dbAPIS: a database of anti-prokaryotic immune systems

Seed protein information help

APIS family ID

APIS103

Inhibited defense system

CBASS, Pycsar and CRISPR–Cas (type III)

CLAN ID

CLAN042

Seed protein property

Accession ID	Gene name	Protein length	Molecular weight	Isoelectric point	Charge
YP_009031408.1	gene_page: NTases	253	29034.82	5.0687	-5.5

Phage property

Phage	Assembly id
Bacillus phage BCP1	GCF_000918315.1

PMID/References

PMID:36952342

PDB structures

;

Pfam domains

PF10127.14,PF10127.14

Phrog

Host taxa

d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;

Gene Location

Start: 93152; End: 93913; Strand: +

Description

A family of bacteriophage nucleotidyltransferases (NTases) that synthesize competitor cyclic dinucleotide (CDN) ligands and inhibit TIR NADase effectors activated via a linked STING CDN sensor domain (TIR-STING).

Seed genomic context Download table help

Genome accession	Start	End	Strand	Protein ID	Length	Molecular weight	Charge	Isoelectric point	Function	Phrog	PFAM
NC_024137.1	88787	91126	+	YP_009031403.1	779	88560.70	-4.0	6.0793	ribonucleotide reductase		PF02867.20 ;PF00317.26
NC_024137.1	91212	92342	+	YP_009031404.1	376	43400.25	-6.5	5.3146	ribonucleoside diphosphate reductase small subunit	phrog_86	PF00268.26
NC_024137.1	92443	92685	+	YP_009031405.1	80	9175.50	-0.5	5.8469	hypothetical protein	phrog_6394
NC_024137.1	92687	93004	+	YP_009031406.1	105	12129.47	-20.0	3.8444	hypothetical protein	phrog_14424
NC_024137.1	93001	93150	+	YP_009031407.1	49	6092.95	-1.0	6.0678	hypothetical protein
NC_024137.1	93152	93913	+	YP_009031408.1	253	29034.82	-5.5	5.0687	nucleotidyltransferase		PF10127.14 ;PF10127.14
NC_024137.1	93910	94152	+	YP_009031409.1	80	9122.80	6.5	10.0510	hypothetical protein	phrog_3386
NC_024137.1	94256	94303	+	YP_009031410.1	15	1826.06	0.5	7.0047	hypothetical protein
NC_024137.1	94303	95061	+	YP_009031411.1	252	30187.72	6.5	8.6339	hypothetical protein	phrog_1054
NC_024137.1	95063	95362	+	YP_009031412.1	99	11397.34	7.5	10.1444	DNA binding protein	phrog_379	PF00216.26
NC_024137.1	95464	96486	+	YP_009031413.1	340	38382.62	-4.0	5.2848	DNA methyltransferase	phrog_116 ; phrog_16427	PF00145.22

Seed genomic context- JBrowse

Predicted 3D structure by alphafold2 with pTM = 0.89 Download help

pTM is for the estimate of the TM-score, which is obtained from a pairwise error prediction. The higher pTM score indicates better model quality.

pLDDT is for per-residue accuracy of the structure, which representes the quality of the residue. A higher value indicates better prediction accuracy. More detail please see AlphaFold .

Residues were colored according to plddt ( blue-> high quality; red-> low quality ).

Full Sequence

90 < plddt <=100 ;

70 < plddt <= 90 ;

50 < plddt <= 70 ;

0 <= plddt <= 50 ; Download help

Structural homologs

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

Hit	Query start	Query end	Hit start	Hit end	TMscore(ali)	TMscore(avg)
AF-Q60312-F1-model_v4	10	253	2	243	0.821	0.7888
AF-Q9HVK0-F1-model_v4	1	252	9	267	0.7693	0.7246
AF-K0EWV7-F1-model_v4	1	250	6	267	0.7543	0.7124
AF-Q54QX1-F1-model_v4	1	253	3	283	0.8429	0.5919
AF-Q551X5-F1-model_v4	1	250	85	405	0.8271	0.5452

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

Hit	Query start	Query end	Hit start	Hit end	TMscore(ali)	TMscore(avg)
MGYP000890761835.pdb	1	253	1	259	0.9416	0.9225
MGYP001157846851.pdb	1	250	1	249	0.9384	0.9198
MGYP001496191611.pdb	4	253	1	245	0.9402	0.9174
MGYP000872190450.pdb	2	251	1	238	0.9504	0.9131
MGYP001617474190.pdb	9	249	2	248	0.9229	0.9064
MGYP001616633943.pdb	7	253	1	238	0.9373	0.9019
MGYP001249583997.pdb	1	250	1	255	0.914	0.9004
MGYP001075635848.pdb	11	253	1	238	0.9353	0.8993
MGYP001015283041.pdb	2	253	1	248	0.9197	0.8992
MGYP001601559401.pdb	9	249	2	248	0.9147	0.897

Family information Download help

Fam ID	Seed protein	Member count	Model	Alignment
APIS103	YP_009031408.1	73	HMM model	Member alignment

Host Taxa distribution

Length distribution

Homology to other families help

Clan ID: CLAN042

APIS103 has no similar APIS family.

Family members, sources, and their hosts help

Results of representative protein blast against members.
Member	pident	evalue	bitscore	qcovs	phage	host	SourceDB	Pfam	Phrog
IMGVR_UViG_3300009671_000009\|3300009671\|Ga0123334_1000014175	37.000	8.141E-39	143	0.881%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300026290_000007\|3300026290\|Ga0209510_1000037284	36.500	9.625E-43	155	0.976%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300035158_000812\|3300035158\|Ga0374083_0766059_25856_26656	34.700	3.624E-35	133	0.881%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300011118_000008\|3300011118\|Ga0114922_1000025123	33.100	4.349E-34	130	0.929%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300005253_000073\|3300005253\|Ga0073583_125122432	33.700	1.256E-34	131	0.913%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300001751_000012\|3300001751\|JGI2172J19969_100013262	31.600	8.486E-32	123	0.941%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300035698_022190\|3300035698\|Ga0374944_437447_139047_139880	30.900	1.321E-32	125	0.957%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300009838_000047\|3300009838\|Ga0116153_1000070737	32.000	1.011E-30	120	0.897%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300017991_000084\|3300017991\|Ga0180434_1000021260	32.500	1.378E-30	119	0.874%			IMGVR	PF10127	phrog_4938
IMGVR_UViG_3300037483_000361\|3300037483\|Ga0395805_0000353_89632_90402	33.800	4.349E-34	130	0.925%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300037510_000569\|3300037510\|Ga0400236_0000001_93467_94261	31.000	6.475E-30	117	0.925%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300028883_000032\|3300028883\|Ga0272443_1000006772	36.800	2.341E-39	145	0.905%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300033072_001087\|3300033072\|Ga0364570_1012349	33.300	1.378E-30	119	0.854%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300022217_000169\|3300022217\|Ga0224514_1000001983	32.900	9.687E-33	126	0.905%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300021170_000013\|3300021170\|Ga0210400_1000014452	34.500	5.209E-33	126	0.866%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300032156_000002\|3300032156\|Ga0315295_1000005316	31.100	3.994E-31	121	0.949%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300002053_000045\|3300002053\|SMTZ23_1000184355	32.400	7.104E-33	126	0.929%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300005253_000144\|3300005253\|Ga0073583_107622948	34.900	3.349E-32	124	0.838%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300009285_002354\|3300009285\|Ga0103680_10000043148	36.400	5.933E-34	129	0.822%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300028897_000536\|3300028897\|Ga0309836_100124675	32.400	7.104E-33	126	0.929%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300024432_000060\|3300024432\|Ga0209977_1000014141	33.700	1.426E-35	134	0.933%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300050821_010655\|3300050821\|Ga0505706_00002690_65147_65938	33.200	5.933E-34	129	0.921%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300029812_000162\|3300029812\|Ga0311295_141519132	33.800	1.637E-29	116	0.822%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300033141_005271\|3300033141\|Ga0366833_100206814	32.300	1.104E-33	128	0.941%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300028883_000992\|3300028883\|Ga0272443_1000017262	34.200	2.456E-32	124	0.874%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300009034_000002\|3300009034\|Ga0115863_1000017195	35.300	1.801E-32	125	0.838%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300037067_010064\|3300037067\|Ga0378408_0003247_29598_30389	32.200	2.150E-31	122	0.917%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300009537_002844\|3300009537\|Ga0129283_100014268	31.300	3.039E-29	115	0.905%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300037067_023527\|3300037067\|Ga0378408_0000298_43043_43888	32.100	2.559E-30	119	0.897%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300014205_000208\|3300014205\|Ga0172380_100004513	32.100	2.559E-30	119	0.897%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300037067_005534\|3300037067\|Ga0378408_0001240_10612_11325	34.200	1.157E-31	123	0.850%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300024999_001377\|3300024999\|Ga0209728_100011424	34.200	2.930E-31	121	0.814%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300010396_000038\|3300010396\|Ga0134126_10000061159	31.700	5.638E-29	115	0.897%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300028654_000012\|3300028654\|Ga0265322_10000016109	32.500	1.011E-30	120	0.897%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300035122_000006\|3300035122\|Ga0373556_0000008_15440_16198	31.700	1.378E-30	119	0.925%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300001580_000011\|3300001580\|Draft_1000008065	31.900	4.752E-30	118	0.850%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300045988_082442\|3300045988\|Ga0495776_011116_138465_139289	59.500	1.265E-86	282	0.937%		CAG-508	IMGVR	PF10127	phrog_
IMGVR_UViG_3300006131_000001\|3300006131\|Ga0080692_100001540	53.500	4.176E-76	252	0.945%			IMGVR	PF10127	phrog_
MGV-GENOME-0379567_172	59.500	1.265E-86	282	0.937%			MGV	PF10127	phrog_
MN013089_00189	81.000	5.006E-129	404	0.957%	Bacillus phage vB_BspM_MarvelLand	Bacillus	INPHARED	PF10127	phrog_
YP_009031408.1	100.000	4.674E-171	526	1.000%	Bacillus phage BCP1	Escherichia	NCBI	PF10127 PF10127	phrog_
MN150686_00126	80.500	2.142E-130	408	0.972%	Bacillus phage BC-T25	Bacillus	INPHARED	PF10127	phrog_
MH487649_00185	79.500	1.644E-124	391	0.945%	Bacillus phage BC01	Bacillus	INPHARED	PF10127	phrog_
IMGVR_UViG_3300026493_000032\|3300026493\|Ga0256786_100030510	74.500	2.309E-121	382	0.988%			IMGVR	PF10127	phrog_
OK499977_00122	81.200	1.419E-129	406	0.957%	Bacillus phage vB_BanH_Emiliahah	Bacillus	INPHARED	PF10127	phrog_
KJ676859_00170	87.900	7.807E-150	464	1.000%	Bacillus phage JBP901	Bacillus	INPHARED	PF10127	phrog_
OK499983_00123	80.000	1.945E-129	406	0.972%	Bacillus phage vB_BanH_McCartney	Bacillus	INPHARED	PF10127	phrog_
KJ081346_00209	87.800	1.466E-149	464	1.000%	Bacillus phage BCP8-2	Bacillus	INPHARED	PF10127	phrog_
MG602477_00116	89.100	2.680E-152	471	1.000%	Bacillus phage BCP01	Bacillus	INPHARED	PF10127	phrog_
MN364664_00055	93.500	1.797E-161	498	1.000%	Xanthomonas phage Xoo-sp15	Xanthomonas	INPHARED	PF10127	phrog_
KT187252_00181	79.500	1.644E-124	391	0.945%	Bacillus phage PBC6	Bacillus	INPHARED	PF10127	phrog_
IMGVR_UViG_3300027078_000040\|3300027078\|Ga0256912_100006121	79.200	9.164E-132	412	1.000%			IMGVR	PF10127	phrog_
KU577463_00148	92.300	5.239E-159	491	1.000%	Bacillus phage Deep Blue	Bacillus	INPHARED	PF10127	phrog_
OL964058_00076	91.100	1.527E-156	484	1.000%	Bacillus phage vB_BtM_BMBsp2	Bacillus	INPHARED	PF10127	phrog_
KT995480_00136	97.400	7.255E-169	519	0.996%	Bacillus phage BM15	Bacillus	INPHARED	PF10127	phrog_
IMGVR_UViG_3300026442_000017\|3300026442\|Ga0256785_10002996	78.900	1.563E-130	409	0.996%			IMGVR	PF10127	phrog_
IMGVR_UViG_2585427716_000002\|2585427716\|2586323728	65.000	6.804E-103	329	0.992%		Bacillus tequilensis	IMGVR	PF10127	phrog_
IMGVR_UViG_2716885011_000001\|2716885011\|2718187351	64.800	2.978E-101	324	0.980%		Bacillus velezensis	IMGVR	PF10127	phrog_388
JN797798_00160	57.900	3.647E-84	275	0.968%	Bacillus phage BCU4	Bacillus	INPHARED	PF10127	phrog_
KX961630_00136	57.200	4.714E-68	228	0.814%	Bacillus phage QCM8	Bacillus	INPHARED	PF10127	phrog_
KT224359_00128	58.200	7.563E-85	277	0.968%	Bacillus phage TsarBomba	Bacillus	INPHARED	PF10127	phrog_
ON975036_00134	64.000	4.592E-99	318	0.992%	Bacillus phage Thurquoise	Bacillus	INPHARED	PF10127	phrog_388
JX094431_00174	61.000	6.528E-93	300	0.992%	Bacillus phage vB_BceM_Bc431v3	Bacillus	INPHARED	PF10127	phrog_
KX987999_00125	59.400	2.465E-77	255	0.870%	Bacillus phage BCP12	Bacillus	INPHARED	PF10127	phrog_
IMGVR_UViG_3300027653_000769\|3300027653\|Ga0209487_1000008196	66.000	2.398E-102	327	0.968%			IMGVR	PF10127	phrog_388
IMGVR_UViG_3300017917_002918\|3300017917\|Ga0192394_132048142	56.700	1.284E-83	273	0.968%			IMGVR	PF10127	phrog_
IMGVR_UViG_3300037280_000066\|3300037280\|Ga0397554_0000002_12085_12849	55.100	7.007E-78	257	0.941%			IMGVR	PF10127	phrog_
IMGVR_UViG_2518645577_000002\|2518645577\|2518898719	65.400	4.502E-102	327	0.976%		Bacillus thuringiensis	IMGVR	PF10127	phrog_
IMGVR_UViG_643886092_000005\|643886092\|644720540	66.800	8.785E-96	308	0.897%		Bacillus thuringiensis	IMGVR	PF10127	phrog_
IMGVR_UViG_2912838376_000002\|2912838376\|2912843997	65.300	6.168E-102	326	0.976%		Bacillus tropicus	IMGVR	PF10127	phrog_
IMGVR_UViG_2881684137_000004\|2881684137\|2881687494	65.400	5.809E-95	306	0.913%		Paenibacillus sp004134985	IMGVR	PF10127	phrog_
IMGVR_UViG_2671180244_000004\|2671180244\|2671974681	66.500	1.158E-101	325	0.953%		Bacillus pumilus	IMGVR	PF10127	phrog_
OM634661_00178	62.100	2.082E-91	296	0.941%	Bacillus phage vB_BauM_KLEB27-3	Bacillus	INPHARED	PF10127	phrog_