UHGV-2158423

Genome information

Genome length 40,793 bps

CDS count 52

Completeness 99.90% (high-quality)

geNomad score 0.9481

Prediction confidence Confident

Genome information
Genome ID	UHGV-2158423
vOTU ID	vOTU-068100
vOTU representative	Yes
Source dataset	IMG/VR v4
Original genome ID	3300029739\|Ga0245187_100089\|provirus_71494_112286
BioSample	SAMEA3449239
Country	United Kingdom
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	99.90% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	7
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9481
Virus hallmark genes (geNomad)	3
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	26.08
Jumbo phage	No

Genome content
Genome length	40,793 bps
GC content	52.69%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	52
CDS density	88.99%
Average CDS length	700.15 bps
tRNA count	0
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-2158423_1	KOfam	K14059	int; integrase	NA
UHGV-2158423_1	PHROG	phrog_1	integrase	integration and excision
UHGV-2158423_1	UniRef90	UniRef90_A0A7G6DT43	Tyrosine-type recombinase/integrase	NA
UHGV-2158423_1	eggNOG-mapper	349741.Amuc_0600	Belongs to the 'phage' integrase family	NA
UHGV-2158423_1	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-2158423_1	COG	COG4974	Site-specific recombinase XerD	NA
UHGV-2158423_2	PHROG	phrog_11747	NA	unknown function
UHGV-2158423_2	UniRef90	UniRef90_A0A7X1LCX4	Serine protease	NA
UHGV-2158423_2	eggNOG-mapper	933262.AXAM01000092_gene2926	Serine dehydrogenase proteinase	NA
UHGV-2158423_2	Pfam	PF01972	Serine dehydrogenase proteinase	SDH_sah
UHGV-2158423_2	COG	COG0616	Periplasmic serine protease, ClpP class	NA
UHGV-2158423_2	Structural annotation	PF01972, MF_00444, TIGR00706, COG0740	NA	NA
UHGV-2158423_5	UniRef90	UniRef90_A0A8F1HQM4	Caspase family protein	NA
UHGV-2158423_5	eggNOG-mapper	1121896.JMLU01000032_gene868	Caspase domain	NA
UHGV-2158423_5	COG	COG4249	NA	NA
UHGV-2158423_9	PHROG	phrog_124	Sak4-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-2158423_9	UniRef90	UniRef90_A0A8F1HQF8	ATP-binding protein	NA
UHGV-2158423_9	eggNOG-mapper	1410624.JNKK01000055_gene2198	AAA domain	NA
UHGV-2158423_9	Pfam	PF13479	AAA domain	AAA_24
UHGV-2158423_9	Structural annotation	PF13479, MF_00350, TIGR01618, COG0468	NA	NA
UHGV-2158423_10	UniRef90	UniRef90_A0A410S925	NA	NA
UHGV-2158423_10	eggNOG-mapper	1403819.BATR01000122_gene4275	NA	NA
UHGV-2158423_10	Pfam	PF10926	NA	DUF2800
UHGV-2158423_12	KOfam	K01160	rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]	NA
UHGV-2158423_12	PHROG	phrog_140	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-2158423_12	UniRef90	UniRef90_A0A4Q5ITS8	RusA family crossover junction endodeoxyribonuclease	NA
UHGV-2158423_12	eggNOG-mapper	608534.GCWU000341_02308	endodeoxyribonuclease RusA	NA
UHGV-2158423_12	Pfam	PF05866	Endodeoxyribonuclease RusA	RusA
UHGV-2158423_12	COG	COG4570	Holliday junction resolvase RusA (prophage-encoded endonuclease)	NA
UHGV-2158423_12	Structural annotation	PF05866, NF007305, COG4570	NA	NA
UHGV-2158423_14	Structural annotation	MF_01326_A, NF007260, NF005100	NA	NA
UHGV-2158423_15	PHROG	phrog_3136	NA	unknown function
UHGV-2158423_15	UniRef90	UniRef90_A0A7G6DT27	ASCH domain-containing protein	NA
UHGV-2158423_15	eggNOG-mapper	97139.C824_00742	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome	NA
UHGV-2158423_15	COG	COG4933	Predicted transcriptional regulator, contains an HTH and PUA-like domains	NA
UHGV-2158423_15	Structural annotation	PF04266, MF_00684, NF008917, COG4933	NA	NA
UHGV-2158423_17	PHROG	phrog_954	DNA methyltransferase	other
UHGV-2158423_17	UniRef90	UniRef90_A0A410S9A2	Class I SAM-dependent methyltransferase	NA
UHGV-2158423_17	eggNOG-mapper	1395513.P343_12775	DNA (cytosine-5-)-methyltransferase activity	NA
UHGV-2158423_17	PADLOC	MTase_II_00074	Type II methyltransferase	RM
UHGV-2158423_17	Pfam	PF13649	Methyltransferase domain	Methyltransf_25
UHGV-2158423_17	Pfam	PF08241	Methyltransferase domain	Methyltransf_11
UHGV-2158423_17	COG	COG0500	SAM-dependent methyltransferase	NA
UHGV-2158423_17	Structural annotation	PF01170, MF_01057, TIGR00446, COG4123	NA	NA
UHGV-2158423_19	KOfam	K02314	dnaB; replicative DNA helicase [EC:5.6.2.3]	NA
UHGV-2158423_19	PHROG	phrog_19	DnaB-like replicative helicase	DNA, RNA and nucleotide metabolism
UHGV-2158423_19	UniRef90	UniRef90_A0A410S8Z8	DNA helicase	NA
UHGV-2158423_19	eggNOG-mapper	349741.Amuc_1377	DnaB-like helicase C terminal domain	NA
UHGV-2158423_19	Pfam	PF00772	DnaB-like helicase N terminal domain	DnaB
UHGV-2158423_19	Pfam	PF03796	DnaB-like helicase C terminal domain	DnaB_C
UHGV-2158423_19	COG	COG0305	Replicative DNA helicase	NA
UHGV-2158423_19	Structural annotation	PF03796, PF00772, MF_04155, TIGR00665, COG0305	NA	NA
UHGV-2158423_21	KOfam	K11044	spyA; C3 family ADP-ribosyltransferase [EC:2.4.2.-]	NA
UHGV-2158423_21	PHROG	phrog_16625	NA	unknown function
UHGV-2158423_21	UniRef90	UniRef90_A0A4Q5IVQ1	ADPrib_exo_Tox domain-containing protein	NA
UHGV-2158423_21	eggNOG-mapper	563192.HMPREF0179_00384	Phage Mu protein F like protein	NA
UHGV-2158423_21	Pfam	PF03496	ADP-ribosyltransferase exoenzyme	ADPrib_exo_Tox
UHGV-2158423_21	COG	COG2369	NA	NA
UHGV-2158423_23	PHROG	phrog_1482	terminase small subunit	head and packaging
UHGV-2158423_23	UniRef90	UniRef90_UPI0009AEAD69	ubiquitin carboxyl-hydrolase	NA
UHGV-2158423_23	eggNOG-mapper	521000.PROVRETT_06006	NA	NA
UHGV-2158423_23	Pfam	PF20901	Bacteriophage Sf6, terminase small subunit-like	Sf6_terminase
UHGV-2158423_24	PHROG	phrog_2	terminase large subunit	head and packaging
UHGV-2158423_24	UniRef90	UniRef90_A0A1C7PDG0	p-loop containing nucleoside triphosphate hydrolase	NA
UHGV-2158423_24	eggNOG-mapper	411459.RUMOBE_01049	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD	NA
UHGV-2158423_24	COG	COG0507	ATPase/5'-3' helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V)	NA
UHGV-2158423_24	Structural annotation	PF04466, PF20441, MF_04145, TIGR01547, COG4373	NA	NA
UHGV-2158423_25	Structural annotation	PF05587, PF03388, COG3506	NA	NA
UHGV-2158423_27	UniRef90	UniRef90_UPI001EDF593B	NA	NA
UHGV-2158423_29	PHROG	phrog_315	endolysin	lysis
UHGV-2158423_29	UniRef90	UniRef90_A0A410SED1	PG_binding_3 domain-containing protein	NA
UHGV-2158423_29	eggNOG-mapper	349741.Amuc_1360	Glycosyl hydrolase 108	NA
UHGV-2158423_29	Pfam	PF09374	Predicted Peptidoglycan domain	PG_binding_3
UHGV-2158423_29	COG	COG3926	Lysozyme family protein	NA
UHGV-2158423_29	Structural annotation	PF09374, NF040573, COG3926	NA	NA
UHGV-2158423_30	PHROG	phrog_113	portal protein	head and packaging
UHGV-2158423_30	UniRef90	UniRef90_A0A4Q5IVR1	NA	NA
UHGV-2158423_30	eggNOG-mapper	794903.OPIT5_08305	NA	NA
UHGV-2158423_30	Pfam	PF06074	NA	DUF935
UHGV-2158423_30	COG	COG4383	NA	NA
UHGV-2158423_33	KOfam	K06079	cutF, nlpE; copper homeostasis protein (lipoprotein)	NA
UHGV-2158423_33	UniRef90	UniRef90_A0A641W1J7	Copper resistance protein NlpE	NA
UHGV-2158423_33	eggNOG-mapper	349741.Amuc_1432	regulation of cell-substrate adhesion	NA
UHGV-2158423_33	Pfam	PF04170	NlpE N-terminal domain	NlpE
UHGV-2158423_33	COG	COG3015	NA	NA
UHGV-2158423_34	PHROG	phrog_328	head maturation protease	head and packaging
UHGV-2158423_34	UniRef90	UniRef90_UPI001C023827	phage protease	NA
UHGV-2158423_34	eggNOG-mapper	794903.OPIT5_08310	P22 coat protein - gene protein 5	NA
UHGV-2158423_34	Pfam	PF10123	Mu-like prophage I protein	Mu-like_Pro
UHGV-2158423_35	eggNOG-mapper	521674.Plim_2126	NA	NA
UHGV-2158423_35	Pfam	PF20911	Major capsid protein GP7	GP7
UHGV-2158423_35	Structural annotation	PF20911, MF_04133, NF041162, COG4397	NA	NA
UHGV-2158423_36	Structural annotation	PF21190, TIGR03511, COG4935	NA	NA
UHGV-2158423_42	Structural annotation	PF14594, TIGR01646, COG4379	NA	NA
UHGV-2158423_43	Structural annotation	PF18404, MF_01520, TIGR03469, COG1442	NA	NA
UHGV-2158423_44	Structural annotation	PF18654, TIGR00606, COG0268	NA	NA
UHGV-2158423_45	UniRef90	UniRef90_A0A8F1HPS2	NA	NA
UHGV-2158423_45	Pfam	PF14237	GYF domain 2	GYF_2
UHGV-2158423_46	KOfam	K14623	dinD; DNA-damage-inducible protein D	NA
UHGV-2158423_46	PHROG	phrog_8036	NA	unknown function
UHGV-2158423_46	UniRef90	UniRef90_UPI001E508C54	DNA damage-inducible protein D	NA
UHGV-2158423_46	eggNOG-mapper	537007.BLAHAN_04376	NA	NA
UHGV-2158423_46	AcrCatalog	cluster_17589	NA	NA
UHGV-2158423_46	PADLOC	Specificity_I_00032	Type I specificity subunit	RM
UHGV-2158423_46	Pfam	PF02498	BRO family, N-terminal domain	Bro-N
UHGV-2158423_46	NCBIFam	NF008573.0	DNA damage-inducible protein D	NA
UHGV-2158423_46	COG	COG3645	Phage antirepressor protein YoqD, KilAC domain	NA
UHGV-2158423_46	Structural annotation	PF09669, NF008573, COG3646	NA	NA
UHGV-2158423_48	KOfam	K00390	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	NA
UHGV-2158423_48	PHROG	phrog_2302	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-2158423_48	UniRef90	UniRef90_A0A2N8IRT3	Phosphoadenosine phosphosulfate reductase	NA
UHGV-2158423_48	eggNOG-mapper	349741.Amuc_0783	Phosphoadenosine phosphosulfate reductase	NA
UHGV-2158423_48	Pfam	PF01507	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
UHGV-2158423_48	Pfam	PF11922	NA	DUF3440
UHGV-2158423_48	COG	COG3969	NA	NA
UHGV-2158423_48	Structural annotation	PF11922, PF01507, MF_00063, NF006327, COG3969	NA	NA
UHGV-2158423_49	PHROG	phrog_2159	ParB-like partition protein	DNA, RNA and nucleotide metabolism
UHGV-2158423_49	UniRef90	UniRef90_A0A2N8IDT6	Chromosome partitioning protein ParB	NA
UHGV-2158423_49	eggNOG-mapper	349741.Amuc_0782	ParB domain protein nuclease	NA
UHGV-2158423_49	Pfam	PF02195	ParB/Sulfiredoxin domain	ParBc
UHGV-2158423_49	COG	COG1475	Chromosome segregation protein Spo0J, contains ParB-like nuclease domain	NA
UHGV-2158423_49	Structural annotation	PF02195, MF_02015, TIGR04285, COG1475	NA	NA
UHGV-2158423_52	KOfam	K01174	nuc; micrococcal nuclease [EC:3.1.31.1]	NA
UHGV-2158423_52	PHROG	phrog_8809	NA	unknown function
UHGV-2158423_52	UniRef90	UniRef90_A0A2N8IRS5	TNase-like domain-containing protein	NA
UHGV-2158423_52	eggNOG-mapper	349741.Amuc_0779	Staphylococcal nuclease homologues	NA
UHGV-2158423_52	PADLOC	shah_acc_0212	SNc+LTD	CRISPR-CAS
UHGV-2158423_52	Pfam	PF00565	Staphylococcal nuclease homologue	SNase
UHGV-2158423_52	COG	COG1525	Endonuclease YncB, thermonuclease family	NA
UHGV-2158423_52	Structural annotation	PF00565, MF_00075, NF005083, COG1525	NA	NA