UHGV-0002058

Genome information

Genome length 46,514 bps

CDS count 62

Completeness 99.90% (high-quality)

geNomad score 0.9793

Prediction confidence Confident

Genome information
Genome ID	UHGV-0002058
vOTU ID	vOTU-076851
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_MoBio_hadza-E-H_C_6_1832__NODE_338_length_65269_cov_14.476853_1
BioSample	SAMEA4766065
Country	Tanzania
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	10
CheckV host markers	2
Recoded stop codon	No

Viral signal
geNomad score	0.9793
Virus hallmark genes (geNomad)	7
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	24.91
Jumbo phage	No

Genome content
Genome length	46,514 bps
GC content	45.92%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	62
CDS density	90.17%
Average CDS length	680.37 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-0002058_1	KOfam	K21688	rpfB; resuscitation-promoting factor RpfB	NA
UHGV-0002058_1	PHROG	phrog_2307	L-alanyl-D-glutamate peptidase	other
UHGV-0002058_1	UniRef90	UniRef90_UPI000986CE89	3D domain-containing protein	NA
UHGV-0002058_1	eggNOG-mapper	1392487.JIAD01000001_gene1213	3D domain	NA
UHGV-0002058_1	Pfam	PF03990	G5-linked-Ubiquitin-like domain	DUF348
UHGV-0002058_1	Pfam	PF06725	3D domain	3D
UHGV-0002058_1	COG	COG3584	3D (Asp-Asp-Asp) domain, usually in lytic transglycosylases	NA
UHGV-0002058_3	UniRef90	UniRef90_A0A6N7XJQ8	PIN7 domain-containing protein	NA
UHGV-0002058_3	eggNOG-mapper	511680.BUTYVIB_02069	NA	NA
UHGV-0002058_3	Pfam	PF18475	PIN domain	PIN7
UHGV-0002058_4	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0002058_4	COG	COG1476	DNA-binding transcriptional regulator, XRE-family HTH domain	NA
UHGV-0002058_4	Structural annotation	PF13560, MF_00535, NF041951, COG1476	NA	NA
UHGV-0002058_6	Structural annotation	PF18573, NF033147	NA	NA
UHGV-0002058_7	eggNOG-mapper	476272.RUMHYD_01770	NA	NA
UHGV-0002058_9	PHROG	phrog_21718	NA	unknown function
UHGV-0002058_9	eggNOG-mapper	397290.C810_05210	NA	NA
UHGV-0002058_10	Structural annotation	PF07638, MF_00674, TIGR02954, COG1846	NA	NA
UHGV-0002058_11	KOfam	K19304	mepM; murein DD-endopeptidase [EC:3.4.24.-]	NA
UHGV-0002058_11	PHROG	phrog_22978	NA	unknown function
UHGV-0002058_11	eggNOG-mapper	748449.Halha_1635	Peptidase family M23	NA
UHGV-0002058_11	Pfam	PF01551	Peptidase family M23	Peptidase_M23
UHGV-0002058_11	COG	COG0739	Murein DD-endopeptidase MepM and murein hydrolase activator NlpD, contains LysM domain	NA
UHGV-0002058_12	eggNOG-mapper	1203606.HMPREF1526_02741	NA	NA
UHGV-0002058_13	eggNOG-mapper	411469.EUBHAL_00974	CHAP domain	NA
UHGV-0002058_13	COG	COG0741	Soluble lytic murein transglycosylase or regulatory protein s ( may contain LysM/invasin domain)	NA
UHGV-0002058_13	Structural annotation	PF18341, NF040678, COG4991	NA	NA
UHGV-0002058_14	KOfam	K01448	amiABC; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0002058_14	PHROG	phrog_435	endolysin	lysis
UHGV-0002058_14	UniRef90	UniRef90_A0A6N7X525	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0002058_14	eggNOG-mapper	1392487.JIAD01000001_gene506	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0002058_14	Pfam	PF01520	N-acetylmuramoyl-L-alanine amidase	Amidase_3
UHGV-0002058_14	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0002058_14	Structural annotation	PF01520, MF_00562, TIGR02883, COG0860	NA	NA
UHGV-0002058_15	PHROG	phrog_1129	holin	lysis
UHGV-0002058_15	UniRef90	UniRef90_A0A2S0L5I2	Holin	NA
UHGV-0002058_15	eggNOG-mapper	1158601.I585_01143	Phage holin family Hol44, in holin superfamily V	NA
UHGV-0002058_15	Pfam	PF16079	Phage holin family Hol44, in holin superfamily V	Phage_holin_5_2
UHGV-0002058_15	Structural annotation	PF06946	NA	NA
UHGV-0002058_16	eggNOG-mapper	657322.FPR_21890	NA	NA
UHGV-0002058_17	PHROG	phrog_6465	tail protein	tail
UHGV-0002058_19	PHROG	phrog_6465	tail protein	tail
UHGV-0002058_19	UniRef90	UniRef90_A2DNJ6	Tail fiber protein, putative	NA
UHGV-0002058_19	eggNOG-mapper	1410624.JNKK01000017_gene1989	the current gene model (or a revised gene model) may contain a frame shift	NA
UHGV-0002058_19	COG	COG4675	Phage tail collar domain	NA
UHGV-0002058_19	Structural annotation	COG4675	NA	NA
UHGV-0002058_20	PHROG	phrog_24103	NA	unknown function
UHGV-0002058_20	eggNOG-mapper	1118055.CAGU01000013_gene761	NA	NA
UHGV-0002058_22	PHROG	phrog_511	internal virion protein	head and packaging
UHGV-0002058_22	UniRef90	UniRef90_A0A348ZD54	Dockerin domain-containing protein	NA
UHGV-0002058_22	eggNOG-mapper	1321782.HMPREF1986_00351	NA	NA
UHGV-0002058_22	Structural annotation	PF11134, TIGR03300, NF038126, COG1520	NA	NA
UHGV-0002058_23	PHROG	phrog_12105	NA	unknown function
UHGV-0002058_23	eggNOG-mapper	1226322.HMPREF1545_03850	NA	NA
UHGV-0002058_24	PHROG	phrog_15239	NA	unknown function
UHGV-0002058_25	PHROG	phrog_1357	major head protein	head and packaging
UHGV-0002058_25	UniRef90	UniRef90_UPI001CF8B373	N4-gp56 family major capsid protein	NA
UHGV-0002058_25	eggNOG-mapper	748224.HMPREF9436_01399	NA	NA
UHGV-0002058_25	Pfam	PF13252	NA	DUF4043
UHGV-0002058_25	NCBIFam	TIGR04387.1	N4-gp56 family major capsid protein	NA
UHGV-0002058_25	Structural annotation	PF13252, MF_04119, TIGR04387, COG4653	NA	NA
UHGV-0002058_26	PHROG	phrog_13908	NA	unknown function
UHGV-0002058_26	UniRef90	UniRef90_A0A174CZ20	Predicted ribosomal protein	NA
UHGV-0002058_26	eggNOG-mapper	1410650.JHWL01000003_gene2831	NA	NA
UHGV-0002058_28	PHROG	phrog_156	portal protein	head and packaging
UHGV-0002058_28	eggNOG-mapper	748224.HMPREF9436_01396	NA	NA
UHGV-0002058_28	Structural annotation	PF16510, MF_04120, TIGR01538, COG4383	NA	NA
UHGV-0002058_29	KOfam	K06909	xtmB; phage terminase large subunit	NA
UHGV-0002058_29	PHROG	phrog_979	terminase large subunit	head and packaging
UHGV-0002058_29	UniRef90	UniRef90_UPI001CF909A5	phage terminase large subunit	NA
UHGV-0002058_29	eggNOG-mapper	1410650.JHWL01000003_gene2834	NA	NA
UHGV-0002058_29	Pfam	PF04466	Phage terminase large subunit	Terminase_3
UHGV-0002058_29	COG	COG1783	Phage terminase large subunit	NA
UHGV-0002058_29	Structural annotation	PF04466, PF20454, MF_04148, TIGR01547, COG1783	NA	NA
UHGV-0002058_30	Structural annotation	NF040601	NA	NA
UHGV-0002058_31	dbAPIS	APIS063	NA	NA
UHGV-0002058_31	Structural annotation	PF07275, COG4734	NA	NA
UHGV-0002058_33	Structural annotation	PF07878, NF010256, COG4877	NA	NA
UHGV-0002058_35	PHROG	phrog_2245	nucleoside triphosphate pyrophosphohydrolase	other
UHGV-0002058_35	UniRef90	UniRef90_A0A846K3D1	MazG domain-containing protein	NA
UHGV-0002058_35	Structural annotation	NF001611, COG1694	NA	NA
UHGV-0002058_36	PHROG	phrog_355	nucleoside 2-deoxyribosyltransferase	DNA, RNA and nucleotide metabolism
UHGV-0002058_36	UniRef90	UniRef90_A0A3R6IMQ7	NA	NA
UHGV-0002058_36	eggNOG-mapper	411473.RUMCAL_00360	NA	NA
UHGV-0002058_36	Pfam	PF14359	NA	DUF4406
UHGV-0002058_36	Structural annotation	PF14359, COG3613	NA	NA
UHGV-0002058_39	PHROG	phrog_21026	NA	unknown function
UHGV-0002058_43	PHROG	phrog_190	Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0002058_43	UniRef90	UniRef90_A0A6N7XIA3	NA	NA
UHGV-0002058_43	eggNOG-mapper	1236514.BAKL01000051_gene3708	NA	NA
UHGV-0002058_43	Pfam	PF06356	NA	DUF1064
UHGV-0002058_43	Structural annotation	PF06356	NA	NA
UHGV-0002058_45	KOfam	K22300	dicA; HTH-type transcriptional regulator, cell division transcriptional repressor	NA
UHGV-0002058_45	PHROG	phrog_3	transcriptional repressor	transcription regulation
UHGV-0002058_45	UniRef90	UniRef90_UPI0012923FF4	helix-turn-helix domain-containing protein	NA
UHGV-0002058_45	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0002058_45	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0002058_45	Structural annotation	PF13560, MF_00535, TIGR03070, COG1396	NA	NA
UHGV-0002058_46	PHROG	phrog_474	phosphofructokinase	other
UHGV-0002058_46	UniRef90	UniRef90_UPI001D174B3C	NA	NA
UHGV-0002058_46	eggNOG-mapper	1111121.HMPREF1247_0807	NA	NA
UHGV-0002058_46	Pfam	PF19905	NA	DUF6378
UHGV-0002058_46	Structural annotation	PF19905	NA	NA
UHGV-0002058_47	eggNOG-mapper	760568.Desku_0919	NA	NA
UHGV-0002058_47	Structural annotation	PF03787, TIGR02581, COG1604	NA	NA
UHGV-0002058_50	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0002058_50	PHROG	phrog_50	DnaC-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0002058_50	UniRef90	UniRef90_A0A6N7X559	AAA family ATPase	NA
UHGV-0002058_50	eggNOG-mapper	1256908.HMPREF0373_01003	NA	NA
UHGV-0002058_50	Pfam	PF01695	IstB-like ATP binding protein	IstB_IS21
UHGV-0002058_50	COG	COG1484	DNA replication protein DnaC	NA
UHGV-0002058_50	Structural annotation	PF01695, MF_00377, NF005992, COG1484	NA	NA
UHGV-0002058_51	PHROG	phrog_270	replication initiation protein	DNA, RNA and nucleotide metabolism
UHGV-0002058_51	UniRef90	UniRef90_A0A843H4R1	Helix-turn-helix domain-containing protein	NA
UHGV-0002058_51	eggNOG-mapper	411490.ANACAC_00800	NA	NA
UHGV-0002058_51	Pfam	PF13730	Helix-turn-helix domain	HTH_36
UHGV-0002058_51	Structural annotation	PF05584, MF_01819, TIGR01610, COG3355	NA	NA
UHGV-0002058_52	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0002058_52	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0002058_52	UniRef90	UniRef90_R6DY76	Single-stranded DNA-binding protein	NA
UHGV-0002058_52	eggNOG-mapper	936375.HMPREF1152_1764	Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism	NA
UHGV-0002058_52	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0002058_52	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0002058_52	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0002058_52	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0002058_52	Structural annotation	PF00436, MF_00984, NF005580, COG0629	NA	NA
UHGV-0002058_53	PHROG	phrog_72	NinB/ Orf homologous recombination mediator	DNA, RNA and nucleotide metabolism
UHGV-0002058_53	UniRef90	UniRef90_A0A8D9PDS2	NinB protein	NA
UHGV-0002058_53	eggNOG-mapper	445972.ANACOL_01825	NA	NA
UHGV-0002058_53	Structural annotation	PF05772, NF007281	NA	NA
UHGV-0002058_54	PHROG	phrog_7566	NA	unknown function
UHGV-0002058_54	UniRef90	UniRef90_A0A3R6Y3R0	Phosphoenolpyruvate carboxykinase	NA
UHGV-0002058_54	eggNOG-mapper	411459.RUMOBE_00948	NA	NA
UHGV-0002058_55	PHROG	phrog_11717	NA	unknown function
UHGV-0002058_55	eggNOG-mapper	508419.F8J181_9CAUD	NA	NA
UHGV-0002058_55	Structural annotation	PF04404, TIGR00607, COG4712	NA	NA
UHGV-0002058_59	eggNOG-mapper	28042.GU90_05935	TIGRFAM DNA binding domain, excisionase family	NA
UHGV-0002058_59	Pfam	PF12728	Helix-turn-helix domain	HTH_17
UHGV-0002058_59	NCBIFam	TIGR01764.1	excisionase family DNA-binding protein	NA
UHGV-0002058_59	COG	COG3311	DNA-binding transcriptional regulator AlpA	NA
UHGV-0002058_59	Structural annotation	PF12728, TIGR01764, COG3311	NA	NA
UHGV-0002058_60	UniRef90	UniRef90_A0A371IJV0	XRE family transcriptional regulator	NA
UHGV-0002058_60	eggNOG-mapper	1298920.KI911353_gene527	NA	NA
UHGV-0002058_60	Structural annotation	PF01381, NF041951, COG1476	NA	NA
UHGV-0002058_61	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0002058_61	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0002058_61	UniRef90	UniRef90_A0A419T6N4	HTH cro/C1-type domain-containing protein	NA
UHGV-0002058_61	eggNOG-mapper	478749.BRYFOR_07570	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair	NA
UHGV-0002058_61	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0002058_61	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0002058_61	COG	COG1974	SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase)	NA
UHGV-0002058_61	Structural annotation	PF01381, MF_00535, NF041951, COG1396	NA	NA
UHGV-0002058_62	KOfam	K14059	int; integrase	NA
UHGV-0002058_62	PHROG	phrog_1	integrase	integration and excision
UHGV-0002058_62	UniRef90	UniRef90_A0A7Y9B158	Site-specific integrase	NA
UHGV-0002058_62	eggNOG-mapper	936375.HMPREF1152_0651	Belongs to the 'phage' integrase family	NA
UHGV-0002058_62	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0002058_62	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0002058_62	Structural annotation	PF00589, PF14659, MF_01808, TIGR02224, COG4974	NA	NA