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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 APIS110
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300007520_000028|3300007520|Ga0105054_100008822
gene_page: 684 73582.99 4.9403 -13.5
Phage property
Phage Assembly id
IMGVR_UViG_3300007520_000028
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF00004.34
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 APIS166 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.55 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-A0A3P7PBI1-F1-model_v4 86 683 93 858 0.468 0.4043

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003686209621.pdb 328 674 1 345 0.942 0.7076
MGYP001588267429.pdb 246 674 12 378 0.891 0.6902
MGYP003706907671.pdb 353 675 11 328 0.9377 0.6865
MGYP001269374496.pdb 353 683 5 332 0.9259 0.6863
MGYP001189287878.pdb 352 677 1 323 0.9244 0.6832
MGYP000733655940.pdb 29 677 1 362 0.8724 0.6651
MGYP000117001429.pdb 29 673 7 356 0.8684 0.6582
MGYP003332725384.pdb 12 675 4 348 0.8696 0.6542
MGYP000091352304.pdb 351 683 11 348 0.8774 0.6529
MGYP003376661277.pdb 325 680 4 344 0.8665 0.6516

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS110 IMGVR_UViG_3300007520_000028|3300007520|Ga0105054_100008822 4 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN039

APIS110 has no similar APIS family.

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_3300007520_000028|3300007520|Ga0105054_100008822 100.000 0.000E+00 1369 1.000% IMGVR PF07728 PF00004 phrog_
IMGVR_UViG_3300027832_000765|3300027832|Ga0209491_100072912 95.300 0.000E+00 1369 0.999% IMGVR PF07728 PF00004 phrog_
IMGVR_UViG_3300007519_000622|3300007519|Ga0105055_1000456424 94.900 0.000E+00 1363 0.999% IMGVR PF07728 PF00004 phrog_
IMGVR_UViG_3300007522_000616|3300007522|Ga0105053_100068942 95.200 0.000E+00 1368 0.999% IMGVR PF07728 PF00004 phrog_