Seed protein information help

APIS family ID APIS070
Inhibited defense system
CLAN ID CLAN023
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21955_22497
gene_page: 180 20758.65 7.5494 4.0
Phage property
Phage Assembly id
IMGVR_UViG_3300037297_000240
PMID/References
PDB structures ;
Pfam domains
Phrog phrog_22140,phrog_872,phrog_32732,phrog_23843,phrog_2428,phrog_9467
Host taxa
Gene Location Start: 21955;  End: 22497;  Strand: -
Description
Note This family does not have seed protein, but we infer its function is defending Thoeris because it belongs to the same clan as family APIS024,APIS029 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
IMGVR_UViG_3300037297_000240 19535 20032 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_19535_20032 165 19748.78 3.5 8.8288 hypothetical protein
IMGVR_UViG_3300037297_000240 20014 20577 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_20014_20577 187 22252.33 1.5 6.9574 spore coat polysaccharide biosynthesis protein SpsF
IMGVR_UViG_3300037297_000240 20597 21118 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_20597_21118 173 20685.69 -0.5 5.9876 predicted acetyltransferase
IMGVR_UViG_3300037297_000240 21115 21729 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21115_21729 204 24030.81 0.0 6.4775 sialic acid synthase SpsE
IMGVR_UViG_3300037297_000240 21826 21904 + IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21826_21904 tRNA_Ile_GAT
IMGVR_UViG_3300037297_000240 21955 22497 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21955_22497 180 20758.65 4.0 7.5494 hypothetical protein phrog_2428 ; phrog_23843 ; phrog_32732 ; phrog_15810 ; phrog_872 ; phrog_22140 ; phrog_9467 ; phrog_1454
IMGVR_UViG_3300037297_000240 22497 23084 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_22497_23084 195 23145.33 -13.0 4.4409 hypothetical protein phrog_2259 PF16473.8
IMGVR_UViG_3300037297_000240 23106 23636 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_23106_23636 176 20478.34 -3.0 4.9225 hypothetical protein phrog_24725
IMGVR_UViG_3300037297_000240 23638 23976 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_23638_23976 112 13360.21 2.0 9.1567 hypothetical protein phrog_26268
IMGVR_UViG_3300037297_000240 23997 24422 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_23997_24422 141 16381.66 0.0 6.4869 single-strand DNA-binding protein phrog_44 PF00436.28
IMGVR_UViG_3300037297_000240 24376 24471 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_24376_24471 31 3395.85 -2.0 4.0624 DNA-directed RNA polymerase subunit RPC12/RpoP

Seed genomic context- JBrowse     

Predicted 3D structure by alphafold2 with pTM = 0.58 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
APIS070 IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21955_22497 8 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       download full data without filtering help

Clan ID: CLAN023

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS024 1.48E-64 37 180 5 163 Thoeris UPI13470.1
APIS061 9.23E-59 70 180 79 197 - IMGVR_UViG_3300024337_000617|3300024337|Ga0255060_100056963
APIS052 5.60E-23 1 64 3 76 - IMGVR_UViG_3300012991_000489|3300012991|Ga0157148_10003866
APIS079 1.31E-21 1 64 13 87 - MF042361_00008

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_3300018427_002137|3300018427|Ga0187903_1000072118 50.000 2.76e-49 166 100% Faecousia IMGVR phrog_11049 phrog_22140 phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300035130_000083|3300035130|Ga0373574_0000435_10693_11244 47.778 1.04e-45 157 96% IMGVR phrog_18865 phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300035136_000021|3300035136|Ga0373584_0000007_3175_3741 51.852 5.88e-53 175 100% IMGVR phrog_18865 phrog_22140 phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21955_22497 100.000 4.70e-131 372 100% IMGVR phrog_22140 phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300038455_000036|3300038455|Ga0436474_0000123_60665_61252 55.978 2.38e-65 207 93% IMGVR phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300042923_000088|3300042923|Ga0456365_0005073_16093_16656 47.027 2.90e-42 148 98% IMGVR phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_3300048914_000002|3300048914|Ga0496111_0012093_251_823 42.487 1.56e-38 139 100% IMGVR phrog_872 phrog_32732 phrog_23843 phrog_2428 phrog_9467
IMGVR_UViG_651324002_000003|651324002|651579585 62.626 4.63e-42 130 54% Acetonema longum IMGVR phrog_15810 phrog_4502 phrog_22140 phrog_1810 phrog_4159 phrog_419 phrog_23843 phrog_2428