Seed protein information help

APIS family ID APIS159
Inhibited defense system
CLAN ID CLAN003
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300040856_001282|3300040856|Ga0436647_0012686_635_1258
gene_page: 207 23359.93 4.3926 -14.5
Phage property
Phage Assembly id
IMGVR_UViG_3300040856_001282
PMID/References
PDB structures ;
Pfam domains PF07275.16
Phrog
Host taxa ;;;;;;
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending restriction-modification (RM) because it belongs to the same clan as family APIS003,ardu which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.72 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-A0A132P918-F1-model_v4 37 207 1 166 0.8022 0.6994
AF-A0A0H3GZQ3-F1-model_v4 32 207 1 168 0.7936 0.6967
AF-A0A132ZEK5-F1-model_v4 37 207 1 167 0.797 0.6955

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003656451946.pdb 16 207 5 194 0.859 0.8177
MGYP003323835201.pdb 41 207 1 170 0.907 0.8128
MGYP001158282924.pdb 21 207 1 177 0.8884 0.81
MGYP001604904744.pdb 41 207 1 170 0.888 0.7992
MGYP001226369659.pdb 41 207 1 170 0.8869 0.7964
MGYP000444401356.pdb 41 207 1 165 0.8972 0.7961
MGYP000557273987.pdb 19 207 1 181 0.8552 0.7855
MGYP000526673471.pdb 26 207 1 176 0.8668 0.7841
MGYP003116609048.pdb 37 207 4 172 0.8686 0.7823
MGYP002642003215.pdb 37 207 1 168 0.8771 0.7818

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS159 IMGVR_UViG_3300040856_001282|3300040856|Ga0436647_0012686_635_1258 12 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN003

APIS159 has no similar APIS family.