dbAPIS: a database of anti-prokaryotic immune systems

Seed protein information help

APIS family ID

APIS088

Inhibited defense system

CLAN ID

CLAN004

Seed protein property

Accession ID	Gene name	Protein length	Molecular weight	Isoelectric point	Charge
uvig_218805_40	gene_page:	285	33416.75	4.7576	-9.0

Phage property

Phage	Assembly id
	uvig_218805

PMID/References

PDB structures

;

Pfam domains

Phrog

phrog_20113

Host taxa

Gene Location

Start: 31655; End: 32539; Strand: -

Description

Note

This family does not have seed protein, but we infer its function is defending Gabija because it belongs to the same clan as family APIS005 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
uvig_218805	29247	29873	-	uvig_218805_35	210	23894.20	23894.20	5.9412	hypothetical protein	phrog_8492 ; phrog_659	PF06378.14
uvig_218805	30085	30477	-	uvig_218805_36	130	15081.80	15081.80	4.1166	hypothetical protein	phrog_98 ; phrog_8684	PF09643.13
uvig_218805	30521	30766	-	uvig_218805_37	81	9617.02	9617.02	4.4367	hypothetical protein	phrog_774
uvig_218805	30790	31242	-	uvig_218805_38	150	18015.86	18015.86	7.7071	hypothetical protein
uvig_218805	31380	31655	-	uvig_218805_39	91	10966.15	10966.15	4.1236	hypothetical protein	phrog_6343
uvig_218805	31655	32539	-	uvig_218805_40	285	33416.75	33416.75	4.7576	hypothetical protein	phrog_20113
uvig_218805	32588	32764	-	uvig_218805_41	67	8061.86	8061.86	4.0334	hypothetical protein	phrog_1494 ; phrog_33828
uvig_218805	32769	33644	-	uvig_218805_42	291	34355.45	34355.45	8.1001	hypothetical protein	phrog_6931 ; phrog_505 ; phrog_2071 ; phrog_10255 ; phrog_296	PF13671.9
uvig_218805	33653	34822	-	uvig_218805_43	389	44994.98	44994.98	9.5359	hypothetical protein	phrog_968	PF09414.13
uvig_218805	35080	36183	-	uvig_218805_44	367	42889.73	42889.73	10.2987	hypothetical protein	phrog_12300 ; phrog_17087 ; phrog_13964 ; phrog_9700 ; phrog_25073 ; phrog_506	PF01385.22
uvig_218805	35080	36183	-	uvig_218805_44	367	42889.73	42889.73	10.2987	hypothetical protein	phrog_12300 ; phrog_17087 ; phrog_13964 ; phrog_9700 ; phrog_25073 ; phrog_506	PF07282.14
uvig_218805	35080	36183	-	uvig_218805_44	367	42889.73	42889.73	10.2987	hypothetical protein	phrog_12300 ; phrog_17087 ; phrog_13964 ; phrog_9700 ; phrog_25073 ; phrog_506	PF12323.11
uvig_218805	36242	36568	-	uvig_218805_45	108	12775.58	12775.58	9.6032	hypothetical protein

Seed genomic context- JBrowse

Predicted 3D structure by alphafold2 with pTM = 0.69 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

No homologs found in AlphaFold database

No homologs found in esmfold database

Family information Download help

Fam ID	Seed protein	Member count	Model	Alignment
APIS088	uvig_218805_40	41	HMM model	Member alignment

Host Taxa distribution

Length distribution

Homology to other families download full data without filtering help

Clan ID: CLAN004

Hit APIS family	E-Value	Query Start	Query End	Hit Start	Hit End	Immune system	Seed protein
APIS005	5.75E-61	1	285	18	303	Gabija	APD21271.1
APIS053	1.50E-57	1	284	90	374		IMGVR_UViG_3300014203_000236\|3300014203\|Ga0172378_100030802
APIS046	1.55E-50	2	284	14	325		IMGVR_UViG_3300009034_000088\|3300009034\|Ga0115863_100105265
APIS083	3.53E-48	13	284	53	341		CP067347_00056
APIS068	9.86E-40	2	284	14	330		IMGVR_UViG_3300035698_004593\|3300035698\|Ga0374944_618332_7825_8844
APIS071	2.36E-35	3	283	17	335		IMGVR_UViG_3300037628_000643\|3300037628\|Ga0310922_0000037_90720_91751
APIS065	3.24E-32	2	283	17	339		KJ018209_00009
APIS057	4.34E-27	8	283	19	318		IMGVR_UViG_3300021167_000128\|3300021167\|Ga0216365_13592277

Family members, sources, and their hosts help

Results of representative protein blast against members.
Member	pident	evalue	bitscore	qcovs	host	SourceDB	Phrog
IMGVR_UViG_2526164529_000013\|2526164529\|2526270821	57.491	1.95e-118	350	97%	Lacrimispora indolis	IMGVR	phrog_20113
IMGVR_UViG_2882238243_000002\|2882238243\|2882239723	55.052	4.88e-115	341	97%	Lachnotalea sp900184995	IMGVR	phrog_20113
IMGVR_UViG_2921176663_000004\|2921176663\|2921177889	67.361	4.06e-135	392	95%	Blautia_A wexlerae	IMGVR	phrog_20113
IMGVR_UViG_3300007501_000011\|3300007501\|Ga0104994_10021425	69.338	1.07e-139	404	94%	Blautia	IMGVR	phrog_20113
IMGVR_UViG_3300010275_000480\|3300010275\|Ga0129310_1000025278	77.660	6.84e-163	462	95%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300010278_000003\|3300010278\|Ga0129311_1000032167	77.305	1.33e-161	459	95%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300012176_000002\|3300012176\|Ga0153952_100000117	53.184	2.94e-89	276	86%		IMGVR	phrog_20113
IMGVR_UViG_3300029303_000020\|3300029303\|Ga0168703_100038536	98.592	0.0	570	97%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300029841_000001\|3300029841\|Ga0245272_10009310	67.361	5.54e-136	394	95%	Blautia	IMGVR	phrog_20113
IMGVR_UViG_3300029872_000351\|3300029872\|Ga0245317_10002192	77.465	8.37e-164	464	96%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300035520_000763\|3300035520\|Ga0376475_0000016_115345_116181	62.868	8.62e-125	365	98%		IMGVR	phrog_20113
IMGVR_UViG_3300044856_000164\|3300044856\|Ga0455773_001783_1566_2477	67.014	1.48e-135	393	95%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300045988_117002\|3300045988\|Ga0495776_015026_67572_68486	69.792	2.00e-142	411	95%	Blautia	IMGVR	phrog_20113
IMGVR_UViG_3300045988_122305\|3300045988\|Ga0495776_034831_70086_70979	78.873	2.04e-165	469	96%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300045988_128508\|3300045988\|Ga0495776_180933_10049_10960	67.014	5.72e-136	394	95%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_3300045988_130013\|3300045988\|Ga0495776_162564_16557_17468	68.293	6.30e-138	399	95%	Blautia	IMGVR	phrog_20113
IMGVR_UViG_3300045988_131275\|3300045988\|Ga0495776_014851_52593_53504	66.899	2.05e-137	398	95%	Blautia	IMGVR	phrog_20113
IMGVR_UViG_3300045988_147965\|3300045988\|Ga0495776_114730_90460_91371	67.014	1.03e-134	391	95%	Lachnospiraceae	IMGVR	phrog_20113
IMGVR_UViG_7000000232_000104\|7000000232\|SRS015578_WUGC_scaffold_51237__gene_111343	69.338	1.03e-139	404	95%	Blautia	IMGVR	phrog_20113
MGV-GENOME-0362179_92	67.014	1.07e-134	391	94%	Blautia	MGV	phrog_20113
MGV-GENOME-0370967_72	78.873	1.90e-165	469	95%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0372638_34	67.361	2.63e-135	393	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0375283_186	67.014	4.27e-133	387	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0376196_82	67.361	5.76e-136	394	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0377738_19	67.014	5.95e-136	394	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0378024_80	69.792	2.07e-142	411	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-0378439_58	66.899	2.14e-137	398	94%	Blautia	MGV	phrog_20113
MGV-GENOME-0379397_30	68.293	6.55e-138	399	94%	Lachnospiraceae	MGV	phrog_20113
MGV-GENOME-4433876_45	77.465	6.91e-164	465	96%	Lachnospiraceae	MGV	phrog_20113
uvig_142105_13	98.592	0.0	570	99%		GPD	phrog_20113
uvig_162192_104	67.361	4.01e-136	395	99%	Blautia	GPD	phrog_20113
uvig_218805_40	100.000	0.0	578	100%		GPD	phrog_20113
uvig_224236_10	98.944	0.0	572	97%		GPD	phrog_20113
uvig_236219_94	67.014	4.11e-133	387	95%	Blautia	GPD	phrog_20113
uvig_256903_99	66.667	5.82e-135	392	95%	Blautia_A massiliensis	GPD	phrog_20113
uvig_259587_44	69.444	4.09e-138	400	94%		GPD	phrog_20113
uvig_271525_3	67.361	2.54e-135	393	95%	Blautia	GPD	phrog_20113
uvig_289422_6	67.247	2.08e-137	398	95%	Blautia	GPD	phrog_20113
uvig_30120_42	77.465	6.65e-164	465	96%	Agathobacter rectalis	GPD	phrog_20113
uvig_332681_33	96.831	0.0	562	97%	Lachnospira eligens	GPD	phrog_20113
uvig_39156_72	78.873	1.83e-165	469	96%	Lachnospira eligens	GPD	phrog_20113