.2	1	0	0	1	1	1	1	ROK	family
DEDD_Tnp_IS110	PF01548.17	gi|389848495|ref|YP_006350733.1|	-	0.13	12.1	0.1	0.22	11.4	0.1	1.4	1	0	0	1	1	1	0	Transposase
Actin	PF00022.19	gi|389848495|ref|YP_006350733.1|	-	0.16	10.5	0.3	0.31	9.6	0.3	1.4	1	0	0	1	1	1	0	Actin
FtsA	PF14450.6	gi|389848495|ref|YP_006350733.1|	-	0.39	11.2	8.9	4.7	7.7	1.4	3.5	2	2	0	2	2	2	0	Cell	division	protein	FtsA
DUF917	PF06032.12	gi|389848496|ref|YP_006350734.1|	-	3.5e-128	427.3	0.1	3.9e-128	427.2	0.1	1.0	1	0	0	1	1	1	1	Protein	of	unknown	function	(DUF917)
DUF917	PF06032.12	gi|389848497|ref|YP_006350735.1|	-	3.3e-122	407.7	0.0	3.8e-122	407.5	0.0	1.0	1	0	0	1	1	1	1	Protein	of	unknown	function	(DUF917)
HTH_AsnC-type	PF13404.6	gi|389848498|ref|YP_006350736.1|	-	1.1e-13	50.8	0.7	1.9e-13	50.0	0.7	1.4	1	0	0	1	1	1	1	AsnC-type	helix-turn-helix	domain
HTH_24	PF13412.6	gi|389848498|ref|YP_006350736.1|	-	1.1e-12	47.3	0.6	2.4e-12	46.2	0.2	1.8	2	0	0	2	2	2	1	Winged	helix-turn-helix	DNA-binding
HTH_11	PF08279.12	gi|389848498|ref|YP_006350736.1|	-	0.00011	22.1	0.2	0.00021	21.2	0.2	1.4	1	0	0	1	1	1	1	HTH	domain
HTH_20	PF12840.7	gi|389848498|ref|YP_006350736.1|	-	0.0004	20.4	0.5	0.0016	18.5	0.3	2.0	2	1	0	2	2	2	1	Helix-turn-helix	domain
HTH_Crp_2	PF13545.6	gi|389848498|ref|YP_006350736.1|	-	0.0018	18.2	0.2	0.0033	17.4	0.2	1.4	1	0	0	1	1	1	1	Crp-like	helix-turn-helix	domain
HTH_IclR	PF09339.10	gi|389848498|ref|YP_006350736.1|	-	0.0061	16.3	0.1	0.013	15.2	0.0	1.6	2	0	0	2	2	1	1	IclR	helix-turn-helix	domain
HTH_28	PF13518.6	gi|389848498|ref|YP_006350736.1|	-	0.012	15.7	0.1	0.02	15.0	0.1	1.3	1	0	0	1	1	1	0	Helix-turn-helix	domain
TFIIE_alpha	PF02002.17	gi|389848498|ref|YP_006350736.1|	-	0.016	15.0	0.1	0.041	13.8	0.1	1.6	1	1	0	1	1	1	0	TFIIE	alpha	subunit
MarR_2	PF12802.7	gi|389848498|ref|YP_006350736.1|	-	0.021	14.7	0.1	0.043	13.7	0.1	1.5	1	0	0	1	1	1	0	MarR	family
MarR	PF01047.22	gi|389848498|ref|YP_006350736.1|	-	0.03	14.2	0.0	0.22	11.5	0.0	2.0	2	0	0	2	2	2	0	MarR	family
HTH_DeoR	PF08220.12	gi|389848498|ref|YP_006350736.1|	-	0.046	13.5	0.1	0.095	12.5	0.1	1.5	1	0	0	1	1	1	0	DeoR-like	helix-turn-helix	domain
HTH_23	PF13384.6	gi|389848498|ref|YP_006350736.1|	-	0.051	13.4	0.1	0.09	12.6	0.1	1.3	1	0	0	1	1	1	0	Homeodomain-like	domain
HTH_7	PF02796.15	gi|389848498|ref|YP_006350736.1|	-	0.059	13.4	0.0	0.12	12.5	0.0	1.5	1	1	0	1	1	1	0	Helix-turn-helix	domain	of	resolvase
HTH_8	PF02954.19	gi|389848498|ref|YP_006350736.1|	-	0.062	13.1	0.6	0.14	11.9	0.6	1.7	1	1	0	1	1	1	0	Bacterial	regulatory	protein,	Fis	family
TrmB	PF01978.19	gi|389848498|ref|YP_006350736.1|	-	0.065	13.1	0.1	0.17	11.8	0.1	1.7	2	0	0	2	2	2	0	Sugar-specific	transcriptional	regulator	TrmB
DUF1655	PF07868.11	gi|389848498|ref|YP_006350736.1|	-	0.084	12.9	0.1	0.21	11.6	0.0	1.7	2	0	0	2	2	2	0	Protein	of	unknown	function	(DUF1655)
Put_DNA-bind_N	PF06971.13	gi|389848498|ref|YP_006350736.1|	-	0.095	12.7	0.0	0.28	11.2	0.0	1.8	1	0	0	1	1	1	0	Putative	DNA-binding	protein	N-terminus
HTH_10	PF04967.12	gi|389848499|ref|YP_006350737.1|	-	4.1e-17	61.7	1.3	4.8e-17	61.5	0.1	1.7	2	0	0	2	2	2	1	HTH	DNA	binding	domain
Sigma70_r4_2	PF08281.12	gi|389848499|ref|YP_006350737.1|	-	0.00028	20.5	0.5	0.21	11.3	0.1	2.4	2	0	0	2	2	2	2	Sigma-70,	region	4
Sigma70_r4	PF04545.16	gi|389848499|ref|YP_006350737.1|	-	0.0016	17.9	0.3	0.0032	16.9	0.3	1.5	1	0	0	1	1	1	1	Sigma-70,	region	4
HTH_5	PF01022.20	gi|389848499|ref|YP_006350737.1|	-	0.0041	17.0	0.0	0.012	15.5	0.0	1.7	2	0	0	2	2	2	1	Bacterial	regulatory	protein,	arsR	family
GerE	PF00196.19	gi|389848499|ref|YP_006350737.1|	-	0.0054	16.2	0.3	1.5	8.4	0.0	2.4	2	0	0	2	2	2	2	Bacterial	regulatory	proteins,	luxR	family
LexA_DNA_bind	PF01726.16	gi|389848499|ref|YP_006350737.1|	-	0.017	14.9	0.1	0.056	13.2	0.1	1.9	1	1	0	1	1	1	0	LexA	DNA	binding	domain
HTH_24	PF13412.6	gi|389848499|ref|YP_006350737.1|	-	0.035	13.7	0.0	0.058	13.0	0.0	1.4	1	0	0	1	1	1	0	Winged	helix-turn-helix	DNA-binding
Sigma70_r3	PF04539.16	gi|389848499|ref|YP_006350737.1|	-	0.04	14.0	0.2	0.34	11.0	0.1	2.4	2	1	0	2	2	2	0	Sigma-70	region	3
Lon_C	PF05362.13	gi|389848499|ref|YP_006350737.1|	-	0.081	12.5	0.0	0.13	11.8	0.0	1.3	1	0	0	1	1	1	0	Lon	protease	(S16)	C-terminal	proteolytic	domain
HTH_40	PF14493.6	gi|389848499|ref|YP_006350737.1|	-	0.098	13.1	0.1	0.2	12.2	0.1	1.4	1	0	0	1	1	1	0	Helix-turn-helix	domain
Glyco_transf_21	PF13506.6	gi|389848500|ref|YP_006350738.1|	-	3.5e-11	42.9	0.0	5.3e-11	42.3	0.0	1.3	1	0	0	1	1	1	1	Glycosyl	transferase	family	21
Glycos_transf_2	PF00535.26	gi|389848500|ref|YP_006350738.1|	-	4e-07	30.0	0.0	6.3e-07	29.4	0.0	1.3	1	0	0	1	1	1	1	Glycosyl	transferase	family	2
Glyco_tranf_2_3	PF13641.6	gi|389848500|ref|YP_006350738.1|	-	0.0066	16.4	0.0	0.009	15.9	0.0	1.2	1	0	0	1	1	1	1	Glycosyltransferase	like	family	2
Glyco_trans_2_3	PF13632.6	gi|389848500|ref|YP_006350738.1|	-	0.21	11.5	4.7	0.49	10.3	4.6	1.6	1	1	0	1	1	1	0	Glycosyl	transferase	family	group	2
Abhydrolase_1	PF00561.20	gi|389848502|ref|YP_006350740.1|	-	2.6e-19	69.9	0.1	4.4e-16	59.3	0.0	2.2	2	0	0	2	2	2	2	alpha/beta	hydrolase	fold
Abhydrolase_6	PF12697.7	gi|389848502|ref|YP_006350740.1|	-	3.1e-18	67.2	0.0	5.3e-18	66.4	0.0	1.3	1	0	0	1	1	1	1	Alpha/beta	hydrolase	family
Hydrolase_4	PF12146.8	gi|389848502|ref|YP_006350740.1|	-	1.9e-17	63.3	0.0	1.4e-14	53.9	0.0	2.1	2	0	0	2	2	2	2	Serine	aminopeptidase,	S33
Peptidase_S28	PF05577.12	gi|389848502|ref|YP_006350740.1|	-	0.0022	16.9	0.0	0.0037	16.1	0.0	1.3	1	0	0	1	1	1	1	Serine	carboxypeptidase	S28
PGAP1	PF07819.13	gi|389848502|ref|YP_006350740.1|	-	0.02	14.6	0.0	0.033	13.9	0.0	1.4	1	0	0	1	1	1	0	PGAP1-like	protein
Ser_hydrolase	PF06821.13	gi|389848502|ref|YP_006350740.1|	-	0.023	14.5	0.0	0.037	13.9	0.0	1.3	1	0	0	1	1	1	0	Serine	hydrolase
DUF1749	PF08538.10	gi|389848502|ref|YP_006350740.1|	-	0.034	13.2	0.0	0.13	11.4	0.0	1.8	2	0	0	2	2	2	0	Protein	of	unknown	function	(DUF1749)
Esterase	PF00756.20	gi|389848502|ref|YP_006350740.1|	-	0.17	11.5	0.0	0.25	11.0	0.0	1.3	1	0	0	1	1	1	0	Putative	esterase
BAAT_C	PF08840.11	gi|389848502|ref|YP_006350740.1|	-	0.22	11.4	0.0	2.3	8.1	0.0	2.0	2	0	0	2	2	2	0	BAAT	/	Acyl-CoA	thioester	hydrolase	C	terminal
Glyco_hydro_31	PF01055.26	gi|389848503|ref|YP_006350741.1|	-	8.8e-139	463.5	3.6	1.2e-138	463.0	3.6	1.2	1	0	0	1	1	1	1	Glycosyl	hydrolases	family	31
Gal_mutarotas_2	PF13802.6	gi|389848503|ref|YP_006350741.1|	-	6.6e-17	61.6	3.1	1.9e-16	60.1	1.9	2.6	2	0	0	2	2	2	1	Galactose	mutarotase-like
DUF4968	PF16338.5	gi|389848503|ref|YP_006350741.1|	-	8.7e-12	45.2	0.0	2.9e-11	43.5	0.0	1.9	1	0	0	1	1	1	1	Domain	of	unknown	function	(DUF4968)
DUF5110	PF17137.4	gi|389848503|ref|YP_006350741.1|	-	6.1e-11	42.4	3.5	2.1e-10	40.7	3.5	2.0	1	0	0	1	1	1	1	Domain	of	unknown	function	(DUF5110)
TAT_signal	PF10518.9	gi|389848503|ref|YP_006350741.1|	-	0.26	11.2	4.2	0.4	10.6	4.2	1.3	1	0	0	1	1	1	0	TAT	(twin-arginine	translocation)	pathway	signal	sequence
ATC_hydrolase	PF14196.6	gi|389848504|ref|YP_006350742.1|	-	2e-14	54.6	0.1	2.6e-14	54.2	0.1	1.1	1	0	0	1	1	1	1	L-2-amino-thiazoline-4-carboxylic	acid	hydrolase
HTH_10	PF04967.12	gi|389848506|ref|YP_006350744.1|	-	2.2e-13	49.8	0.1	3.8e-13	49.0	0.1	1.4	1	0	0	1	1	1	1	HTH	DNA	binding	domain
HTH_24	PF13412.6	gi|389848506|ref|YP_006350744.1|	-	0.00091	18.7	0.0	0.0016	17.9	0.0	1.4	1	0	0	1	1	1	1	Winged	helix-turn-helix	DNA-binding
Sigma70_r4	PF04545.16	gi|389848506|ref|YP_006350744.1|	-	0.0072	15.8	0.0	0.019	14.4	0.0	1.8	1	1	0	1	1	1	1	Sigma-70,	region	4
Sigma70_r4_2	PF08281.12	gi|389848506|ref|YP_006350744.1|	-	0.014	15.1	0.1	0.028	14.1	0.1	1.5	1	0	0	1	1	1	0	Sigma-70,	region	4
HrcA_DNA-bdg	PF03444.15	gi|389848506|ref|YP_006350744.1|	-	0.028	14.1	0.0	0.044	13.4	0.0	1.3	1	0	0	1	1	1	0	Winged	helix-turn-helix	transcription	repressor,	HrcA	DNA-binding
HTH_AsnC-type	PF13404.6	gi|389848506|ref|YP_006350744.1|	-	0.043	13.6	0.1	0.08	12.8	0.1	1.4	1	0	0	1	1	1	0	AsnC-type	helix-turn-helix	domain
MarR_2	PF12802.7	gi|389848506|ref|YP_006350744.1|	-	0.073	13.0	0.1	0.21	11.5	0.1	1.8	1	1	0	1	1	1	0	MarR	family
HTH_38	PF13936.6	gi|389848506|ref|YP_006350744.1|	-	0.1	12.4	0.1	0.2	11.5	0.1	1.4	1	0	0	1	1	1	0	Helix-turn-helix	domain
PadR	PF03551.14	gi|389848508|ref|YP_006350746.1|	-	1.1e-16	60.5	0.5	1.3e-16	60.3	0.5	1.1	1	0	0	1	1	1	1	Transcriptional	regulator	PadR-like	family
HTH_27	PF13463.6	gi|389848508|ref|YP_006350746.1|	-	0.00013	22.4	0.0	0.00014	22.3	0.0	1.2	1	0	0	1	1	1	1	Winged	helix	DNA-binding	domain
DUF1495	PF07381.11	gi|389848508|ref|YP_006350746.1|	-	0.0013	18.6	0.0	0.0019	18.0	0.0	1.2	1	0	0	1	1	1	1	Winged	helix	DNA-binding	domain	(DUF1495)
HTH_45	PF14947.6	gi|389848508|ref|YP_006350746.1|	-	0.0015	18.5	0.0	0.0024	17.8	0.0	1.4	1	1	0	1	1	1	1	Winged	helix-turn-helix
HTH_34	PF13601.6	gi|389848508|ref|YP_006350746.1|	-	0.013	15.7	0.0	0.018	15.2	0.0	1.2	1	0	0	1	1	1	0	Winged	helix	DNA-binding	domain
TFIIB	PF00382.19	gi|389848509|ref|YP_006350747.1|	-	1.7e-21	76.0	1.3	4.7e-12	45.8	0.3	2.1	2	0	0	2	2	2	2	Transcription	factor	TFIIB	repeat
Cyclin_C	PF02984.19	gi|389848509|ref|YP_006350747.1|	-	0.002	18.2	0.1	0.058	13.5	0.0	2.0	2	0	0	2	2	2	1	Cyclin,	C-terminal	domain
HTH_24	PF13412.6	gi|389848509|ref|YP_006350747.1|	-	0.03	13.9	0.0	0.085	12.4	0.0	1.7	1	0	0	1	1	1	0	Winged	helix-turn-helix	DNA-binding
Sortilin-Vps10	PF15902.5	gi|389848511|ref|YP_006350749.1|	-	1.1e-13	50.8	0.0	2.4e-05	23.4	0.0	3.2	1	1	2	3	3	3	3	Sortilin,	neurotensin	receptor	3,
BNR	PF02012.20	gi|389848511|ref|YP_006350749.1|	-	5.9e-10	37.6	11.0	0.27	11.4	0.1	6.0	5	0	0	5	5	5	4	BNR/Asp-box	repeat
BNR_2	PF13088.6	gi|389848511|ref|YP_006350749.1|	-	2.9e-06	26.8	2.0	0.24	10.7	1.1	3.5	1	1	2	3	3	3	2	BNR	repeat-like	domain
PSII_BNR	PF14870.6	gi|389848511|ref|YP_006350749.1|	-	1.2e-05	24.7	0.9	5.5	6.1	0.0	4.1	2	1	1	4	4	4	3	Photosynthesis	system	II	assembly	factor	YCF48
DUF4185	PF13810.6	gi|389848511|ref|YP_006350749.1|	-	4.1e-05	23.0	2.6	1.5	8.0	0.1	4.2	1	1	2	4	4	4	3	Domain	of	unknown	function	(DUF4185)
PQQ_3	PF13570.6	gi|389848511|ref|YP_006350749.1|	-	0.0009	19.7	0.5	2.7	8.6	0.0	3.6	3	1	0	3	3	3	2	PQQ-like	domain
BNR_6	PF15899.5	gi|389848511|ref|YP_006350749.1|	-	0.009	16.0	6.2	0.054	13.6	0.0	4.4	5	0	0	5	5	5	1	BNR-Asp	box	repeat
SPASM	PF13186.6	gi|389848511|ref|YP_006350749.1|	-	0.026	15.0	0.0	0.85	10.2	0.0	2.8	3	0	0	3	3	3	0	Iron-sulfur	cluster-binding	domain
BNR_3	PF13859.6	gi|389848511|ref|YP_006350749.1|	-	0.28	10.5	3.4	2.3	7.4	0.1	3.2	3	1	0	4	4	4	0	BNR	repeat-like	domain
DUF4440	PF14534.6	gi|389848512|ref|YP_006350750.1|	-	5.2e-09	36.5	0.2	6.9e-09	36.1	0.2	1.1	1	0	0	1	1	1	1	Domain	of	unknown	function	(DUF4440)
SnoaL_2	PF12680.7	gi|389848512|ref|YP_006350750.1|	-	1.4e-08	35.3	0.4	2e-08	34.8	0.4	1.3	1	0	0	1	1	1	1	SnoaL-like	domain
SnoaL_4	PF13577.6	gi|389848512|ref|YP_006350750.1|	-	5.7e-06	26.5	0.4	8.1e-06	26.0	0.4	1.3	1	1	0	1	1	1	1	SnoaL-like	domain
SnoaL_3	PF13474.6	gi|389848512|ref|YP_006350750.1|	-	7.4e-05	23.0	0.2	0.00014	22.1	0.2	1.4	1	1	0	1	1	1	1	SnoaL-like	domain
CaMKII_AD	PF08332.10	gi|389848512|ref|YP_006350750.1|	-	0.00057	20.0	0.1	0.00079	19.6	0.1	1.1	1	0	0	1	1	1	1	Calcium/calmodulin	dependent	protein	kinase	II	association	domain
DUF1348	PF07080.11	gi|389848512|ref|YP_006350750.1|	-	0.018	14.9	0.0	0.032	14.2	0.0	1.3	1	0	0	1	1	1	0	Protein	of	unknown	function	(DUF1348)
PEP-utilisers_N	PF05524.13	gi|389848512|ref|YP_006350750.1|	-	0.022	14.9	0.5	0.047	13.8	0.3	1.6	2	0	0	2	2	2	0	PEP-utilising	enzyme,	N-terminal
SH3_1	PF00018.28	gi|389848512|ref|YP_006350750.1|	-	0.024	14.3	0.0	0.052	13.2	0.0	1.5	1	0	0	1	1	1	0	SH3	domain
SRP68	PF16969.5	gi|389848512|ref|YP_006350750.1|	-	0.057	12.4	0.0	0.057	12.4	0.0	1.1	1	0	0	1	1	1	0	RNA-binding	signal	recognition	particle	68
NTF2	PF02136.20	gi|389848512|ref|YP_006350750.1|	-	0.12	13.0	0.0	0.25	11.9	0.0	1.6	1	1	0	1	1	1	0	Nuclear	transport	factor	2	(NTF2)	domain
Lumazine_bd_2	PF12893.7	gi|389848512|ref|YP_006350750.1|	-	0.19	12.4	1.3	7.5	7.3	1.3	2.4	1	1	0	1	1	1	0	Putative	lumazine-binding
zf-AN1	PF01428.16	gi|389848513|ref|YP_006350751.1|	-	0.038	14.1	1.9	0.038	14.1	1.9	1.5	2	0	0	2	2	2	0	AN1-like	Zinc	finger
ODV-E18	PF10717.9	gi|389848514|ref|YP_006350752.1|	-	0.1	12.5	0.1	0.1	12.5	0.1	1.6	2	0	0	2	2	2	0	Occlusion-derived	virus	envelope	protein	ODV-E18
Polbeta	PF18765.1	gi|389848515|ref|YP_006350753.1|	-	4e-10	39.6	0.0	5.8e-10	39.1	0.0	1.3	1	0	0	1	1	1	1	Polymerase	beta,	Nucleotidyltransferase
NTP_transf_2	PF01909.23	gi|389848515|ref|YP_006350753.1|	-	0.00026	21.2	0.1	0.0004	20.6	0.1	1.6	1	1	0	1	1	1	1	Nucleotidyltransferase	domain
HEAT_2	PF13646.6	gi|389848517|ref|YP_006350755.1|	-	7.2e-30	103.2	52.1	5.1e-09	36.4	4.3	8.4	2	2	7	9	9	9	7	HEAT	repeats
Adaptin_N	PF01602.20	gi|389848517|ref|YP_006350755.1|	-	6.9e-21	74.4	0.0	0.0001	21.0	0.0	5.5	1	1	2	5	5	5	4	Adaptin	N	terminal	region
HEAT	PF02985.22	gi|389848517|ref|YP_006350755.1|	-	1.1e-20	71.9	16.9	0.00024	21.1	0.1	9.8	11	0	0	11	11	10	4	HEAT	repeat
Cnd1	PF12717.7	gi|389848517|ref|YP_006350755.1|	-	5.2e-20	72.1	0.2	0.0023	18.0	0.1	5.4	3	1	2	5	5	5	4	non-SMC	mitotic	condensation	complex	subunit	1
HEAT_EZ	PF13513.6	gi|389848517|ref|YP_006350755.1|	-	1.5e-18	66.9	45.1	7.9e-06	26.3	2.7	11.1	6	4	8	14	14	14	7	HEAT-like	repeat
DNA_alkylation	PF08713.11	gi|389848517|ref|YP_006350755.1|	-	1e-05	25.4	0.8	1.6	8.4	0.1	4.2	3	1	1	4	4	4	2	DNA	alkylation	repair	enzyme
HEAT_PBS	PF03130.16	gi|389848517|ref|YP_006350755.1|	-	1.4e-05	25.3	52.6	0.05	14.3	1.0	11.2	14	0	0	14	14	8	4	PBS	lyase	HEAT-like	repeat
Vac14_Fab1_bd	PF12755.7	gi|389848517|ref|YP_006350755.1|	-	0.00056	20.4	0.1	9.2	6.9	0.0	4.3	4	1	2	6	6	4	0	Vacuolar	14	Fab1-binding	region
Arm	PF00514.23	gi|389848517|ref|YP_006350755.1|	-	0.0033	17.4	9.7	2.4	8.3	0.0	6.9	8	0	0	8	8	6	1	Armadillo/beta-catenin-like	repeat
CDC37_N	PF03234.14	gi|389848517|ref|YP_006350755.1|	-	0.0058	17.5	0.0	0.019	15.8	0.0	1.9	1	0	0	1	1	1	1	Cdc37	N	terminal	kinase	binding
Ecm29	PF13001.7	gi|389848517|ref|YP_006350755.1|	-	0.006	15.3	0.0	17	3.9	0.0	4.2	4	1	0	4	4	4	0	Proteasome	stabiliser
MMS19_N	PF14500.6	gi|389848517|ref|YP_006350755.1|	-	0.0095	15.5	3.1	1.5	8.3	0.2	4.0	3	2	1	4	4	4	1	Dos2-interacting	transcription	regulator	of	RNA-Pol-II
DUF3385	PF11865.8	gi|389848517|ref|YP_006350755.1|	-	0.018	14.9	0.2	40	4.1	0.0	4.3	3	2	1	4	4	4	0	Domain	of	unknown	function	(DUF3385)
dsDNA_bind	PF01984.20	gi|389848517|ref|YP_006350755.1|	-	0.02	15.1	2.4	38	4.6	0.0	5.5	5	2	1	7	7	7	0	Double-stranded	DNA-binding	domain
TIP120	PF08623.10	gi|389848517|ref|YP_006350755.1|	-	0.03	14.1	0.2	9.5	6.0	0.0	3.3	3	1	0	3	3	3	0	TATA-binding	protein	interacting	(TIP20)
ImpA_N	PF06812.12	gi|389848517|ref|YP_006350755.1|	-	0.04	14.0	0.1	0.64	10.1	0.1	2.8	3	0	0	3	3	2	0	ImpA,	N-terminal,	type	VI	secretion	system
DUF5578	PF17741.1	gi|389848517|ref|YP_006350755.1|	-	0.056	12.8	0.0	4.4	6.6	0.0	3.2	3	1	0	3	3	3	0	Family	of	unknown	function	(DUF5578)
MMS19_C	PF12460.8	gi|389848517|ref|YP_006350755.1|	-	0.08	12.0	0.4	8.8	5.3	0.3	2.6	2	1	0	2	2	2	0	RNAPII	transcription	regulator	C-terminal
Cohesin_HEAT	PF12765.7	gi|389848517|ref|YP_006350755.1|	-	0.097	13.0	8.8	0.76	10.1	0.2	4.7	4	1	0	4	4	4	0	HEAT	repeat	associated	with	sister	chromatid	cohesion
API5	PF05918.11	gi|389848517|ref|YP_006350755.1|	-	0.19	10.5	7.0	6.7	5.4	0.1	4.3	3	2	1	5	5	5	0	Apoptosis	inhibitory	protein	5	(API5)
DUF4042	PF13251.6	gi|389848517|ref|YP_006350755.1|	-	0.33	10.6	1.0	36	4.0	0.1	3.7	2	1	2	4	4	4	0	Domain	of	unknown	function	(DUF4042)
FdhE	PF04216.12	gi|389848517|ref|YP_006350755.1|	-	0.77	9.6	5.7	1.5	8.7	0.6	2.9	3	0	0	3	3	3	0	Protein	involved	in	formate	dehydrogenase	formation
EF-hand_9	PF14658.6	gi|389848517|ref|YP_006350755.1|	-	3.1	8.2	5.2	6.1	7.2	0.2	3.5	3	1	1	4	4	4	0	EF-hand	domain
DUF3592	PF12158.8	gi|389848519|ref|YP_006350757.1|	-	1.8e-14	54.0	0.0	8.8e-14	51.8	0.0	2.2	1	1	0	1	1	1	1	Protein	of	unknown	function	(DUF3592)
GIDE	PF12483.8	gi|389848519|ref|YP_006350757.1|	-	7.6e-06	25.4	0.0	2.8e-05	23.5	0.0	1.9	1	1	0	1	1	1	1	E3	Ubiquitin	ligase
zinc_ribbon_5	PF13719.6	gi|389848519|ref|YP_006350757.1|	-	0.078	12.7	0.0	0.13	12.0	0.0	1.3	1	0	0	1	1	1	0	zinc-ribbon	domain
Imm5	PF14423.6	gi|389848521|ref|YP_006350759.1|	-	3e-28	99.3	0.0	4.4e-28	98.8	0.0	1.2	1	0	0	1	1	1	1	Immunity	protein	Imm5
GIDE	PF12483.8	gi|389848523|ref|YP_006350761.1|	-	0.0035	16.7	0.0	0.029	13.7	0.0	2.1	2	0	0	2	2	2	1	E3	Ubiquitin	ligase
HTH_5	PF01022.20	gi|389848525|ref|YP_006350763.1|	-	9e-09	35.1	0.4	1.3e-08	34.6	0.4	1.2	1	0	0	1	1	1	1	Bacterial	regulatory	protein,	arsR	family
HTH_20	PF12840.7	gi|389848525|ref|YP_006350763.1|	-	3.7e-08	33.3	0.1	5.1e-08	32.9	0.1	1.2	1	0	0	1	1	1	1	Helix-turn-helix	domain
MarR_2	PF12802.7	gi|389848525|ref|YP_006350763.1|	-	4.3e-08	32.9	0.0	6.2e-08	32.4	0.0	1.2	1	0	0	1	1	1	1	MarR	family
HTH_24	PF13412.6	gi|389848525|ref|YP_006350763.1|	-	1.7e-07	30.6	0.1	2.4e-07	30.2	0.1	1.2	1	0	0	1	1	1	1	Winged	helix-turn-helix	DNA-binding
HTH_IclR	PF09339.10	gi|389848525|ref|YP_006350763.1|	-	2.1e-07	30.6	0.3	7.5e-07	28.9	0.1	1.8	2	0	0	2	2	2	1	IclR	helix-turn-helix	domain
HTH_11	PF08279.12	gi|389848525|ref|YP_006350763.1|	-	1.6e-05	24.8	0.3	2.5e-05	24.1	0.3	1.3	1	0	0	1	1	1	1	HTH	domain
MarR	PF01047.22	gi|389848525|ref|YP_006350763.1|	-	9.4e-05	22.3	0.1	0.00013	21.8	0.1	1.2	1	0	0	1	1	1	1	MarR	family
TrmB	PF01978.19	gi|389848525|ref|YP_006350763.1|	-	0.00011	22.0	0.1	0.00014	21.7	0.1	1.2	1	0	0	1	1	1	1	Sugar-specific	transcriptional	regulator	TrmB
HTH_27	PF13463.6	gi|389848525|ref|YP_006350763.1|	-	0.00032	21.1	0.1	0.0004	20.8	0.1	1.2	1	0	0	1	1	1	1	Winged	helix	DNA-binding	domain
Fe_dep_repress	PF01325.19	gi|389848525|ref|YP_006350763.1|	-	0.00086	19.5	0.1	0.0013	18.9	0.1	1.3	1	0	0	1	1	1	1	Iron	dependent	repressor,	N-terminal	DNA	binding	domain
HTH_29	PF13551.6	gi|389848525|ref|YP_006350763.1|	-	0.0021	18.1	0.0	0.003	17.6	0.0	1.3	1	0	0	1	1	1	1	Winged	helix-turn	helix
GntR	PF00392.21	gi|389848525|ref|YP_006350763.1|	-	0.0024	17.5	0.1	0.0035	17.0	0.1	1.2	1	0	0	1	1	1	1	Bacterial	regulatory	proteins,	gntR	family
Rrf2	PF02082.20	gi|389848525|ref|YP_006350763.1|	-	0.0034	17.7	0.0	0.0044	17.3	0.0	1.2	1	0	0	1	1	1	1	Transcriptional	regulator
HTH_Crp_2	PF13545.6	gi|389848525|ref|YP_006350763.1|	-	0.0036	17.2	0.1	0.0044	17.0	0.1	1.2	1	0	0	1	1	1	1	Crp-like	helix-turn-helix	domain
Penicillinase_R	PF03965.16	gi|389848525|ref|YP_006350763.1|	-	0.0041	17.5	0.1	0.0049	17.2	0.1	1.1	1	0	0	1	1	1	1	Penicillinase	repressor
HTH_38	PF13936.6	gi|389848525|ref|YP_006350763.1|	-	0.0052	16.5	0.0	0.0093	15.7	0.0	1.4	1	0	0	1	1	1	1	Helix-turn-helix	domain
HTH_23	PF13384.6	gi|389848525|ref|YP_006350763.1|	-	0.0089	15.8	0.0	0.014	15.2	0.0	1.3	1	0	0	1	1	1	1	Homeodomain-like	domain
TnsD	PF15978.5	gi|389848525|ref|YP_006350763.1|	-	0.022	13.7	0.1	0.025	13.6	0.1	1.0	1	0	0	1	1	1	0	Tn7-like	transposition	protein	D
TBPIP	PF07106.13	gi|389848525|ref|YP_006350763.1|	-	0.029	14.3	0.0	0.05	13.6	0.0	1.4	1	0	0	1	1	1	0	TBPIP/Hop2	winged	helix	domain
HTH_AsnC-type	PF13404.6	gi|389848525|ref|YP_006350763.1|	-	0.033	14.0	0.0	0.058	13.2	0.0	1.4	1	0	0	1	1	1	0	AsnC-type	helix-turn-helix	domain
HTH_DeoR	PF08220.12	gi|389848525|ref|YP_006350763.1|	-	0.035	13.9	0.1	0.046	13.5	0.1	1.2	1	0	0	1	1	1	0	DeoR-like	helix-turn-helix	domain
HTH_12	PF08461.10	gi|389848525|ref|YP_006350763.1|	-	0.039	13.9	0.0	0.065	13.2	0.0	1.4	1	1	0	1	1	1	0	Ribonuclease	R	winged-helix	domain
Sigma54_DBD	PF04552.13	gi|389848525|ref|YP_006350763.1|	-	0.043	13.5	0.1	0.047	13.4	0.1	1.2	1	0	0	1	1	1	0	Sigma-54,	DNA	binding	domain
DUF370	PF04025.12	gi|389848525|ref|YP_006350763.1|	-	0.057	13.5	0.1	0.072	13.2	0.1	1.2	1	0	0	1	1	1	0	Domain	of	unknown	function	(DUF370)
HTH_36	PF13730.6	gi|389848525|ref|YP_006350763.1|	-	0.059	13.3	0.1	0.081	12.9	0.1	1.3	1	0	0	1	1	1	0	Helix-turn-helix	domain
HTH_34	PF13601.6	gi|389848525|ref|YP_006350763.1|	-	0.066	13.4	0.1	0.085	13.0	0.1	1.2	1	0	0	1	1	1	0	Winged	helix	DNA-binding	domain
DUF2318	PF10080.9	gi|389848526|ref|YP_006350764.1|	-	0.0073	16.4	0.1	0.0092	16.1	0.1	1.2	1	0	0	1	1	1	1	Predicted	membrane	protein	(DUF2318)
RPA_interact_C	PF14768.6	gi|389848526|ref|YP_006350764.1|	-	0.012	16.1	0.4	0.016	15.7	0.4	1.3	1	0	0	1	1	1	0	Replication	protein	A	interacting	C-terminal
DZR	PF12773.7	gi|389848526|ref|YP_006350764.1|	-	0.017	15.2	0.7	0.027	14.5	0.7	1.4	1	0	0	1	1	1	0	Double	zinc	ribbon
Nudix_N_2	PF14803.6	gi|389848526|ref|YP_006350764.1|	-	0.024	14.5	3.0	2.4	8.2	0.1	2.7	3	0	0	3	3	3	0	Nudix	N-terminal
zinc_ribbon_2	PF13240.6	gi|389848526|ref|YP_006350764.1|	-	0.036	13.8	1.2	4.1	7.3	0.2	2.4	2	0	0	2	2	2	0	zinc-ribbon	domain
DpnI	PF06044.12	gi|389848526|ref|YP_006350764.1|	-	0.094	12.3	0.4	0.11	12.1	0.4	1.2	1	0	0	1	1	1	0	Dam-replacing	family
GFA	PF04828.14	gi|389848526|ref|YP_006350764.1|	-	0.099	13.0	1.6	2.4	8.5	0.2	2.2	1	1	1	2	2	2	0	Glutathione-dependent	formaldehyde-activating	enzyme
Zn-ribbon_8	PF09723.10	gi|389848526|ref|YP_006350764.1|	-	0.1	12.8	1.0	17	5.6	0.4	2.4	2	0	0	2	2	2	0	Zinc	ribbon	domain
DNA_ligase_ZBD	PF03119.16	gi|389848526|ref|YP_006350764.1|	-	4.7	7.3	8.5	0.9	9.6	0.5	2.6	3	0	0	3	3	3	0	NAD-dependent	DNA	ligase	C4	zinc	finger	domain
Zn-ribbon_8	PF09723.10	gi|389848528|ref|YP_006350766.1|	-	0.005	16.9	1.7	1.1	9.5	0.3	2.2	2	0	0	2	2	2	2	Zinc	ribbon	domain
OrfB_Zn_ribbon	PF07282.11	gi|389848528|ref|YP_006350766.1|	-	0.0077	16.1	0.2	0.0099	15.8	0.2	1.2	1	0	0	1	1	1	1	Putative	transposase	DNA-binding	domain
RNA_POL_M_15KD	PF02150.16	gi|389848528|ref|YP_006350766.1|	-	0.022	14.6	3.7	0.023	14.5	0.2	2.0	2	0	0	2	2	2	0	RNA	polymerases	M/15	Kd	subunit
TF_Zn_Ribbon	PF08271.12	gi|389848528|ref|YP_006350766.1|	-	0.023	14.2	1.0	1.9	8.1	0.1	2.1	2	0	0	2	2	2	0	TFIIB	zinc-binding
A2L_zn_ribbon	PF08792.10	gi|389848528|ref|YP_006350766.1|	-	0.031	14.0	0.8	0.96	9.2	0.1	2.1	2	0	0	2	2	2	0	A2L	zinc	ribbon	domain
zf-IS66	PF13005.7	gi|389848528|ref|YP_006350766.1|	-	0.031	14.7	1.5	3.3	8.2	0.2	2.2	2	0	0	2	2	2	0	zinc-finger	binding	domain	of	transposase	IS66
Opy2	PF09463.10	gi|389848528|ref|YP_006350766.1|	-	0.055	13.8	3.4	0.22	11.9	0.6	2.1	2	0	0	2	2	2	0	Opy2	protein
zf_C2H2_10	PF18414.1	gi|389848528|ref|YP_006350766.1|	-	0.088	12.4	6.8	0.55	9.8	0.3	2.2	2	0	0	2	2	2	0	C2H2	type	zinc-finger
Zn_ribbon_SprT	PF17283.2	gi|389848528|ref|YP_006350766.1|	-	0.12	12.3	3.7	0.18	11.7	0.3	2.1	2	0	0	2	2	2	0	SprT-like	zinc	ribbon	domain
zf-Mss51	PF13824.6	gi|389848528|ref|YP_006350766.1|	-	0.12	12.5	2.3	0.24	11.5	2.3	1.6	1	1	0	1	1	1	0	Zinc-finger	of	mitochondrial	splicing	suppressor	51
Zn_Tnp_IS1	PF03811.13	gi|389848528|ref|YP_006350766.1|	-	0.17	11.7	4.9	0.63	9.8	4.9	1.8	1	1	0	1	1	1	0	InsA	N-terminal	domain
HypA	PF01155.19	gi|389848528|ref|YP_006350766.1|	-	0.19	11.8	0.6	9.8	6.2	0.1	1.9	1	1	0	1	1	1	0	Hydrogenase/urease	nickel	incorporation,	metallochaperone,	hypA
zf-H2C2_2	PF13465.6	gi|389848528|ref|YP_006350766.1|	-	0.45	11.0	1.9	14	6.3	0.1	2.1	2	0	0	2	2	2	0	Zinc-finger	double	domain
Rubredoxin_2	PF18073.1	gi|389848528|ref|YP_006350766.1|	-	0.65	9.8	4.7	0.8	9.5	0.1	2.3	2	0	0	2	2	2	0	Rubredoxin	metal	binding	domain
zf-tcix	PF14952.6	gi|389848528|ref|YP_006350766.1|	-	0.73	9.5	2.7	1	9.0	0.0	2.0	2	0	0	2	2	2	0	Putative	treble-clef,	zinc-finger,	Zn-binding
DUF35_N	PF12172.8	gi|389848528|ref|YP_006350766.1|	-	2.8	7.9	7.9	1.9	8.5	1.2	2.3	2	1	0	2	2	2	0	Rubredoxin-like	zinc	ribbon	domain	(DUF35_N)
UPF0547	PF10571.9	gi|389848528|ref|YP_006350766.1|	-	4.2	7.5	10.0	1.6	8.9	0.8	2.2	2	0	0	2	2	2	0	Uncharacterised	protein	family	UPF0547
RNase_II_C_S1	PF18614.1	gi|389848529|ref|YP_006350767.1|	-	0.034	14.1	0.1	0.067	13.2	0.1	1.5	1	0	0	1	1	1	0	RNase	II-type	exonuclease	C-terminal	S1	domain
Frankia_peptide	PF14407.6	gi|389848532|ref|YP_006350770.1|	-	0.18	11.8	2.3	1.9	8.6	0.3	2.2	2	0	0	2	2	2	0	Ribosomally	synthesized	peptide	prototyped	by	Frankia	Franean1_4349.
MgtE	PF01769.16	gi|389848534|ref|YP_006350772.1|	-	6.6e-27	94.3	8.6	1.3e-26	93.4	8.6	1.5	1	0	0	1	1	1	1	Divalent	cation	transporter
MgtE_N	PF03448.17	gi|389848534|ref|YP_006350772.1|	-	3.5e-14	53.2	0.2	1.3e-13	51.4	0.1	2.0	2	0	0	2	2	2	1	MgtE	intracellular	N	domain
CBS	PF00571.28	gi|389848534|ref|YP_006350772.1|	-	1.9e-10	41.1	2.0	0.00021	21.7	0.1	3.3	3	0	0	3	3	3	2	CBS	domain
TF_Zn_Ribbon	PF08271.12	gi|389848535|ref|YP_006350773.1|	-	0.00035	20.0	0.6	0.13	11.8	0.1	2.4	2	0	0	2	2	2	2	TFIIB	zinc-binding
DZR	PF12773.7	gi|389848535|ref|YP_006350773.1|	-	0.00087	19.3	0.2	0.0012	18.8	0.2	1.3	1	0	0	1	1	1	1	Double	zinc	ribbon
RecR	PF02132.15	gi|389848535|ref|YP_006350773.1|	-	0.0034	16.9	0.6	0.54	9.9	0.0	2.2	2	0	0	2	2	2	1	RecR	protein
zf-trcl	PF13451.6	gi|389848535|ref|YP_006350773.1|	-	0.0043	16.9	1.6	0.069	13.0	0.1	2.2	2	0	0	2	2	2	1	Probable	zinc-ribbon	domain
zf-C2H2_3	PF13878.6	gi|389848535|ref|YP_006350773.1|	-	0.01	15.6	1.9	0.46	10.3	0.2	2.3	2	0	0	2	2	2	0	zinc-finger	of	acetyl-transferase	ESCO
YhfH	PF14149.6	gi|389848535|ref|YP_006350773.1|	-	0.016	15.2	2.0	0.97	9.5	0.0	2.2	2	0	0	2	2	2	0	YhfH-like	protein
zf-IS66	PF13005.7	gi|389848535|ref|YP_006350773.1|	-	0.017	15.5	1.0	2.7	8.4	0.1	2.2	2	0	0	2	2	2	0	zinc-finger	binding	domain	of	transposase	IS66
zf-ISL3	PF14690.6	gi|389848535|ref|YP_006350773.1|	-	0.018	15.7	1.7	2.2	9.0	0.1	2.5	2	0	0	2	2	2	0	zinc-finger	of	transposase	IS204/IS1001/IS1096/IS1165
zf-RING_7	PF02591.15	gi|389848535|ref|YP_006350773.1|	-	0.022	15.0	0.4	0.37	11.0	0.0	2.2	2	0	0	2	2	2	0	C4-type	zinc	ribbon	domain
zf-ribbon_3	PF13248.6	gi|389848535|ref|YP_006350773.1|	-	0.029	13.8	1.8	2	8.0	0.2	2.2	2	0	0	2	2	2	0	zinc-ribbon	domain
TFIIS_C	PF01096.18	gi|389848535|ref|YP_006350773.1|	-	0.04	13.8	0.3	4.2	7.3	0.0	2.3	2	0	0	2	2	2	0	Transcription	factor	S-II	(TFIIS)
zf-tcix	PF14952.6	gi|389848535|ref|YP_006350773.1|	-	0.054	13.1	2.0	0.66	9.6	0.0	2.2	2	0	0	2	2	2	0	Putative	treble-clef,	zinc-finger,	Zn-binding
zf-LITAF-like	PF10601.9	gi|389848535|ref|YP_006350773.1|	-	0.057	13.7	1.0	6.9	7.0	0.2	2.1	2	0	0	2	2	2	0	LITAF-like	zinc	ribbon	domain
UPF0547	PF10571.9	gi|389848535|ref|YP_006350773.1|	-	0.069	13.2	5.3	0.44	10.7	0.2	2.2	2	0	0	2	2	2	0	Uncharacterised	protein	family	UPF0547
APOC4	PF15119.6	gi|389848535|ref|YP_006350773.1|	-	0.086	13.1	0.1	0.15	12.3	0.1	1.4	1	1	0	1	1	1	0	Apolipoprotein	C4
CpXC	PF14353.6	gi|389848535|ref|YP_006350773.1|	-	0.089	12.8	0.9	1.8	8.6	0.9	2.1	1	1	0	1	1	1	0	CpXC	protein
Ogr_Delta	PF04606.12	gi|389848535|ref|YP_006350773.1|	-	0.089	12.8	3.8	2	8.5	0.2	2.2	2	0	0	2	2	2	0	Ogr/Delta-like	zinc	finger
HypA	PF01155.19	gi|389848535|ref|YP_006350773.1|	-	0.11	12.6	0.3	0.14	12.2	0.3	1.2	1	0	0	1	1	1	0	Hydrogenase/urease	nickel	incorporation,	metallochaperone,	hypA
Zn-ribbon_8	PF09723.10	gi|389848535|ref|YP_006350773.1|	-	0.11	12.6	5.7	1.1	9.4	5.8	2.2	1	1	1	2	2	2	0	Zinc	ribbon	domain
zinc_ribbon_2	PF13240.6	gi|389848535|ref|YP_006350773.1|	-	0.13	12.0	5.3	1.1	9.1	0.5	2.2	2	0	0	2	2	2	0	zinc-ribbon	domain
DNA_RNApol_7kD	PF03604.13	gi|389848535|ref|YP_006350773.1|	-	0.18	11.5	2.9	1.1	9.0	0.1	2.3	2	0	0	2	2	2	0	DNA	directed	RNA	polymerase,	7	kDa	subunit
Rubredoxin_2	PF18073.1	gi|389848535|ref|YP_006350773.1|	-	0.6	9.9	4.9	2.7	7.8	0.4	2.2	2	0	0	2	2	2	0	Rubredoxin	metal	binding	domain
Na_Ca_ex	PF01699.24	gi|389848536|ref|YP_006350774.1|	-	1.7e-26	93.0	31.8	1.1e-15	57.9	11.0	2.1	2	0	0	2	2	2	2	Sodium/calcium	exchanger	protein
CBS	PF00571.28	gi|389848537|ref|YP_006350775.1|	-	1.2e-35	121.8	10.4	3.8e-11	43.3	0.2	4.4	4	0	0	4	4	4	4	CBS	domain
HypA	PF01155.19	gi|389848538|ref|YP_006350776.1|	-	0.025	14.6	6.3	0.81	9.7	0.6	2.3	2	0	0	2	2	2	0	Hydrogenase/urease	nickel	incorporation,	metallochaperone,	hypA
zinc_ribbon_2	PF13240.6	gi|389848538|ref|YP_006350776.1|	-	0.05	13.3	6.0	0.15	11.8	2.5	2.4	2	0	0	2	2	2	0	zinc-ribbon	domain
zinc_ribbon_15	PF17032.5	gi|389848538|ref|YP_006350776.1|	-	0.057	14.2	7.5	0.91	10.3	0.4	2.9	2	1	1	3	3	3	0	zinc-ribbon	family
DZR	PF12773.7	gi|389848538|ref|YP_006350776.1|	-	0.28	11.3	8.1	0.65	10.1	0.8	2.5	2	1	0	2	2	2	0	Double	zinc	ribbon
RecR	PF02132.15	gi|389848538|ref|YP_006350776.1|	-	0.4	10.3	6.0	2	8.1	0.1	2.6	2	1	0	2	2	2	0	RecR	protein
RNA_POL_M_15KD	PF02150.16	gi|389848538|ref|YP_006350776.1|	-	0.46	10.4	7.4	12	5.9	0.1	3.7	3	1	0	3	3	3	0	RNA	polymerases	M/15	Kd	subunit
C1_2	PF03107.16	gi|389848538|ref|YP_006350776.1|	-	1	9.7	5.3	22	5.5	0.6	3.2	3	0	0	3	3	3	0	C1	domain
zf-dskA_traR	PF01258.17	gi|389848538|ref|YP_006350776.1|	-	1.4	9.0	5.4	0.99	9.4	1.2	2.5	2	0	0	2	2	2	0	Prokaryotic	dksA/traR	C4-type	zinc	finger
C1_1	PF00130.22	gi|389848538|ref|YP_006350776.1|	-	1.9	8.4	7.1	5.8	6.9	0.9	2.7	2	1	0	2	2	2	0	Phorbol	esters/diacylglycerol	binding	domain	(C1	domain)
UPF0547	PF10571.9	gi|389848538|ref|YP_006350776.1|	-	2.2	8.5	6.9	3.4	7.8	3.1	2.6	2	0	0	2	2	2	0	Uncharacterised	protein	family	UPF0547
FYVE	PF01363.21	gi|389848538|ref|YP_006350776.1|	-	3.5	7.8	9.6	1.9	8.7	0.5	2.4	2	0	0	2	2	2	0	FYVE	zinc	finger
zf-ribbon_3	PF13248.6	gi|389848538|ref|YP_006350776.1|	-	4.2	6.9	8.4	0.78	9.2	3.3	2.1	2	0	0	2	2	2	0	zinc-ribbon	domain
PLATZ	PF04640.14	gi|389848538|ref|YP_006350776.1|	-	7	7.3	7.4	14	6.4	1.3	2.5	3	0	0	3	3	2	0	PLATZ	transcription	factor
HTH_20	PF12840.7	gi|389848540|ref|YP_006350778.1|	-	0.00011	22.2	0.0	0.0003	20.8	0.0	1.8	1	0	0	1	1	1	1	Helix-turn-helix	domain
HTH_24	PF13412.6	gi|389848540|ref|YP_006350778.1|	-	0.016	14.7	0.0	0.1	12.2	0.0	2.1	2	0	0	2	2	2	0	Winged	helix-turn-helix	DNA-binding
TrmB	PF01978.19	gi|389848540|ref|YP_006350778.1|	-	0.034	14.0	0.0	0.078	12.9	0.0	1.5	1	0	0	1	1	1	0	Sugar-specific	transcriptional	regulator	TrmB
HTH_AsnC-type	PF13404.6	gi|389848540|ref|YP_006350778.1|	-	0.041	13.7	0.0	2	8.3	0.0	2.7	2	0	0	2	2	2	0	AsnC-type	helix-turn-helix	domain
LexA_DNA_bind	PF01726.16	gi|389848540|ref|YP_006350778.1|	-	0.076	12.8	0.0	0.37	10.6	0.0	2.2	2	1	1	3	3	3	0	LexA	DNA	binding	domain
Dimerisation2	PF16864.5	gi|389848540|ref|YP_006350778.1|	-	0.079	12.9	0.0	0.2	11.7	0.0	1.6	1	0	0	1	1	1	0	Dimerisation	domain
Phage-tail_1	PF09097.10	gi|389848540|ref|YP_006350778.1|	-	0.084	12.7	0.0	0.11	12.2	0.0	1.3	1	0	0	1	1	1	0	Baseplate	structural	protein,	domain	1
NapD	PF03927.13	gi|389848540|ref|YP_006350778.1|	-	0.11	12.5	0.3	0.28	11.3	0.3	1.7	1	0	0	1	1	1	0	NapD	protein
HTH_5	PF01022.20	gi|389848540|ref|YP_006350778.1|	-	0.17	11.7	0.0	0.38	10.7	0.0	1.6	1	0	0	1	1	1	0	Bacterial	regulatory	protein,	arsR	family
MatP_C	PF17414.2	gi|389848541|ref|YP_006350779.1|	-	0.093	12.9	0.1	0.1	12.8	0.1	1.2	1	0	0	1	1	1	0	MatP	C-terminal	ribbon-helix-helix	domain
TFIIB	PF00382.19	gi|389848542|ref|YP_006350780.1|	-	1.9e-28	98.3	4.7	1.4e-14	53.9	0.5	2.3	2	0	0	2	2	2	2	Transcription	factor	TFIIB	repeat
TF_Zn_Ribbon	PF08271.12	gi|389848542|ref|YP_006350780.1|	-	3.9e-12	45.5	2.8	7.5e-12	44.6	2.8	1.5	1	0	0	1	1	1	1	TFIIB	zinc-binding
HTH_24	PF13412.6	gi|389848542|ref|YP_006350780.1|	-	0.045	13.3	0.1	0.17	11.4	0.0	2.1	2	0	0	2	2	2	0	Winged	helix-turn-helix	DNA-binding
RB_B	PF01857.20	gi|389848542|ref|YP_006350780.1|	-	0.051	13.6	0.0	0.1	12.6	0.0	1.4	1	0	0	1	1	1	0	Retinoblastoma-associated	protein	B	domain
TackOD1	PF18551.1	gi|389848542|ref|YP_006350780.1|	-	0.054	13.2	0.3	0.1	12.3	0.3	1.4	1	0	0	1	1	1	0	Thaumarchaeal	output	domain	1
HTH_AsnC-type	PF13404.6	gi|389848542|ref|YP_006350780.1|	-	0.36	10.7	3.6	0.41	10.5	0.2	2.8	3	0	0	3	3	3	0	AsnC-type	helix-turn-helix	domain
zf-Mss51	PF13824.6	gi|389848542|ref|YP_006350780.1|	-	0.71	10.0	3.8	1.1	9.4	0.8	2.4	2	0	0	2	2	2	0	Zinc-finger	of	mitochondrial	splicing	suppressor	51
TFIIB_C_1	PF18542.1	gi|389848542|ref|YP_006350780.1|	-	0.91	9.6	5.4	0.54	10.3	0.2	2.7	2	1	0	2	2	2	0	Transcription	factor	IIB	C-terminal	module	1
Zn-ribbon_8	PF09723.10	gi|389848542|ref|YP_006350780.1|	-	2.5	8.3	5.3	5.4	7.2	1.0	2.5	1	1	2	3	3	3	0	Zinc	ribbon	domain
TraB	PF01963.17	gi|389848543|ref|YP_006350781.1|	-	0.011	15.7	0.0	0.018	15.0	0.0	1.3	1	0	0	1	1	1	0	TraB	family
HEM4	PF02602.15	gi|389848543|ref|YP_006350781.1|	-	0.017	14.5	0.0	0.027	13.8	0.0	1.2	1	0	0	1	1	1	0	Uroporphyrinogen-III	synthase	HemD
FlaC_arch	PF05377.11	gi|389848544|ref|YP_006350782.1|	-	0.0037	17.6	0.5	0.0073	16.7	0.4	1.6	2	0	0	2	2	2	1	Flagella	accessory	protein	C	(FlaC)
CLZ	PF16526.5	gi|389848544|ref|YP_006350782.1|	-	0.0042	17.4	0.6	0.0045	17.3	0.6	1.1	1	0	0	1	1	1	1	C-terminal	leucine	zipper	domain	of	cyclic	nucleotide-gated	channels
HSBP1	PF06825.12	gi|389848544|ref|YP_006350782.1|	-	0.0048	16.7	0.0	0.0066	16.3	0.0	1.3	1	0	0	1	1	1	1	Heat	shock	factor	binding	protein	1
Tropomyosin_1	PF12718.7	gi|389848544|ref|YP_006350782.1|	-	0.013	15.6	0.9	0.015	15.5	0.9	1.1	1	0	0	1	1	1	0	Tropomyosin	like
bZIP_1	PF00170.21	gi|389848544|ref|YP_006350782.1|	-	0.019	15.0	0.5	0.027	14.5	0.5	1.2	1	0	0	1	1	1	0	bZIP	transcription	factor
DUF1515	PF07439.11	gi|389848544|ref|YP_006350782.1|	-	0.039	14.0	0.0	0.04	13.9	0.0	1.1	1	0	0	1	1	1	0	Protein	of	unknown	function	(DUF1515)
DUF4988	PF16378.5	gi|389848544|ref|YP_006350782.1|	-	0.042	13.5	0.2	0.061	13.0	0.2	1.2	1	0	0	1	1	1	0	Domain	of	unknown	function
TRPM_tetra	PF16519.5	gi|389848544|ref|YP_006350782.1|	-	0.059	13.5	0.3	0.083	13.0	0.3	1.2	1	0	0	1	1	1	0	Tetramerisation	domain	of	TRPM
PspB	PF06667.12	gi|389848544|ref|YP_006350782.1|	-	0.12	12.4	0.1	0.13	12.4	0.1	1.2	1	0	0	1	1	1	0	Phage	shock	protein	B
CorA	PF01544.18	gi|389848544|ref|YP_006350782.1|	-	0.12	11.6	0.3	0.13	11.5	0.3	1.0	1	0	0	1	1	1	0	CorA-like	Mg2+	transporter	protein
AAA_16	PF13191.6	gi|389848545|ref|YP_006350783.1|	-	0.037	14.4	0.8	6.6	7.1	0.0	3.9	2	1	1	3	3	3	0	AAA	ATPase	domain
KAP_NTPase	PF07693.14	gi|389848545|ref|YP_006350783.1|	-	0.11	11.7	3.1	2.2	7.4	1.3	2.4	1	1	1	2	2	2	0	KAP	family	P-loop	domain
DUF1798	PF08807.10	gi|389848546|ref|YP_006350784.1|	-	0.095	12.8	0.1	0.1	12.7	0.1	1.1	1	0	0	1	1	1	0	Bacterial	domain	of	unknown	function	(DUF1798)
HNH_repeat	PF18780.1	gi|389848547|ref|YP_006350785.1|	-	4.2e-13	48.8	4.3	0.00017	21.3	0.5	3.6	3	0	0	3	3	3	3	Homing	endonuclease	repeat
zf-C2H2_6	PF13912.6	gi|389848547|ref|YP_006350785.1|	-	3.3e-06	26.9	11.1	9.6e-05	22.3	0.1	3.2	3	0	0	3	3	2	2	C2H2-type	zinc	finger
zf-C2H2_4	PF13894.6	gi|389848547|ref|YP_006350785.1|	-	3.5e-06	27.4	0.1	0.097	13.6	0.0	3.0	2	0	0	2	2	2	2	C2H2-type	zinc	finger
zf-C2H2	PF00096.26	gi|389848547|ref|YP_006350785.1|	-	2.2e-05	24.6	0.1	0.26	11.8	0.0	2.9	2	0	0	2	2	2	2	Zinc	finger,	C2H2	type
HNH_2	PF13391.6	gi|389848547|ref|YP_006350785.1|	-	0.00047	20.2	2.5	0.0013	18.8	2.5	1.8	1	1	0	1	1	1	1	HNH	endonuclease
Zn-ribbon_8	PF09723.10	gi|389848547|ref|YP_006350785.1|	-	0.0021	18.1	2.5	0.77	9.9	0.3	3.1	2	0	0	2	2	2	2	Zinc	ribbon	domain
zf-met	PF12874.7	gi|389848547|ref|YP_006350785.1|	-	0.0023	18.3	0.2	0.041	14.3	0.0	2.5	2	0	0	2	2	2	1	Zinc-finger	of	C2H2	type
HNH	PF01844.23	gi|389848547|ref|YP_006350785.1|	-	0.0056	16.8	9.6	0.0063	16.7	3.0	3.2	3	0	0	3	3	3	1	HNH	endonuclease
zf-C2H2_jaz	PF12171.8	gi|389848547|ref|YP_006350785.1|	-	0.0098	16.2	0.0	2.8	8.3	0.0	2.5	2	0	0	2	2	2	1	Zinc-finger	double-stranded	RNA-binding
Sigma70_r3	PF04539.16	gi|389848547|ref|YP_006350785.1|	-	0.018	15.1	1.9	38	4.5	0.1	3.2	3	0	0	3	3	3	0	Sigma-70	region	3
LexA_DNA_bind	PF01726.16	gi|389848547|ref|YP_006350785.1|	-	0.032	14.0	0.0	3.9	7.3	0.0	3.0	3	0	0	3	3	3	0	LexA	DNA	binding	domain
tRNA_anti-codon	PF01336.25	gi|389848548|ref|YP_006350786.1|	-	0.0003	20.7	0.0	0.00066	19.6	0.0	1.7	1	0	0	1	1	1	1	OB-fold	nucleic	acid	binding	domain
BRF1	PF07741.13	gi|389848548|ref|YP_006350786.1|	-	2.1	8.7	4.7	3	8.3	0.0	2.3	2	0	0	2	2	2	0	Brf1-like	TBP-binding	domain
eRF1_2	PF03464.15	gi|389848549|ref|YP_006350787.1|	-	2.3e-30	105.6	0.0	3.7e-30	105.0	0.0	1.3	1	0	0	1	1	1	1	eRF1	domain	2
acVLRF1	PF18859.1	gi|389848549|ref|YP_006350787.1|	-	8.9e-21	74.5	9.3	3.2e-20	72.7	4.7	2.5	2	0	0	2	2	2	1	Actinobacteria/chloroflexi	VLRF1	release	factor
baeRF_family10	PF18854.1	gi|389848549|ref|YP_006350787.1|	-	2.1e-17	63.7	3.5	5.7e-17	62.3	1.3	2.7	3	0	0	3	3	3	1	Bacterial	archaeo-eukaryotic	release	factor	family	10
eRF1_3	PF03465.15	gi|389848549|ref|YP_006350787.1|	-	1.2e-16	61.2	0.0	1.3e-15	57.8	0.0	2.4	1	1	0	1	1	1	1	eRF1	domain	3
baeRF_family2	PF18844.1	gi|389848549|ref|YP_006350787.1|	-	0.007	16.4	2.3	0.007	16.4	2.3	2.0	2	0	0	2	2	2	1	Bacterial	archaeo-eukaryotic	release	factor	family	2
eRF1_1	PF03463.15	gi|389848549|ref|YP_006350787.1|	-	0.021	14.8	0.0	0.039	13.9	0.0	1.4	1	0	0	1	1	1	0	eRF1	domain	1
baeRF_family12	PF18856.1	gi|389848549|ref|YP_006350787.1|	-	0.063	13.9	0.1	0.16	12.5	0.0	1.7	2	0	0	2	2	2	0	Bacterial	archaeo-eukaryotic	release	factor	family	12
PemK_toxin	PF02452.17	gi|389848553|ref|YP_006350791.1|	-	7.9e-05	23.0	0.0	9.3e-05	22.8	0.0	1.1	1	0	0	1	1	1	1	PemK-like,	MazF-like	toxin	of	type	II	toxin-antitoxin	system
MarR_2	PF12802.7	gi|389848554|ref|YP_006350792.1|	-	6.1e-07	29.2	0.0	9.4e-07	28.6	0.0	1.2	1	0	0	1	1	1	1	MarR	family
HTH_Crp_2	PF13545.6	gi|389848554|ref|YP_006350792.1|	-	1.6e-05	24.8	0.0	2.3e-05	24.3	0.0	1.4	1	0	0	1	1	1	1	Crp-like	helix-turn-helix	domain
Rrf2	PF02082.20	gi|389848554|ref|YP_006350792.1|	-	0.00022	21.5	0.0	0.00037	20.8	0.0	1.3	1	0	0	1	1	1	1	Transcriptional	regulator
TrmB	PF01978.19	gi|389848554|ref|YP_006350792.1|	-	0.00059	19.7	0.0	0.001	18.9	0.0	1.3	1	0	0	1	1	1	1	Sugar-specific	transcriptional	regulator	TrmB
HTH_24	PF13412.6	gi|389848554|ref|YP_006350792.1|	-	0.0013	18.2	0.0	0.0023	17.4	0.0	1.5	1	0	0	1	1	1	1	Winged	helix-turn-helix	DNA-binding
HTH_27	PF13463.6	gi|389848554|ref|YP_006350792.1|	-	0.0034	17.8	0.1	0.0068	16.9	0.1	1.6	1	1	0	1	1	1	1	Winged	helix	DNA-binding	domain
HTH_29	PF13551.6	gi|389848554|ref|YP_006350792.1|	-	0.0042	17.1	0.2	0.008	16.2	0.1	1.5	2	0	0	2	2	1	1	Winged	helix-turn	helix
HTH_36	PF13730.6	gi|389848554|ref|YP_006350792.1|	-	0.0045	16.9	0.0	0.0071	16.3	0.0	1.3	1	0	0	1	1	1	1	Helix-turn-helix	domain
MarR	PF01047.22	gi|389848554|ref|YP_006350792.1|	-	0.0049	16.8	0.0	0.0081	16.1	0.0	1.3	1	0	0	1	1	1	1	MarR	family
Fe_dep_repress	PF01325.19	gi|389848554|ref|YP_006350792.1|	-	0.0056	16.8	0.0	0.0097	16.1	0.0	1.4	1	0	0	1	1	1	1	Iron	dependent	repressor,	N-terminal	DNA	binding	domain
DUF2250	PF10007.9	gi|389848554|ref|YP_006350792.1|	-	0.0058	16.7	0.1	0.0072	16.4	0.1	1.3	1	1	0	1	1	1	1	Uncharacterized	protein	conserved	in	archaea	(DUF2250)
HTH_IclR	PF09339.10	gi|389848554|ref|YP_006350792.1|	-	0.006	16.4	0.0	0.0094	15.7	0.0	1.3	1	0	0	1	1	1	1	IclR	helix-turn-helix	domain
HTH_11	PF08279.12	gi|389848554|ref|YP_006350792.1|	-	0.02	14.8	0.0	0.033	14.1	0.0	1.3	1	0	0	1	1	1	0	HTH	domain
DprA_WH	PF17782.1	gi|389848554|ref|YP_006350792.1|	-	0.023	14.8	0.0	0.035	14.2	0.0	1.4	1	0	0	1	1	1	0	DprA	winged	helix	domain
PaaX	PF07848.12	gi|389848554|ref|YP_006350792.1|	-	0.044	14.0	0.2	0.11	12.7	0.2	1.7	1	1	0	1	1	1	0	PaaX-like	protein
HTH_23	PF13384.6	gi|389848554|ref|YP_006350792.1|	-	0.045	13.6	0.3	0.2	11.5	0.0	1.9	2	0	0	2	2	2	0	Homeodomain-like	domain
HTH_5	PF01022.20	gi|389848554|ref|YP_006350792.1|	-	0.053	13.4	0.0	0.07	13.0	0.0	1.3	1	0	0	1	1	1	0	Bacterial	regulatory	protein,	arsR	family
HTH_28	PF13518.6	gi|389848554|ref|YP_006350792.1|	-	0.06	13.5	0.7	0.1	12.8	0.0	1.7	2	1	0	2	2	2	0	Helix-turn-helix	domain
HTH_47	PF16221.5	gi|389848554|ref|YP_006350792.1|	-	0.13	11.9	0.0	0.21	11.2	0.0	1.3	1	0	0	1	1	1	0	winged	helix-turn-helix
LexA_DNA_bind	PF01726.16	gi|389848554|ref|YP_006350792.1|	-	0.16	11.8	0.0	0.29	10.9	0.0	1.4	1	0	0	1	1	1	0	LexA	DNA	binding	domain
Glyco_tranf_2_4	PF13704.6	gi|389848554|ref|YP_006350792.1|	-	4.2	8.0	7.0	1.1	9.8	0.8	2.8	1	1	1	2	2	2	0	Glycosyl	transferase	family	2
NinF	PF05810.12	gi|389848555|ref|YP_006350793.1|	-	0.0093	15.8	0.3	0.0093	15.8	0.3	1.6	2	0	0	2	2	2	1	NinF	protein
zf-RING_10	PF16685.5	gi|389848555|ref|YP_006350793.1|	-	0.073	13.2	0.2	0.073	13.2	0.2	2.2	2	1	1	3	3	3	0	zinc	RING	finger	of	MSL2
FUR	PF01475.19	gi|389848556|ref|YP_006350794.1|	-	0.0049	17.0	0.1	0.0066	16.6	0.1	1.2	1	0	0	1	1	1	1	Ferric	uptake	regulator	family
Replic_Relax	PF13814.6	gi|389848556|ref|YP_006350794.1|	-	0.0078	16.3	0.0	0.011	15.8	0.0	1.2	1	0	0	1	1	1	1	Replication-relaxation
HTH_WhiA	PF02650.14	gi|389848556|ref|YP_006350794.1|	-	0.021	15.1	0.0	0.033	14.5	0.0	1.3	1	0	0	1	1	1	0	WhiA	C-terminal	HTH	domain
HTH_Tnp_Tc3_2	PF01498.18	gi|389848556|ref|YP_006350794.1|	-	0.022	15.0	0.1	0.04	14.2	0.1	1.4	1	0	0	1	1	1	0	Transposase
HTH_11	PF08279.12	gi|389848556|ref|YP_006350794.1|	-	0.03	14.3	0.1	0.056	13.4	0.1	1.4	1	0	0	1	1	1	0	HTH	domain
HTH_32	PF13565.6	gi|389848556|ref|YP_006350794.1|	-	0.041	14.5	0.3	0.11	13.2	0.1	1.9	2	0	0	2	2	2	0	Homeodomain-like	domain
TatD_DNase	PF01026.21	gi|389848556|ref|YP_006350794.1|	-	0.054	12.9	0.0	0.078	12.3	0.0	1.2	1	0	0	1	1	1	0	TatD	related	DNase
DUF1056	PF06341.11	gi|389848556|ref|YP_006350794.1|	-	1.4	9.3	4.1	2.5	8.5	0.5	2.2	1	1	1	2	2	2	0	Protein	of	unknown	function	(DUF1056)
DUF4870	PF09685.10	gi|389848557|ref|YP_006350795.1|	-	4.8e-07	29.9	3.2	4.8e-07	29.9	3.2	2.9	2	1	0	2	2	2	1	Domain	of	unknown	function	(DUF4870)
DUF4293	PF14126.6	gi|389848557|ref|YP_006350795.1|	-	0.19	12.0	2.3	0.47	10.7	0.8	2.3	1	1	0	2	2	2	0	Domain	of	unknown	function	(DUF4293)
DDE_Tnp_1	PF01609.21	gi|389848561|ref|YP_006350799.1|	-	4.3e-10	39.6	0.2	6.6e-10	39.0	0.2	1.2	1	0	0	1	1	1	1	Transposase	DDE	domain
DDE_Tnp_1_2	PF13586.6	gi|389848561|ref|YP_006350799.1|	-	0.00074	19.8	0.2	0.0028	18.0	0.2	1.9	2	0	0	2	2	2	1	Transposase	DDE	domain
DDE_Tnp_1_3	PF13612.6	gi|389848561|ref|YP_006350799.1|	-	0.0022	18.0	0.0	0.0029	17.6	0.0	1.2	1	0	0	1	1	1	1	Transposase	DDE	domain
DDE_Tnp_IS240	PF13610.6	gi|389848561|ref|YP_006350799.1|	-	0.015	15.5	0.2	0.025	14.8	0.2	1.3	1	1	0	1	1	1	0	DDE	domain
DDE_Tnp_1_6	PF13751.6	gi|389848561|ref|YP_006350799.1|	-	0.099	12.9	0.1	0.16	12.2	0.1	1.4	1	0	0	1	1	1	0	Transposase	DDE	domain
HTH_20	PF12840.7	gi|389848566|ref|YP_006350804.1|	-	1.2e-07	31.7	0.4	1.9e-07	31.0	0.4	1.3	1	0	0	1	1	1	1	Helix-turn-helix	domain
MarR_2	PF12802.7	gi|389848566|ref|YP_006350804.1|	-	0.00011	22.0	0.1	0.00029	20.6	0.1	1.7	2	0	0	2	2	2	1	MarR	family
HTH_11	PF08279.12	gi|389848566|ref|YP_006350804.1|	-	0.00023	21.1	0.0	0.00035	20.5	0.0	1.3	1	0	0	1	1	1	1	HTH	domain
HTH_24	PF13412.6	gi|389848566|ref|YP_006350804.1|	-	0.00025	20.5	0.0	0.00039	19.9	0.0	1.4	1	0	0	1	1	1	1	Winged	helix-turn-helix	DNA-binding
HTH_AsnC-type	PF13404.6	gi|389848566|ref|YP_006350804.1|	-	0.0037	17.1	0.0	0.0078	16.0	0.0	1.5	1	0	0	1	1	1	1	AsnC-type	helix-turn-helix	domain
HTH_IclR	PF09339.10	gi|389848566|ref|YP_006350804.1|	-	0.017	14.9	0.0	0.028	14.2	0.0	1.3	1	0	0	1	1	1	0	IclR	helix-turn-helix	domain
Sigma70_r4	PF04545.16	gi|389848566|ref|YP_006350804.1|	-	0.027	14.0	0.0	0.043	13.3	0.0	1.3	1	0	0	1	1	1	0	Sigma-70,	region	4
TrmB	PF01978.19	gi|389848566|ref|YP_006350804.1|	-	0.043	13.7	0.0	0.063	13.2	0.0	1.3	1	0	0	1	1	1	0	Sugar-specific	transcriptional	regulator	TrmB
MarR	PF01047.22	gi|389848566|ref|YP_006350804.1|	-	0.1	12.5	0.0	0.17	11.8	0.0	1.4	1	0	0	1	1	1	0	MarR	family
Bundlin	PF05307.11	gi|389848567|ref|YP_006350805.1|	-	0.0062	16.3	0.1	0.01	15.6	0.1	1.3	1	0	0	1	1	1	1	Bundlin
PIN	PF01850.21	gi|389848569|ref|YP_006350807.1|	-	0.0052	17.3	0.3	0.0066	16.9	0.3	1.1	1	0	0	1	1	1	1	PIN	domain
PPE	PF00823.19	gi|389848569|ref|YP_006350807.1|	-	0.15	12.2	0.1	0.2	11.8	0.1	1.2	1	0	0	1	1	1	0	PPE	family
WVELL	PF14043.6	gi|389848570|ref|YP_006350808.1|	-	0.017	14.9	0.8	0.024	14.5	0.8	1.3	1	0	0	1	1	1	0	WVELL	protein
TraE	PF05309.11	gi|389848570|ref|YP_006350808.1|	-	0.17	11.2	0.0	0.21	10.9	0.0	1.2	1	0	0	1	1	1	0	TraE	protein
SWIM	PF04434.17	gi|389848571|ref|YP_006350809.1|	-	0.0016	18.1	1.0	0.0034	17.0	1.0	1.5	1	0	0	1	1	1	1	SWIM	zinc	finger
HTH_IclR	PF09339.10	gi|389848573|ref|YP_006350811.1|	-	7.4e-06	25.7	0.0	1.7e-05	24.5	0.0	1.6	1	0	0	1	1	1	1	IclR	helix-turn-helix	domain
MarR_2	PF12802.7	gi|389848573|ref|YP_006350811.1|	-	0.00016	21.5	0.1	0.00051	19.9	0.0	1.8	2	0	0	2	2	2	1	MarR	family
TrmB	PF01978.19	gi|389848573|ref|YP_006350811.1|	-	0.00017	21.4	0.0	0.00048	20.0	0.0	1.8	1	1	0	1	1	1	1	Sugar-specific	transcriptional	regulator	TrmB
HTH_24	PF13412.6	gi|389848573|ref|YP_006350811.1|	-	0.00055	19.4	0.2	0.0013	18.2	0.0	1.8	2	0	0	2	2	2	1	Winged	helix-turn-helix	DNA-binding
HTH_11	PF08279.12	gi|389848573|ref|YP_006350811.1|	-	0.00065	19.6	0.0	0.0062	16.5	0.0	2.3	3	0	0	3	3	3	1	HTH	domain
HTH_20	PF12840.7	gi|389848573|ref|YP_006350811.1|	-	0.0023	18.0	0.6	0.0088	16.1	0.1	2.2	2	1	0	2	2	2	1	Helix-turn-helix	domain
HTH_6	PF01418.17	gi|389848573|ref|YP_006350811.1|	-	0.0027	17.6	0.0	0.0073	16.3	0.0	1.7	1	0	0	1	1	1	1	Helix-turn-helix	domain,	rpiR	family
HTH_28	PF13518.6	gi|389848573|ref|YP_006350811.1|	-	0.0044	17.1	0.0	0.016	15.4	0.0	2.0	1	0	0	1	1	1	1	Helix-turn-helix	domain
WYL	PF13280.6	gi|389848573|ref|YP_006350811.1|	-	0.023	14.8	0.4	0.15	12.1	0.4	2.0	1	1	0	1	1	1	0	WYL	domain
HTH_23	PF13384.6	gi|389848573|ref|YP_006350811.1|	-	0.03	14.1	0.0	0.1	12.4	0.0	1.8	1	0	0	1	1	1	0	Homeodomain-like	domain
HTH_DeoR	PF08220.12	gi|389848573|ref|YP_006350811.1|	-	0.082	12.7	0.1	0.36	10.6	0.0	2.0	2	0	0	2	2	2	0	DeoR-like	helix-turn-helix	domain
HTH_29	PF13551.6	gi|389848573|ref|YP_006350811.1|	-	0.082	12.9	0.0	0.28	11.2	0.0	1.9	1	0	0	1	1	1	0	Winged	helix-turn	helix
Fe_dep_repress	PF01325.19	gi|389848573|ref|YP_006350811.1|	-	0.09	13.0	0.0	0.25	11.5	0.0	1.7	2	0	0	2	2	2	0	Iron	dependent	repressor,	N-terminal	DNA	binding	domain
Rrf2	PF02082.20	gi|389848573|ref|YP_006350811.1|	-	0.1	12.9	0.0	0.17	12.2	0.0	1.4	1	0	0	1	1	1	0	Transcriptional	regulator
GerE	PF00196.19	gi|389848573|ref|YP_006350811.1|	-	0.13	11.8	0.0	0.21	11.2	0.0	1.3	1	0	0	1	1	1	0	Bacterial	regulatory	proteins,	luxR	family
TcdB_N	PF12918.7	gi|389848573|ref|YP_006350811.1|	-	0.14	12.5	0.0	0.31	11.4	0.0	1.5	1	0	0	1	1	1	0	TcdB	toxin	N-terminal	helical	domain
TFIIB	PF00382.19	gi|389848574|ref|YP_006350812.1|	-	0.00032	20.7	0.0	0.00038	20.4	0.0	1.1	1	0	0	1	1	1	1	Transcription	factor	TFIIB	repeat
TraE	PF05309.11	gi|389848574|ref|YP_006350812.1|	-	0.035	13.5	0.0	0.036	13.5	0.0	1.1	1	0	0	1	1	1	0	TraE	protein
MarR_2	PF12802.7	gi|389848574|ref|YP_006350812.1|	-	0.12	12.3	0.0	0.14	12.1	0.0	1.2	1	0	0	1	1	1	0	MarR	family
Fic	PF02661.18	gi|389848577|ref|YP_006350815.1|	-	1.8e-08	35.1	0.0	7.4e-08	33.2	0.0	1.9	1	1	0	1	1	1	1	Fic/DOC	family
Lactamase_B	PF00753.27	gi|389848579|ref|YP_006350817.1|	-	7.7e-08	32.6	7.0	1.6e-07	31.5	4.2	2.4	2	0	0	2	2	2	1	Metallo-beta-lactamase	superfamily
Lactamase_B_2	PF12706.7	gi|389848579|ref|YP_006350817.1|	-	1.5e-06	27.9	2.0	1.9e-06	27.6	0.6	1.9	2	0	0	2	2	2	1	Beta-lactamase	superfamily	domain
DDE_Tnp_IS240	PF13610.6	gi|389848580|ref|YP_006350818.1|	-	6.4e-31	107.4	0.0	1.1e-30	106.7	0.0	1.3	1	0	0	1	1	1	1	DDE	domain
rve_3	PF13683.6	gi|389848580|ref|YP_006350818.1|	-	4.5e-07	29.5	0.8	8e-07	28.7	0.3	1.7	2	0	0	2	2	2	1	Integrase	core	domain
DDE_Tnp_IS66	PF03050.14	gi|389848580|ref|YP_006350818.1|	-	0.0059	16.1	0.1	0.014	14.9	0.1	1.6	1	1	0	1	1	1	1	Transposase	IS66	family
rve	PF00665.26	gi|389848580|ref|YP_006350818.1|	-	0.0067	16.6	0.3	0.024	14.9	0.1	2.0	2	1	0	2	2	2	1	Integrase	core	domain
DUF2384	PF09722.10	gi|389848580|ref|YP_006350818.1|	-	0.036	14.1	0.0	0.14	12.2	0.0	2.0	2	0	0	2	2	2	0	Protein	of	unknown	function	(DUF2384)
DDE_Tnp_1	PF01609.21	gi|389848580|ref|YP_006350818.1|	-	0.36	10.4	2.7	1.3	8.6	1.0	2.1	1	1	1	2	2	2	0	Transposase	DDE	domain
Phage_integrase	PF00589.22	gi|389848581|ref|YP_006350819.1|	-	1.7e-07	31.2	0.0	3.4e-07	30.2	0.0	1.5	1	0	0	1	1	1	1	Phage	integrase	family
HTH_23	PF13384.6	gi|389848581|ref|YP_006350819.1|	-	0.61	10.0	5.7	17	5.4	0.1	3.7	5	0	0	5	5	5	0	Homeodomain-like	domain
AAA_22	PF13401.6	gi|389848582|ref|YP_006350820.1|	-	3.5e-12	46.8	0.0	1.4e-11	44.8	0.0	1.9	2	0	0	2	2	2	1	AAA	domain
Cdc6_C	PF09079.11	gi|389848582|ref|YP_006350820.1|	-	1e-11	44.6	0.0	2.4e-11	43.5	0.0	1.6	1	0	0	1	1	1	1	CDC6,	C	terminal	winged	helix	domain
AAA_16	PF13191.6	gi|389848582|ref|YP_006350820.1|	-	1.5e-07	32.0	3.0	1.6e-06	28.6	0.0	2.9	2	2	0	2	2	2	1	AAA	ATPase	domain
AAA	PF00004.29	gi|389848582|ref|YP_006350820.1|	-	0.00018	21.9	0.1	0.005	17.3	0.0	2.7	2	1	0	2	2	2	1	ATPase	family	associated	with	various	cellular	activities	(AAA)
AAA_32	PF13654.6	gi|389848582|ref|YP_006350820.1|	-	0.00021	20.3	0.6	0.084	11.6	0.4	2.3	2	0	0	2	2	2	2	AAA	domain
NACHT	PF05729.12	gi|389848582|ref|YP_006350820.1|	-	0.00089	19.2	0.0	0.0018	18.2	0.0	1.6	1	0	0	1	1	1	1	NACHT	domain
DUF815	PF05673.13	gi|389848582|ref|YP_006350820.1|	-	0.008	15.4	0.0	0.015	14.4	0.0	1.5	1	0	0	1	1	1	1	Protein	of	unknown	function	(DUF815)
NB-ARC	PF00931.22	gi|389848582|ref|YP_006350820.1|	-	0.0081	15.4	0.0	0.014	14.6	0.0	1.3	1	0	0	1	1	1	1	NB-ARC	domain
Dak2	PF02734.17	gi|389848582|ref|YP_006350820.1|	-	0.01	15.8	0.8	0.019	14.9	0.8	1.4	1	0	0	1	1	1	0	DAK2	domain
TIP49_C	PF17856.1	gi|389848582|ref|YP_006350820.1|	-	0.017	15.3	0.0	0.04	14.0	0.0	1.6	1	0	0	1	1	1	0	TIP49	AAA-lid	domain
IstB_IS21	PF01695.17	gi|389848582|ref|YP_006350820.1|	-	0.036	13.8	0.2	2.1	8.0	0.0	2.7	3	0	0	3	3	3	0	IstB-like	ATP	binding	protein
AAA_7	PF12775.7	gi|389848582|ref|YP_006350820.1|	-	0.04	13.4	0.0	0.21	11.1	0.0	2.2	3	0	0	3	3	3	0	P-loop	containing	dynein	motor	region
AAA_33	PF13671.6	gi|389848582|ref|YP_006350820.1|	-	0.077	13.2	1.4	0.27	11.4	0.0	2.4	2	1	1	3	3	3	0	AAA	domain
FlgM	PF04316.13	gi|389848582|ref|YP_006350820.1|	-	0.12	12.7	4.1	0.27	11.6	0.3	2.7	1	1	1	2	2	2	0	Anti-sigma-28	factor,	FlgM
RNA_helicase	PF00910.22	gi|389848582|ref|YP_006350820.1|	-	0.13	12.7	0.0	0.29	11.5	0.0	1.6	1	0	0	1	1	1	0	RNA	helicase
PCP_red	PF08369.10	gi|389848582|ref|YP_006350820.1|	-	0.17	12.2	1.0	0.63	10.3	0.6	2.3	2	0	0	2	2	2	0	Proto-chlorophyllide	reductase	57	kD	subunit
AAA_18	PF13238.6	gi|389848582|ref|YP_006350820.1|	-	0.28	11.7	1.8	0.47	11.0	0.0	2.4	3	0	0	3	3	2	0	AAA	domain
HIP1_clath_bdg	PF16515.5	gi|389848582|ref|YP_006350820.1|	-	1.3	9.7	6.7	0.33	11.6	2.4	2.3	2	0	0	2	2	2	0	Clathrin-binding	domain	of	Huntingtin-interacting	protein	1
PQQ_2	PF13360.6	gi|389848583|ref|YP_006350821.1|	-	3.5e-31	108.6	9.9	4.1e-29	101.9	3.2	2.7	1	1	2	3	3	3	3	PQQ-like	domain
PQQ_3	PF13570.6	gi|389848583|ref|YP_006350821.1|	-	1.5e-20	73.0	18.4	6.8e-05	23.2	0.0	7.5	7	0	0	7	7	7	6	PQQ-like	domain
PQQ	PF01011.21	gi|389848583|ref|YP_006350821.1|	-	2.9e-20	71.2	1.7	1.4e-05	24.8	0.0	5.9	5	0	0	5	5	5	4	PQQ	enzyme	repeat
DDE_Tnp_1	PF01609.21	gi|389848584|ref|YP_006350822.1|	-	0.00026	20.7	0.1	0.0003	20.5	0.1	1.1	1	0	0	1	1	1	1	Transposase	DDE	domain
DDE_Tnp_1_4	PF13701.6	gi|389848584|ref|YP_006350822.1|	-	0.0035	15.7	0.0	0.004	15.5	0.0	1.0	1	0	0	1	1	1	1	Transposase	DDE	domain	group	1
LPD1	PF18796.1	gi|389848584|ref|YP_006350822.1|	-	0.013	15.6	0.0	0.017	15.2	0.0	1.3	1	0	0	1	1	1	0	Large	polyvalent	protein-associated	domain	1
ERO1	PF04137.15	gi|389848584|ref|YP_006350822.1|	-	0.026	13.7	0.1	0.03	13.5	0.1	1.1	1	0	0	1	1	1	0	Endoplasmic	Reticulum	Oxidoreductin	1	(ERO1)
HTH_33	PF13592.6	gi|389848585|ref|YP_006350823.1|	-	0.0013	18.3	0.0	0.002	17.7	0.0	1.4	1	0	0	1	1	1	1	Winged	helix-turn	helix
#
# Program:         hmmscan
# Version:         3.2.1 (June 2018)
# Pipeline mode:   SCAN
# Query file:      /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.faa
# Target file:     /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm
# Option settings: /oak/stanford/groups/akundaje/marinovg/programs/hmmer-3.2.1/bin/hmmscan -o /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.PFam32-A --tblout /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.PFam32-A.tblout --cpu 20 /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.faa 
# Current dir:     /oak/stanford/groups/akundaje/marinovg/genomes
# Date:            Mon Mar 25 12:24:24 2019
# [ok]