Seed protein information help

APIS family ID APIS070
Inhibited defense system
CLAN ID CLAN001
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 20758.7 7.5494 4
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,APIS211,APIS245,APIS283,APIS315,APIS356,APIS372,APIS373,APIS378 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: CLAN001

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