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Seed proteins  | Seed protein 3D structures  |  Structural homologs  |  Family infomation  | Homology to other families  | Family members, sources, and their hosts  

Seed protein information help

APIS family ID APIS087
Inhibited defense system
CLAN ID CLAN020
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
ON528733_00011
gene_page: 168 19066.7 3.715 -30
Phage property
Phage Assembly id
Shigella phage ESh23 ON528733
PMID/References
PDB structures ;
Pfam domains PF08684.13
Phrog phrog_2568
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Shigella;
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending restriction-modification (RM);bacteriophage exclusion (BREX) because it belongs to the same clan as family APIS010 which has seed protein.

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
APIS087 ON528733_00011 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       download full data without filtering help

Clan ID: CLAN020

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS077 3.27E-55 1 114 1 114 KU946962_00005
APIS010 2.92E-32 1 120 1 120 restriction-modification (RM);bacteriophage exclusion (BREX) NP_041954.1
APIS085 1.62E-26 1 113 1 113 OL964750_00001

Family members, sources, and their hosts        help

Results of representative protein blast against members.

Member pident evalue bitscore qcovs phage host SourceDB Pfam Phrog
MG966531_00003 55.952 1.32e-46 158 97% Escherichia phage Ebrios Escherichia INPHARED PF08684 phrog_2568
MW258709_00002 74.757 2.04e-54 161 56% Kosakonia phage Kc166A Kosakonia INPHARED PF08684 phrog_2568
ON528733_00011 100.000 7.21e-119 341 100% Shigella phage ESh23 Shigella INPHARED PF08684 phrog_2568
APIS Contig Range
APIS087 -

Gene cluster comparison plot by clinker      Download html