vOTU vOTU-004402

vOTU: vOTU-004402

Overview

Genome (FASTA) Annotation Track (GFF) Proteins (FASTA) Protein Annotation (TSV)

Cluster properties
vOTU ID	vOTU-004402
Number of genomes	5
Taxonomy (ICTV)	Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes
Taxonomy (UHGV)	vFAM-00005 → vSUBFAM-05196 → vGENUS-10674 → vSUBGEN-14300 → vOTU-004402
Host lineage	Bacteria → Firmicutes → Bacilli → Staphylococcales → Staphylococcaceae → Staphylococcus → Staphylococcus aureus
Host range breadth	Species
Lifestyle	temperate (evidence: integrase)

Representative genome
Genome ID	UHGV-1354446
Biosample ID	SAMN00032842
Genome length (bp)	42,173 bps
CheckV completeness	100.00% (Complete)
CDS count	48
CDS density	93.69%
tRNA count	0
Integrase	Yes
Viral confidence	Confident

Host assignment details
Assignment method	CRISPR
CRISPR-predicted host lineage	Bacteria → Firmicutes → Bacilli → Staphylococcales → Staphylococcaceae → Staphylococcus → Staphylococcus aureus	Total connections	78	Host agreement	97.44
PHIST-predicted host lineage		Total connections		Host agreement

Representative genome content

Select to view: Genome Viewer Functional Annotation

Genome view (completeness: 100)

Functional Annotation

Reference	Gene ID	Reference ID	Bit-score	E-value	Information	Category
KOfam	UHGV-1354446_1	K06223	212.9	0	dam; DNA adenine methylase [EC:2.1.1.72]	N/A
PHROG	UHGV-1354446_1	phrog_56	174.4	0	DNA methyltransferase	other
UniRef90	UHGV-1354446_1	UniRef90_A0A413Z5T1	400.0	0	DNA adenine methylase	N/A
eggNOG-mapper	UHGV-1354446_1	1511.CLOST_1547	332.0	0	D12 class N6 adenine-specific DNA methyltransferase	N/A
PADLOC	UHGV-1354446_1	MTase_II_00030	249.6	0	Type II methyltransferase	RM
Pfam	UHGV-1354446_1	PF02086	N/A	N/A	D12 class N6 adenine-specific DNA methyltransferase	MethyltransfD12
COG	UHGV-1354446_1	COG0338	N/A	N/A	DNA-adenine methylase	N/A
structural_annotation	UHGV-1354446_1	PF02086,MF_01872,NF008152,COG0338	N/A	N/A	N/A	N/A
eggNOG-mapper	UHGV-1354446_3	411468.CLOSCI_00301	124.0	2.37e-36	N/A	N/A
eggNOG-mapper	UHGV-1354446_5	478749.BRYFOR_07594	51.2	0.00000246	N/A	N/A
eggNOG-mapper	UHGV-1354446_8	1379281.AVAG01000091_gene588	59.7	0.00000000141	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids	N/A
Pfam	UHGV-1354446_8	PF00075	N/A	N/A	RNase H	RNase_H
COG	UHGV-1354446_8	COG0328	N/A	N/A	Ribonuclease HI	N/A
structural_annotation	UHGV-1354446_8	PF00075,MF_00042,NF001236,COG0328	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_9	phrog_7566	109.6	1.2e-32	N/A	unknown function
eggNOG-mapper	UHGV-1354446_9	97139.C824_00037	112.0	1.24e-30	N/A	N/A
PHROG	UHGV-1354446_10	phrog_19490	41.9	0.000000000012	N/A	unknown function
PHROG	UHGV-1354446_11	phrog_3584	162.6	0	replication initiation protein	DNA, RNA and nucleotide metabolism
eggNOG-mapper	UHGV-1354446_11	742740.HMPREF9474_04323	204.0	0	N/A	N/A
KOfam	UHGV-1354446_17	K18830	57.9	2.3e-16	pezA; HTH-type transcriptional regulator / antitoxin PezA	N/A
PHROG	UHGV-1354446_17	phrog_8	50.5	0.000000000000043	transcriptional regulator	transcription regulation
UniRef90	UHGV-1354446_17	UniRef90_UPI001D06FE9D	119.0	1.75e-32	helix-turn-helix transcriptional regulator	N/A
eggNOG-mapper	UHGV-1354446_17	97139.C824_05937	101.0	4.42e-26	Helix-turn-helix XRE-family like proteins	N/A
Pfam	UHGV-1354446_17	PF01381	N/A	N/A	Helix-turn-helix	HTH_3
COG	UHGV-1354446_17	COG1396	N/A	N/A	Transcriptional regulator, contains XRE-family HTH domain	N/A
structural_annotation	UHGV-1354446_17	PF01381,MF_00535,NF041951,COG1476	N/A	N/A	N/A	N/A
KOfam	UHGV-1354446_21	K06400	270.3	0	spoIVCA; site-specific DNA recombinase	N/A
PHROG	UHGV-1354446_21	phrog_95	296.6	0	integrase	integration and excision
UniRef90	UHGV-1354446_21	UniRef90_UPI001D065D50	582.0	0	recombinase family protein	N/A
eggNOG-mapper	UHGV-1354446_21	1235798.C817_01900	549.0	0	Resolvase, N terminal domain	N/A
Pfam	UHGV-1354446_21	PF00239	N/A	N/A	Resolvase, N terminal domain	Resolvase
Pfam	UHGV-1354446_21	PF13408	N/A	N/A	Recombinase zinc beta ribbon domain	Zn_ribbon_recom
COG	UHGV-1354446_21	COG1961	N/A	N/A	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	N/A
structural_annotation	UHGV-1354446_21	PF00239,NF041201,COG1961	N/A	N/A	N/A	N/A
KOfam	UHGV-1354446_22	K01447	83.4	3.7e-24	xlyAB; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	N/A
PHROG	UHGV-1354446_22	phrog_1794	76.2	1.4e-23	amidase	lysis
UniRef90	UHGV-1354446_22	UniRef90_A0A4S2A844	409.0	0	N-acetylmuramoyl-L-alanine amidase	N/A
eggNOG-mapper	UHGV-1354446_22	610130.Closa_0864	118.0	7.18e-29	Ami_2	N/A
Pfam	UHGV-1354446_22	PF01510	N/A	N/A	N-acetylmuramoyl-L-alanine amidase	Amidase_2
COG	UHGV-1354446_22	COG5632	N/A	N/A	N-acetylmuramoyl-L-alanine amidase CwlA	N/A
structural_annotation	UHGV-1354446_22	PF01510,PF18342,MF_04111,NF008758,COG5632	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_23	phrog_1048	162.9	0	N/A	unknown function
UniRef90	UHGV-1354446_23	UniRef90_UPI00156DCDC3	260.0	0	N/A	N/A
eggNOG-mapper	UHGV-1354446_23	457412.RSAG_01107	231.0	0	N/A	N/A
Pfam	UHGV-1354446_23	PF11195	N/A	N/A	N/A	DUF2829
dbAPIS	UHGV-1354446_23	APIS029	N/A	N/A	Tad2 is a "sponge" that sequesters the immune signaling molecules produced by Thoeris TIR-domain proteins in response to phage.	N/A
structural_annotation	UHGV-1354446_23	PF11195	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_24	phrog_199	60.2	2.5e-17	holin	lysis
UniRef90	UHGV-1354446_24	UniRef90_A0A7M2RJZ1	223.0	0	Phage holin family protein	N/A
eggNOG-mapper	UHGV-1354446_24	742723.HMPREF9477_00889	169.0	0	Bacteriophage holin family	N/A
Pfam	UHGV-1354446_24	PF05105	N/A	N/A	Bacteriophage holin family	Phage_holin_4_1
NCBIFam	UHGV-1354446_24	TIGR01593.1	N/A	N/A	toxin secretion/phage lysis holin	N/A
COG	UHGV-1354446_24	COG4824	N/A	N/A	Phage-related holin (Lysis protein)	N/A
structural_annotation	UHGV-1354446_24	PF05105,TIGR01593,COG4824	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_25	phrog_22978	683.1	0	N/A	unknown function
UniRef90	UHGV-1354446_25	UniRef90_A0A396KH15	673.0	0	PBECR3 domain-containing protein	N/A
eggNOG-mapper	UHGV-1354446_25	1410650.JHWL01000003_gene2814	495.0	0	N/A	N/A
Pfam	UHGV-1354446_25	PF18819	N/A	N/A	Phage MuF-C-terminal domain	MuF_C
eggNOG-mapper	UHGV-1354446_26	1410650.JHWL01000003_gene2815	91.3	2.97e-17	N/A	N/A
PHROG	UHGV-1354446_29	phrog_511	245.1	0	internal virion protein	head and packaging
eggNOG-mapper	UHGV-1354446_29	1519439.JPJG01000060_gene1903	382.0	0	N/A	N/A
structural_annotation	UHGV-1354446_29	PF11134,TIGR03300,NF038126,COG1520	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_30	phrog_12105	125.6	1.7e-37	N/A	unknown function
eggNOG-mapper	UHGV-1354446_30	411470.RUMGNA_02214	53.5	0.000000869	N/A	N/A
PHROG	UHGV-1354446_32	phrog_24896	80.0	2.5e-24	N/A	unknown function
UniRef90	UHGV-1354446_32	UniRef90_D4N0S9	1654.0	0	CotH protein	N/A
eggNOG-mapper	UHGV-1354446_32	1121098.HMPREF1534_03355	192.0	0	N/A	N/A
Pfam	UHGV-1354446_32	PF08757	N/A	N/A	CotH kinase protein	CotH
eggNOG-mapper	UHGV-1354446_33	411470.RUMGNA_02214	49.3	0.00000238	N/A	N/A
structural_annotation	UHGV-1354446_33	PF08948,MF_01537,NF007541,COG3123	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_34	phrog_15239	113.0	1.1e-33	N/A	unknown function
PHROG	UHGV-1354446_35	phrog_1357	284.1	0	major head protein	head and packaging
UniRef90	UHGV-1354446_35	UniRef90_UPI000B8B3F29	503.0	0	N4-gp56 family major capsid protein	N/A
eggNOG-mapper	UHGV-1354446_35	411483.FAEPRAA2165_01040	360.0	0	N/A	N/A
Pfam	UHGV-1354446_35	PF13252	N/A	N/A	N/A	DUF4043
NCBIFam	UHGV-1354446_35	TIGR04387.1	N/A	N/A	N4-gp56 family major capsid protein	N/A
structural_annotation	UHGV-1354446_35	PF13252,MF_04119,TIGR04387,COG4653	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_36	phrog_13908	270.2	0	N/A	unknown function
eggNOG-mapper	UHGV-1354446_36	1410650.JHWL01000003_gene2831	114.0	6.69e-27	N/A	N/A
KOfam	UHGV-1354446_37	K07584	63.5	4.1e-18	N/A	N/A
PHROG	UHGV-1354446_37	phrog_4478	65.5	6.1e-19	peptidase	other
UniRef90	UHGV-1354446_37	UniRef90_UPI001C029225	61.2	0.000000000484	ribosomal-processing cysteine protease Prp	N/A
Pfam	UHGV-1354446_37	PF04327	N/A	N/A	Cysteine protease Prp	Peptidase_Prp
COG	UHGV-1354446_37	COG2868	N/A	N/A	N/A	N/A
structural_annotation	UHGV-1354446_37	PF04327,NF011133,COG2868	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_38	phrog_156	310.1	0	portal protein	head and packaging
UniRef90	UHGV-1354446_38	UniRef90_A0A8D9UH10	556.0	0	Portal protein	N/A
eggNOG-mapper	UHGV-1354446_38	748224.HMPREF9436_01396	555.0	0	N/A	N/A
structural_annotation	UHGV-1354446_38	PF16510,MF_04120,TIGR01538,COG4383	N/A	N/A	N/A	N/A
KOfam	UHGV-1354446_39	K06909	119.4	3.7e-35	xtmB; phage terminase large subunit	N/A
PHROG	UHGV-1354446_39	phrog_979	199.4	0	terminase large subunit	head and packaging
UniRef90	UHGV-1354446_39	UniRef90_A0A416JVL2	724.0	0	Terminase-like family protein	N/A
eggNOG-mapper	UHGV-1354446_39	411483.FAEPRAA2165_01044	673.0	0	Terminase-like family	N/A
Pfam	UHGV-1354446_39	PF03237	N/A	N/A	Terminase large subunit, T4likevirus-type, N-terminal	Terminase_6N
COG	UHGV-1354446_39	COG1783	N/A	N/A	Phage terminase large subunit	N/A
structural_annotation	UHGV-1354446_39	PF04466,PF20454,MF_04148,TIGR01547,COG1783	N/A	N/A	N/A	N/A
KOfam	UHGV-1354446_40	K07474	87.3	2.3e-25	xtmA; phage terminase small subunit	N/A
PHROG	UHGV-1354446_40	phrog_2606	215.0	0	terminase small subunit	head and packaging
UniRef90	UHGV-1354446_40	UniRef90_UPI001CD60BBE	180.0	0	terminase small subunit	N/A
eggNOG-mapper	UHGV-1354446_40	411490.ANACAC_00784	173.0	0	terminase, small subunit	N/A
Pfam	UHGV-1354446_40	PF03592	N/A	N/A	Terminase small subunit	Terminase_2
COG	UHGV-1354446_40	COG3728	N/A	N/A	Phage terminase, small subunit	N/A
structural_annotation	UHGV-1354446_40	PF03592,PF10668,NF040601,COG3728	N/A	N/A	N/A	N/A
PHROG	UHGV-1354446_42	phrog_15077	96.0	7e-28	N/A	unknown function
eggNOG-mapper	UHGV-1354446_42	742740.HMPREF9474_03494	79.7	0.0000000000000118	N/A	N/A
KOfam	UHGV-1354446_48	K00390	89.8	2.1e-26	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	N/A
PHROG	UHGV-1354446_48	phrog_424	119.4	2.6e-35	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UniRef90	UHGV-1354446_48	UniRef90_R6RDV3	436.0	0	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes	N/A
eggNOG-mapper	UHGV-1354446_48	411490.ANACAC_02386	358.0	0	Phosphoadenosine phosphosulfate reductase	N/A
Pfam	UHGV-1354446_48	PF01507	N/A	N/A	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
COG	UHGV-1354446_48	COG0175	N/A	N/A	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	N/A
structural_annotation	UHGV-1354446_48	PF01507,MF_00063,NF010369,COG0175	N/A	N/A	N/A	N/A

All viral genomes

ID	Representative?	Length (bps)	% GC Content	CheckV Completeness	geNomad Score
UHGV-1354446	Yes	42,173	43	100	1
UHGV-1931796	No	42,173	43	100	1
UHGV-1495849	No	42,829	44	100	1
UHGV-2242427	No	39,804	43	94	1
UHGV-0214104	No	38,596	44	92	1