UHGV-0002942

Genome information

Genome length 30,688 bps

CDS count 46

Completeness 90.88% (high-quality)

geNomad score 0.9789

Prediction confidence Confident

Genome information
Genome ID	UHGV-0002942
vOTU ID	vOTU-060050
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_MoBio_hadza-E-H_F_16_2233__NODE_163_length_141713_cov_7.314419_1
BioSample	SAMEA4766198
Country	Tanzania
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	90.88% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	16
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9789
Virus hallmark genes (geNomad)	9
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	41.38
Jumbo phage	No

Genome content
Genome length	30,688 bps
GC content	44.95%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	46
CDS density	91.87%
Average CDS length	614.94 bps
tRNA count	1
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0002942_2	KOfam	K22300	dicA; HTH-type transcriptional regulator, cell division transcriptional repressor	NA
UHGV-0002942_2	PHROG	phrog_4	transcriptional repressor	transcription regulation
UHGV-0002942_2	UniRef90	UniRef90_A0A6N7W070	Helix-turn-helix transcriptional regulator	NA
UHGV-0002942_2	eggNOG-mapper	641107.CDLVIII_1309	Helix-turn-helix XRE-family like proteins	NA
UHGV-0002942_2	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0002942_2	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0002942_2	Structural annotation	PF01381, MF_00535, NF041951, COG1476	NA	NA
UHGV-0002942_4	Structural annotation	PF21662, NF038384, TIGR03090	NA	NA
UHGV-0002942_6	PHROG	phrog_2044	RNA polymerase beta subunit	DNA, RNA and nucleotide metabolism
UHGV-0002942_6	eggNOG-mapper	1123511.KB905868_gene195	NA	NA
UHGV-0002942_6	Structural annotation	MF_00337, NF010671, COG1722	NA	NA
UHGV-0002942_7	PHROG	phrog_1891	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0002942_7	UniRef90	UniRef90_A0A1G5CNK8	HNH endonuclease	NA
UHGV-0002942_7	eggNOG-mapper	293826.Amet_2599	HNH endonuclease	NA
UHGV-0002942_7	Pfam	PF13392	HNH endonuclease	HNH_3
UHGV-0002942_7	Structural annotation	PF13392	NA	NA
UHGV-0002942_10	PHROG	phrog_625	NA	unknown function
UHGV-0002942_10	UniRef90	UniRef90_A0A395V9H0	ASCH domain-containing protein	NA
UHGV-0002942_10	eggNOG-mapper	397290.C810_01502	NA	NA
UHGV-0002942_10	Structural annotation	PF12961	NA	NA
UHGV-0002942_12	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0002942_12	PHROG	phrog_26861	NA	unknown function
UHGV-0002942_12	UniRef90	UniRef90_A0A6N7WGM1	Single-stranded DNA-binding protein	NA
UHGV-0002942_12	eggNOG-mapper	1121335.Clst_1307	PFAM single-strand binding protein	NA
UHGV-0002942_12	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0002942_12	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0002942_12	Structural annotation	PF00436, PF13567, MF_00984, NF004476, COG0629	NA	NA
UHGV-0002942_14	PHROG	phrog_3584	replication initiation protein	DNA, RNA and nucleotide metabolism
UHGV-0002942_14	eggNOG-mapper	411470.RUMGNA_02047	NA	NA
UHGV-0002942_14	Structural annotation	PF21578	NA	NA
UHGV-0002942_15	PHROG	phrog_824	NA	unknown function
UHGV-0002942_15	UniRef90	UniRef90_A0A6N7W260	VRR-NUC domain-containing protein	NA
UHGV-0002942_15	eggNOG-mapper	411470.RUMGNA_02049	VRR-NUC domain	NA
UHGV-0002942_15	Pfam	PF08774	VRR-NUC domain	VRR_NUC
UHGV-0002942_16	KOfam	K03496	parA, soj; chromosome partitioning protein	NA
UHGV-0002942_16	PHROG	phrog_164	ParA-like partition protein	DNA, RNA and nucleotide metabolism
UHGV-0002942_16	UniRef90	UniRef90_A0A6N7W8U8	ParA family protein	NA
UHGV-0002942_16	eggNOG-mapper	610130.Closa_0717	AAA domain	NA
UHGV-0002942_16	Pfam	PF13614	AAA domain	AAA_31
UHGV-0002942_16	COG	COG1192	ParA-like ATPase involved in chromosome/plasmid partitioning or cellulose biosynthesis protein BcsQ	NA
UHGV-0002942_16	Structural annotation	PF13614, MF_00533, TIGR03453, COG1192	NA	NA
UHGV-0002942_17	KOfam	K03497	parB, spo0J; ParB family transcriptional regulator, chromosome partitioning protein	NA
UHGV-0002942_17	PHROG	phrog_15982	NA	unknown function
UHGV-0002942_17	UniRef90	UniRef90_A0A6N7WQC9	Chromosome partitioning protein ParB	NA
UHGV-0002942_17	eggNOG-mapper	397290.C810_00410	ParB-like nuclease domain	NA
UHGV-0002942_17	Pfam	PF02195	ParB/Sulfiredoxin domain	ParBc
UHGV-0002942_17	COG	COG1475	Chromosome segregation protein Spo0J, contains ParB-like nuclease domain	NA
UHGV-0002942_17	Structural annotation	PF02195, PF07506, MF_02015, TIGR04285, COG1475	NA	NA
UHGV-0002942_22	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0002942_22	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0002942_22	UniRef90	UniRef90_A0A6N7WLU2	Single-stranded DNA-binding protein	NA
UHGV-0002942_22	eggNOG-mapper	411470.RUMGNA_02057	Single-strand binding protein family	NA
UHGV-0002942_22	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0002942_22	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0002942_22	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0002942_22	Structural annotation	PF00436, MF_00984, NF005241, COG0629	NA	NA
UHGV-0002942_23	PHROG	phrog_1558	NA	unknown function
UHGV-0002942_23	UniRef90	UniRef90_UPI001EE9266C	sigma-70 region 4 domain-containing protein	NA
UHGV-0002942_23	eggNOG-mapper	411470.RUMGNA_02058	NA	NA
UHGV-0002942_23	Structural annotation	PF08281, TIGR01636	NA	NA
UHGV-0002942_24	KOfam	K07451	mcrA; 5-methylcytosine-specific restriction enzyme A [EC:3.1.21.-]	NA
UHGV-0002942_24	PHROG	phrog_119	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0002942_24	UniRef90	UniRef90_A0A6N7W8S4	HNH endonuclease	NA
UHGV-0002942_24	eggNOG-mapper	397290.C810_00416	HNH endonuclease	NA
UHGV-0002942_24	Pfam	PF01844	HNH endonuclease	HNH
UHGV-0002942_24	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0002942_25	PHROG	phrog_1066	NA	unknown function
UHGV-0002942_25	eggNOG-mapper	397290.C810_00417	NA	NA
UHGV-0002942_25	Structural annotation	PF05119, TIGR01558, COG3747	NA	NA
UHGV-0002942_26	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-0002942_26	UniRef90	UniRef90_A0A6N7W8T4	Terminase large subunit	NA
UHGV-0002942_26	eggNOG-mapper	411470.RUMGNA_02062	NA	NA
UHGV-0002942_26	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-0002942_26	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-0002942_26	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-0002942_26	Structural annotation	PF20441, PF03354, MF_04146, TIGR01547, COG4626	NA	NA
UHGV-0002942_27	PHROG	phrog_12	portal protein	head and packaging
UHGV-0002942_27	UniRef90	UniRef90_A0A6N7WQB7	Phage portal protein	NA
UHGV-0002942_27	eggNOG-mapper	397290.C810_00419	Phage portal protein	NA
UHGV-0002942_27	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-0002942_27	COG	COG4695	Phage portal protein BeeE	NA
UHGV-0002942_27	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-0002942_28	KOfam	K06904	NA	NA
UHGV-0002942_28	PHROG	phrog_80	head maturation protease	head and packaging
UHGV-0002942_28	UniRef90	UniRef90_A0A6N7WM98	HK97 family phage prohead protease	NA
UHGV-0002942_28	eggNOG-mapper	397290.C810_00420	Phage prohead protease, HK97 family	NA
UHGV-0002942_28	Pfam	PF04586	Caudovirus prohead serine protease	Peptidase_S78
UHGV-0002942_28	COG	COG3740	Phage head maturation protease	NA
UHGV-0002942_28	Structural annotation	PF04586, TIGR01543, COG3740	NA	NA
UHGV-0002942_29	PHROG	phrog_10	major head protein	head and packaging
UHGV-0002942_29	UniRef90	UniRef90_A0A6N7W8S7	Phage major capsid protein	NA
UHGV-0002942_29	eggNOG-mapper	397290.C810_00421	phage major capsid protein, HK97 family	NA
UHGV-0002942_29	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0002942_29	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0002942_29	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0002942_29	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-0002942_30	PHROG	phrog_5223	neck protein	connector
UHGV-0002942_30	UniRef90	UniRef90_A0A6N7WPD3	DNA-packaging protein	NA
UHGV-0002942_30	eggNOG-mapper	411470.RUMGNA_02067	NA	NA
UHGV-0002942_31	PHROG	phrog_1951	head-tail adaptor	connector
UHGV-0002942_31	UniRef90	UniRef90_A0A6N7WPN6	Phage head closure protein	NA
UHGV-0002942_31	eggNOG-mapper	411470.RUMGNA_02070	NA	NA
UHGV-0002942_31	NCBIFam	TIGR01563.1	phage head closure protein	NA
UHGV-0002942_31	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-0002942_32	UniRef90	UniRef90_R9KQ46	HK97 gp10 family phage protein	NA
UHGV-0002942_32	eggNOG-mapper	397290.C810_00425	NA	NA
UHGV-0002942_32	Structural annotation	TIGR01725	NA	NA
UHGV-0002942_33	eggNOG-mapper	411470.RUMGNA_02072	NA	NA
UHGV-0002942_33	Structural annotation	PF05657, NF040576, COG3978	NA	NA
UHGV-0002942_34	PHROG	phrog_88	major tail protein	tail
UHGV-0002942_34	UniRef90	UniRef90_A0A6N7W8R8	Phage tail protein	NA
UHGV-0002942_34	eggNOG-mapper	397290.C810_00427	phage major tail protein, phi13 family	NA
UHGV-0002942_34	NCBIFam	TIGR01603.1	major tail protein	NA
UHGV-0002942_34	Structural annotation	PF04630, TIGR01603, COG3498	NA	NA
UHGV-0002942_35	PHROG	phrog_2115	tail protein	tail
UHGV-0002942_35	eggNOG-mapper	397290.C810_00428	NA	NA
UHGV-0002942_35	Structural annotation	PF11836	NA	NA
UHGV-0002942_36	PHROG	phrog_6900	tail length tape measure protein	tail
UHGV-0002942_36	eggNOG-mapper	411470.RUMGNA_02076	Phage tail tape measure protein, TP901 family	NA
UHGV-0002942_36	COG	COG5283	Phage-related tail protein	NA
UHGV-0002942_37	PHROG	phrog_36410	NA	unknown function
UHGV-0002942_37	UniRef90	UniRef90_A0A6N7WM83	Phage tail family protein	NA
UHGV-0002942_37	eggNOG-mapper	411470.RUMGNA_02077	COG NOG18823 non supervised orthologous group	NA
UHGV-0002942_37	Pfam	PF05709	Phage tail protein RIFT-related domain	Sipho_tail
UHGV-0002942_37	COG	COG4722	Phage-related protein YomH	NA
UHGV-0002942_37	Structural annotation	PF05709, PF20753, TIGR01633, COG4722	NA	NA
UHGV-0002942_38	PHROG	phrog_538	minor tail protein	tail
UHGV-0002942_38	UniRef90	UniRef90_UPI001111490C	siphovirus ReqiPepy6 Gp37-like family protein	NA
UHGV-0002942_38	eggNOG-mapper	397290.C810_00431	Siphovirus ReqiPepy6 Gp37-like protein	NA
UHGV-0002942_38	Pfam	PF14594	Siphovirus ReqiPepy6 Gp37-like protein	Sipho_Gp37
UHGV-0002942_38	Structural annotation	PF14594, TIGR01665, COG4926	NA	NA
UHGV-0002942_39	PHROG	phrog_1220	head protein	head and packaging
UHGV-0002942_39	UniRef90	UniRef90_A0A098AU84	Conserved domain protein	NA
UHGV-0002942_39	eggNOG-mapper	431943.CKL_4054	COG NOG18825 non supervised orthologous group	NA
UHGV-0002942_39	Structural annotation	PF20747	NA	NA
UHGV-0002942_42	PHROG	phrog_134	NA	unknown function
UHGV-0002942_42	UniRef90	UniRef90_A0A6L6L8A0	XkdX family protein	NA
UHGV-0002942_42	eggNOG-mapper	1298920.KI911353_gene543	Phage uncharacterised protein (Phage_XkdX)	NA
UHGV-0002942_42	Pfam	PF09693	Phage uncharacterised protein (Phage_XkdX)	Phage_XkdX
UHGV-0002942_42	Structural annotation	PF09693, TIGR01669	NA	NA
UHGV-0002942_43	PHROG	phrog_199	holin	lysis
UHGV-0002942_43	UniRef90	UniRef90_A0A6N7WQE2	Phage holin family protein	NA
UHGV-0002942_43	eggNOG-mapper	411470.RUMGNA_02086	NA	NA
UHGV-0002942_43	Pfam	PF05105	Bacteriophage holin family	Phage_holin_4_1
UHGV-0002942_43	NCBIFam	TIGR01593.1	toxin secretion/phage lysis holin	NA
UHGV-0002942_43	COG	COG4824	Phage-related holin (Lysis protein)	NA
UHGV-0002942_44	KOfam	K01448	amiABC; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0002942_44	PHROG	phrog_12727	endolysin	lysis
UHGV-0002942_44	UniRef90	UniRef90_A0A6N7W8R7	Peptidoglycan hydrolase	NA
UHGV-0002942_44	eggNOG-mapper	665950.HMPREF1025_02673	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	NA
UHGV-0002942_44	Pfam	PF01832	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	Glucosaminidase
UHGV-0002942_44	Pfam	PF01520	N-acetylmuramoyl-L-alanine amidase	Amidase_3
UHGV-0002942_44	Pfam	PF01476	LysM domain	LysM
UHGV-0002942_44	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0002942_44	Structural annotation	PF01832, PF01510, PF18342, NF038016, NF041850, COG1705, COG5632	NA	NA
UHGV-0002942_46	KOfam	K03658	helD; DNA helicase IV [EC:5.6.2.4]	NA
UHGV-0002942_46	UniRef90	UniRef90_R5CJP9	Conserved domain protein	NA
UHGV-0002942_46	eggNOG-mapper	1280682.AUKA01000002_gene764	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-0002942_46	COG	COG0507	ATPase/5'-3' helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V)	NA