dbAPIS: a database of anti-prokaryotic immune systems

Seed protein information help

APIS family ID

APIS174

Inhibited defense system

CLAN ID

CLAN057

Seed protein property

Accession ID	Gene name	Protein length	Molecular weight	Isoelectric point	Charge
MZ868713_00032	gene_page:	295	32803.65	5.6716	-2.5

Phage property

Phage	Assembly id
	MZ868713

PMID/References

PDB structures

;

Pfam domains

PF13793.11,PF13793.11

Phrog

phrog_619,phrog_619

Host taxa

d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas;s__unclassified Pseudomonas species

Gene Location

Start: 14476; End: 15363; Strand: -

Description

Note

This family does not have seed protein, but we infer its function is defending NAD+ reconstitution pathway (NARP) because it belongs to the same clan as family APIS160 which has seed protein.

Seed genomic context Download table help

Genome accession	Start	End	Strand	Protein ID	Length	Molecular weight	Charge	Isoelectric point	Function	Phrog	PFAM
MZ868713	10778	11284	-	MZ868713_00027	168	18515.82	-8.0	4.3761	phosphatase	phrog_15329
MZ868713	11281	11403	-	MZ868713_00028	40	4717.61	1.5	7.3162	hypothetical protein	phrog_29495
MZ868713	11449	13239	-	MZ868713_00029	596	66569.54	-13.5	5.0602	nicotinamide phosphoribosyl transferase	phrog_15800 ; phrog_448	PF04095.21
MZ868713	13305	14048	-	MZ868713_00030	247	26599.37	20.0	10.3474	hypothetical protein	phrog_26986
MZ868713	14062	14466	-	MZ868713_00031	134	14420.87	-1.0	5.2276	hypothetical protein
MZ868713	14476	15363	-	MZ868713_00032	295	32803.65	-2.5	5.6716	Putative ribose-phosphate pyrophosphokinase 2	phrog_619 ; phrog_619	PF13793.11 ;PF13793.11
MZ868713	15428	15823	-	MZ868713_00033	131	14948.90	0.5	6.7196	ATPase	phrog_2071	PF13671.11
MZ868713	15953	16369	-	MZ868713_00034	138	15077.47	0.0	6.3841	hypothetical protein	phrog_38203
MZ868713	16369	17274	-	MZ868713_00035	301	35042.15	-4.0	5.6682	RNA ligase and tail fiber protein attachment catalyst
MZ868713	17277	17498	-	MZ868713_00036	73	7973.12	-7.5	3.8090	hypothetical protein	phrog_5447
MZ868713	17498	18067	-	MZ868713_00037	189	22066.93	3.0	6.7786	phosphoesterase	phrog_547 ; phrog_30537

Seed genomic context- JBrowse

Predicted 3D structure by alphafold2 with pTM = 0.88 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-Q9PP15-F1-model_v4	6	295	8	287	0.8284	0.7957
AF-Q58761-F1-model_v4	7	295	6	276	0.8248	0.7927
AF-A0A0N4UA03-F1-model_v4	6	295	4	288	0.8303	0.7916
AF-Q9HVC5-F1-model_v4	7	295	9	291	0.8259	0.7879
AF-Q5ALK3-F1-model_v4	5	295	11	294	0.8335	0.7878
AF-P0A1V6-F1-model_v4	6	295	8	292	0.8278	0.7873
AF-I1KY16-F1-model_v4	6	295	15	310	0.8316	0.7868
AF-A0A077Z3R4-F1-model_v4	6	295	8	292	0.8302	0.7867
AF-P60892-F1-model_v4	6	295	8	292	0.8298	0.7865
AF-I1N0W9-F1-model_v4	6	295	15	310	0.8313	0.7865

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

Hit	Query start	Query end	Hit start	Hit end	TMscore(ali)	TMscore(avg)
MGYP003383800553.pdb	10	295	1	276	0.9557	0.9172
MGYP001582970152.pdb	10	295	1	280	0.9354	0.9042
MGYP001565013116.pdb	6	295	1	275	0.9319	0.8996
MGYP000395058717.pdb	6	295	1	271	0.9438	0.898
MGYP001593485562.pdb	8	295	1	280	0.9259	0.8951
MGYP000586329687.pdb	10	295	1	279	0.9206	0.8845
MGYP002537967899.pdb	4	295	1	280	0.906	0.8827
MGYP003542530606.pdb	1	294	1	276	0.9225	0.8818
MGYP001602985396.pdb	8	295	1	287	0.8928	0.8794
MGYP000305353336.pdb	10	295	1	269	0.9307	0.8788

Family information Download help

Fam ID	Seed protein	Member count	Model	Alignment
APIS174	MZ868713_00032	51	HMM model	Member alignment

Host Taxa distribution

Length distribution

Homology to other families help

Clan ID: CLAN057

APIS174 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_3300020045_000250\|3300020045\|Ga0206662_10016404	57.300	1.096E-98	319	0.976%			IMGVR	PF13793 PF00156 PF14572	phrog_619
MZ868713_00032	100.000	1.406E-197	604	1.000%	Pseudomonas phage psageK4e	Pseudomonas	INPHARED	PF13793 PF13793	phrog_619 phrog_619
IMGVR_UViG_3300048920_000015\|3300048920\|Ga0496117_0000279_78009_78887	66.900	3.455E-122	387	0.983%			IMGVR	PF13793	phrog_619
MT670422_00032	95.900	5.609E-195	597	1.000%	Pseudomonas phage phiPsa397	Pseudomonas	INPHARED	PF13793	phrog_619
MT670421_00031	95.300	1.312E-193	593	1.000%	Pseudomonas phage phiPsa381	Pseudomonas	INPHARED	PF13793	phrog_619
MT670420_00032	96.500	2.399E-196	601	1.000%	Pseudomonas phage phiPsa347	Pseudomonas	INPHARED	PF13793	phrog_619
MT670417_00030	95.600	3.717E-194	595	1.000%	Pseudomonas phage phiPsa267	Pseudomonas	INPHARED	PF13793	phrog_619
IMGVR_UViG_3300034158_000001\|3300034158\|Ga0370507_0000027_7330_8178	65.400	3.515E-119	378	0.986%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300034170_000025\|3300034170\|Ga0370487_0000042_51533_52381	65.300	9.037E-119	377	0.986%			IMGVR	PF13793	phrog_619
LN887844_00159	66.600	1.667E-121	385	0.983%	Pseudomonas phage VCM	Pseudomonas	INPHARED	PF13793	phrog_619
IMGVR_UViG_3300034170_000012\|3300034170\|Ga0370487_0000020_42212_43081	65.900	9.981E-120	380	0.983%			IMGVR	PF13793	phrog_619
OM982620_00025	67.600	7.906E-124	392	0.983%	Pseudomonas phage Kremar	Pseudomonas	INPHARED	PF13793	phrog_619
OK275491_00083	67.700	4.212E-124	392	0.980%	Pseudomonas phage REC1	Pseudomonas	INPHARED	PF13793	phrog_619
OK258139_00026	68.200	2.478E-125	396	0.980%	Pseudomonas phage COT4	Pseudomonas	INPHARED	PF13793	phrog_619
IMGVR_UViG_3300034358_000003\|3300034358\|Ga0370485_0000014_83313_84191	68.500	5.133E-126	398	0.983%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300045242_000006\|3300045242\|Ga0467020_0000003_57044_57913	68.300	1.808E-125	396	0.983%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300045283_000005\|3300045283\|Ga0467010_0000070_11209_12093	67.600	6.371E-125	395	0.983%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_3300034691_000006\|3300034691\|Ga0370488_000005_54267_55115	65.400	4.815E-119	378	0.986%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300026332_000001\|3300026332\|Ga0209803_100010219	68.000	6.371E-125	395	0.976%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300042982_000006\|3300042982\|Ga0483897_78021_13277_14164	67.300	1.196E-124	394	0.983%			IMGVR	PF13793	phrog_619
MF893340_00148	70.100	1.959E-129	408	0.980%	Pseudomonas phage PPSC2	Pseudomonas	INPHARED	PF13793	phrog_619
MT740307_00032	53.600	8.167E-90	293	0.976%	Pseudomonas phage phiK7A1	Pseudomonas	INPHARED	PF13793	phrog_619
OP875100_00008	46.700	8.694E-67	227	0.898%	Pseudomonas phage SPA01	Pseudomonas	INPHARED	PF13793	phrog_619
ON169972_00020	44.900	5.569E-63	216	0.898%	Pseudomonas phage EM	Pseudomonas	INPHARED	PF13793	phrog_619
MH791399_00036	46.600	1.189E-66	226	0.898%	Pseudomonas phage PaGz-1	Pseudomonas	INPHARED	PF13793	phrog_619
KY073228_00021	45.500	3.331E-64	219	0.898%	Pseudomonas phage Zigelbrucke	Pseudomonas	INPHARED	PF13793	phrog_619
OP875101_00043	47.100	1.328E-67	229	0.898%	Pseudomonas phage SPA05	Pseudomonas	INPHARED	PF13793	phrog_619
KC862297_00146	46.600	1.189E-66	226	0.898%	Pseudomonas phage PAK_P1	Pseudomonas	INPHARED	PF13793	phrog_619
OQ721915_00147	45.400	4.555E-64	219	0.898%	Pseudomonas phage vB_VIPPAEUMC01	Pseudomonas	INPHARED	PF13793	phrog_619
GU988610_00021	46.400	3.042E-66	225	0.898%	Pseudomonas phage JG004	Pseudomonas	INPHARED	PF13793	phrog_619
ON361135_00064	46.600	1.626E-66	226	0.898%	Pseudomonas phage vB_Pae_Kat	Pseudomonas	INPHARED	PF13793	phrog_619
OQ319936_00073	47.100	1.328E-67	229	0.898%	Pseudomonas phage 20Sep416	Pseudomonas	INPHARED	PF13793	phrog_619
IMGVR_UViG_3300049014_000001\|3300049014\|Ga0498746_000001_82871_83689	39.400	1.582E-47	171	0.847%			IMGVR	PF14572 PF13793 PF00156	phrog_619
IMGVR_UViG_3300034170_000023\|3300034170\|Ga0370487_0000026_70741_71550	40.000	4.482E-53	187	0.908%			IMGVR	PF13793 PF14572 PF00156	phrog_619
MZ605293_00159	55.000	9.004E-94	305	0.983%	Pseudomonas phage UAVern	Pseudomonas	INPHARED	PF13793	phrog_619
MG018930_00050	55.600	1.366E-94	307	0.976%	Pseudomonas phage ventosus	Pseudomonas	INPHARED	PF13793	phrog_619
IMGVR_UViG_3300041405_000012\|3300041405\|Ga0439438_000025_11717_12565	52.700	4.357E-78	259	0.881%			IMGVR	PF00156 PF13793	phrog_619
IMGVR_UViG_3300034127_000005\|3300034127\|Ga0370489_0000003_16121_16951	49.500	4.330E-75	251	0.922%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300042009_000013\|3300042009\|Ga0439451_000008_48548_49396	52.500	8.161E-78	259	0.881%			IMGVR	PF00156 PF13793	phrog_619
IMGVR_UViG_3300042013_000006\|3300042013\|Ga0439456_000033_1965_2813	52.800	2.326E-78	260	0.881%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_2648501258_000001\|2648501258\|2649196608	55.700	2.072E-95	310	0.983%		Pseudomonas fluorescens	IMGVR	PF13793	phrog_619
IMGVR_UViG_3300046000_006158\|3300046000\|Ga0485174_0000252_8138_8950	34.100	1.631E-40	150	0.915%			IMGVR	PF00156 PF14572 PF13793	phrog_619
IMGVR_UViG_3300037587_000147\|3300037587\|Ga0310923_0000598_537_1388	37.800	1.023E-46	168	0.885%			IMGVR	PF13793 PF00156 PF14572	phrog_619
IMGVR_UViG_3300046507_000766\|3300046507\|Ga0495606_0000261_38409_39308	38.100	8.983E-51	180	0.929%			IMGVR	PF13793 PF00156 PF14572	phrog_619
IMGVR_UViG_3300049460_000312\|3300049460\|Ga0495682_0000010_21715_22614	38.300	2.582E-51	182	0.929%			IMGVR	PF13793 PF00156 PF14572	phrog_619
IMGVR_UViG_3300042461_000007\|3300042461\|Ga0439460_0000007_760_1647	66.600	7.161E-123	389	0.983%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_3300046474_000019\|3300046474\|Ga0495605_0000131_88970_89857	67.000	7.906E-124	392	0.983%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_3300000956_000008\|3300000956\|JGI10216J12902_101146906144	67.200	3.075E-124	393	0.983%			IMGVR	PF13793	phrog_619
IMGVR_UViG_3300041407_000026\|3300041407\|Ga0439447_000007_33888_34775	66.800	2.785E-123	390	0.983%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_3300046542_000168\|3300046542\|Ga0495597_0000042_32558_33409	45.100	6.075E-61	210	0.868%			IMGVR	PF13793 PF00156	phrog_619
IMGVR_UViG_3300032086_002076\|3300032086\|Ga0326499_100007476	36.500	2.160E-47	170	0.942%			IMGVR	PF00156 PF13793	phrog_619