Seed protein information help

APIS family ID APIS124
Inhibited defense system
CLAN ID CLAN028
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300037502_004185|3300037502|Ga0310151_0000105_71832_72464
gene_page: 210 23615.53 9.2927 2.5
Phage property
Phage Assembly id
IMGVR_UViG_3300037502_004185
PMID/References
PDB structures ;
Pfam domains PF18788.6
Phrog phrog_1620
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio;
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 APIS031,APIS143 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.56 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

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000093852061.pdb 15 118 1 105 0.8834 0.6519
MGYP000978432647.pdb 17 152 3 130 0.8121 0.647
MGYP001448806754.pdb 17 162 1 122 0.7518 0.6107
MGYP000588437991.pdb 15 145 1 153 0.7255 0.5259

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS124 IMGVR_UViG_3300037502_004185|3300037502|Ga0310151_0000105_71832_72464 6 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN028

APIS124 has no similar APIS family.