dbAPIS: a database of anti-prokaryotic immune systems

Seed protein information help

APIS family ID

APIS002

Inhibited defense system

cyclic oligonucleotide-based antiphage signaling system (CBASS)

CLAN ID

CLAN002

Seed protein property

Accession ID	Gene name	Protein length	Molecular weight	Isoelectric point	Charge
NP_049728.1	gene_page: vs.4	88	10210.61	4.3805	-6.5

Phage property

Phage	Assembly id
T4 of E. coli	GCF_000836945.1

PMID/References

PMID:36848932

PDB structures

7UQ2;

Pfam domains

Phrog

phrog_717,phrog_26803

Host taxa

d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli

Gene Location

Start: 63078; End: 63344; Strand: -

Description

Vs.4 antagonized cGAS signaling by binding tightly to cGAMP (dissociation constant of approximately 30 nM) and sequestering it; Bioinformatic analyses identified 198 homologues of Vs.4 in diverse phages; belongs to PHROG 717.

Seed genomic context Download table help

Search:

Genome accession	Start	End	Strand	Protein ID	Length	Molecular weight	Charge	Isoelectric point	Function	Phrog	PFAM
NC_000866.4	60922	61389	-	NP_049723.1	155	17489.28	-0.5	6.2245	phosphatase	phrog_15329 ; phrog_335	PF01661.24
NC_000866.4	61386	61733	-	NP_049724.1	115	13055.82	5.5	8.8579	valyl tRNA synthetase modifier	phrog_1256 ; phrog_38498
NC_000866.4	61726	62271	-	NP_049725.1	181	20680.73	16.0	10.2749	hypothetical protein	phrog_600	PF01464.23
NC_000866.4	62279	62740	-	NP_049726.1	153	17976.58	4.5	8.5065	endoribonuclease	phrog_1323	PF10715.12
NC_000866.4	62800	63078	-	NP_049727.1	92	10904.26	-1.5	5.1972	hypothetical protein	phrog_2037
NC_000866.4	63078	63344	-	NP_049728.1	88	10210.61	-6.5	4.3805	hypothetical protein	phrog_26803 ; phrog_717
NC_000866.4	63381	63557	-	NP_049729.1	58	6611.00	2.0	10.3162	hypothetical protein	phrog_1986
NC_000866.4	63557	63919	-	NP_049730.1	120	13813.65	-1.5	5.9896	autonomous glycyl radical cofactor GrcA	phrog_21327 ; phrog_1209 ; phrog_32552	PF01228.24
NC_000866.4	63927	64256	-	NP_049731.1	109	12835.07	4.5	9.3432	hypothetical protein	phrog_29719 ; phrog_2049 ; phrog_11888
NC_000866.4	64253	64912	-	NP_049732.1	219	25026.71	12.5	9.4437	hypothetical protein	phrog_1488
NC_000866.4	64939	65355	-	NP_049733.1	138	16078.57	7.0	9.7612	endonuclease V N-glycosylase UV repair enzyme	phrog_1183 ; phrog_18345	PF03013.17

Showing 1 to 11 of 11 entries

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Seed genomic context- JBrowse

PDB structure: 7UQ2 ; Download help

Full Sequence Download help

MIEDIKGYKP HTEEKIGKVN AIKDAEVRLG LIFDALYDEF WEALDNCEDC EFAKNYAESL	60
DQLTIAKTKL KEASMWACRA VFQPEEKY	88

Structural homologs

No homologs found in AlphaFold database

Structure homologs against by esmdb (html) ; download full result table

Hit	Query start	Query end	Hit start	Hit end	TMscore(ali)	TMscore(avg)
MGYP000570486689.pdb	12	83	14	85	0.8888	0.7169

Family information Download help

Fam ID	Seed protein	Member count	Model	Alignment
APIS002	NP_049728.1	103	HMM model	Member alignment

Host Taxa distribution

Length distribution

Homology to other families download full data without filtering help

Clan ID: CLAN002

Search:

Hit APIS family	E-Value	Query Start	Query End	Hit Start	Hit End	Immune system	Seed protein
APIS004	2.41E-06	11	98	25	116	cyclic oligonucleotide-based antiphage signaling system (CBASS)	ANA48877.1

Showing 1 to 1 of 1 entries

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Family members, sources, and their hosts help

Search:

Member	pident	evalue	bitscore	qcovs	phage	host	SourceDB	Phrog
AP014714_00126	65.934	1.22e-30	112	98%	Edwardsiella phage PEi20	Edwardsiella	INPHARED	phrog_717 phrog_26803
DQ904452_00113	93.182	1.28e-53	169	99%	Escherichia phage RB32	Escherichia	INPHARED	phrog_717 phrog_26803
HE956711_00119	94.318	9.41e-54	170	99%	Yersinia phage phiD1	Yersinia	INPHARED	phrog_717 phrog_26803
IMGVR_UViG_2974743505_000001\|2974743505\|2974743738	94.382	5.09e-56	176	100%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_2974775753_000001\|2974775753\|2974775864	98.876	8.58e-59	183	100%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_3300045988_081160\|3300045988\|Ga0495776_047593_92644_92907	71.591	3.59e-35	123	99%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_3300045988_095701\|3300045988\|Ga0495776_073022_68358_68624	90.909	7.44e-52	165	99%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_3300045988_118042\|3300045988\|Ga0495776_119731_85662_85928	67.033	5.94e-32	115	98%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_3300045988_136812\|3300045988\|Ga0495776_009634_64378_64647	78.161	1.13e-43	144	98%			IMGVR	phrog_717 phrog_26803
IMGVR_UViG_3300045988_154884\|3300045988\|Ga0495776_101933_84990_85253	67.045	1.47e-31	114	99%			IMGVR	phrog_717 phrog_26803

Showing 1 to 10 of 103 entries

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APIS	Contig	Range
APIS002	NC_000866.4	60922 - 65355

Seed protein information help

Seed genomic context Download table help

Seed genomic context- JBrowse

PDB structure: 7UQ2 ; Download help

Full Sequence Download help

Structural homologs

No homologs found in AlphaFold database

Structure homologs against by esmdb (html) ; download full result table

Family information Download help

Host Taxa distribution

Length distribution

Homology to other families download full data without filtering help

Clan ID: CLAN002

Family members, sources, and their hosts help

Results of representative protein blast against members.

Gene cluster comparison plot by clinker Download html