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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 APIS183
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300025715_000016|3300025715|Ga0209310_1000173107
gene_page: 410 44998.03 8.9384 7.5
Phage property
Phage Assembly id
IMGVR_UViG_3300025715_000016
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF08406.15,PF07726.16,PF13401.11
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 = 0.72 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-A0A0H3H502-F1-model_v4 93 409 1 281 0.9562 0.8025
AF-Q2G2J8-F1-model_v4 123 408 1 263 0.9421 0.7694
AF-Q51481-F1-model_v4 34 409 1 260 0.931 0.7561
AF-O53705-F1-model_v4 95 410 1 297 0.805 0.6878
AF-X8F327-F1-model_v4 94 409 6 289 0.8098 0.6828
AF-P71922-F1-model_v4 94 409 8 291 0.8067 0.6823
AF-K0EW51-F1-model_v4 94 409 10 294 0.7998 0.6793
AF-K0FAA2-F1-model_v4 94 410 2 288 0.7962 0.6747
AF-P33348-F1-model_v4 18 410 1 356 0.7129 0.6599
AF-Q9I0D5-F1-model_v4 97 405 1 277 0.7921 0.6598

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003125958051.pdb 89 410 4 310 0.9564 0.8392
MGYP001616494124.pdb 71 410 1 325 0.9216 0.8236
MGYP000019248657.pdb 100 410 2 301 0.936 0.8106
MGYP000102374411.pdb 34 410 1 297 0.9411 0.8098
MGYP001248496519.pdb 75 408 4 298 0.9372 0.805
MGYP000494590347.pdb 99 410 1 300 0.9275 0.8008
MGYP000487978036.pdb 92 410 4 319 0.8994 0.7976
MGYP001167097648.pdb 91 410 5 306 0.9143 0.7975
MGYP001613533652.pdb 76 408 6 294 0.9332 0.7973
MGYP000149037286.pdb 92 410 1 306 0.9135 0.797

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS183 IMGVR_UViG_3300025715_000016|3300025715|Ga0209310_1000173107 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN039

APIS183 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_3300025715_000016|3300025715|Ga0209310_1000173107 100.000 2.482E-271 824 1.000% IMGVR PF07728 PF08406 PF07726 PF13401 phrog_249
IMGVR_UViG_3300009776_000001|3300009776|Ga0116154_1000018066 95.400 2.482E-271 824 1.000% IMGVR PF07728 PF08406 PF07726 PF13401 phrog_249
IMGVR_UViG_3300031539_000009|3300031539|Ga0307380_1000030444 47.600 6.406E-109 355 0.990% IMGVR PF07728 PF08406 PF07726 phrog_249