Seed protein information help

APIS family ID APIS096
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300030446_000094|3300030446|Ga0169454_10065948
gene_page: 434 47810.64 6.4974 0.0
Phage property
Phage Assembly id
IMGVR_UViG_3300030446_000094
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF08406.15,PF00004.34,PF13521.11
Phrog phrog_249
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 APIS166 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.7 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-A0A0H3H502-F1-model_v4 14 323 1 281 0.9402 0.7714
AF-Q2G2J8-F1-model_v4 43 322 1 263 0.9022 0.7206
AF-Q51481-F1-model_v4 36 324 1 260 0.9071 0.7203
AF-O53705-F1-model_v4 14 345 1 298 0.8005 0.6694
AF-X8F327-F1-model_v4 12 323 5 289 0.8011 0.6611
AF-P71922-F1-model_v4 12 323 7 291 0.7965 0.6591
AF-K0FAA2-F1-model_v4 13 337 2 291 0.793 0.6576
AF-K0EW51-F1-model_v4 13 323 9 294 0.7903 0.6567
AF-Q9I0D5-F1-model_v4 16 348 1 280 0.7835 0.639
AF-P33348-F1-model_v4 12 328 35 357 0.7177 0.638

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000725358559.pdb 1 337 1 327 0.9734 0.851
MGYP000942792073.pdb 1 326 1 325 0.9691 0.8453
MGYP001777979649.pdb 10 341 1 314 0.971 0.834
MGYP000056334911.pdb 5 327 1 319 0.9527 0.8255
MGYP001777638668.pdb 10 323 1 312 0.9628 0.8247
MGYP000921253006.pdb 10 323 1 314 0.9584 0.8231
MGYP000089807778.pdb 11 323 1 309 0.9625 0.8216
MGYP001773449981.pdb 11 330 1 317 0.9471 0.8161
MGYP001466739184.pdb 1 323 1 319 0.9435 0.8154
MGYP001389673498.pdb 3 327 1 328 0.9272 0.8128

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS096 IMGVR_UViG_3300030446_000094|3300030446|Ga0169454_10065948 5 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN039

APIS096 has no similar APIS family.