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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 APIS184
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300031673_000052|3300031673|Ga0307377_1000042019
gene_page: 363 40390.50 6.6528 1.0
Phage property
Phage Assembly id
IMGVR_UViG_3300031673_000052
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF08406.15,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 = 0.76 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 60 360 1 281 0.9376 0.8263
AF-Q51481-F1-model_v4 84 360 1 260 0.9126 0.7756
AF-Q2G2J8-F1-model_v4 87 359 1 263 0.8952 0.7647
AF-O53705-F1-model_v4 61 363 1 297 0.7983 0.7176
AF-X8F327-F1-model_v4 61 360 6 289 0.7955 0.7046
AF-P71922-F1-model_v4 61 360 7 291 0.7925 0.7041
AF-K0EW51-F1-model_v4 61 357 9 293 0.7874 0.7032
AF-K0FAA2-F1-model_v4 61 360 2 287 0.7872 0.7026
AF-Q9I0D5-F1-model_v4 65 356 1 277 0.7831 0.6845
AF-P33348-F1-model_v4 61 363 24 348 0.6986 0.6644

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000102374411.pdb 62 361 3 296 0.9422 0.8545
MGYP000019248657.pdb 65 363 3 301 0.9242 0.8427
MGYP003663999631.pdb 53 361 1 308 0.9033 0.8311
MGYP001377468295.pdb 7 363 2 333 0.8766 0.83
MGYP000089807778.pdb 58 360 1 309 0.9054 0.8299
MGYP000302970196.pdb 46 363 1 312 0.8984 0.8275
MGYP001626341780.pdb 61 359 1 305 0.9067 0.8264
MGYP003650181767.pdb 56 363 1 321 0.8797 0.8256
MGYP000482020579.pdb 37 363 1 335 0.8631 0.8248
MGYP001466739184.pdb 48 360 1 319 0.8874 0.8246

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS184 IMGVR_UViG_3300031673_000052|3300031673|Ga0307377_1000042019 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN039

APIS184 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_3300031673_000052|3300031673|Ga0307377_1000042019 100.000 1.466E-246 750 1.000% IMGVR PF07728 PF08406 PF13401 phrog_249
IMGVR_UViG_3300009702_000046|3300009702|Ga0114931_1000071230 55.000 2.773E-107 347 0.912% IMGVR PF07728 PF08406 PF00004 PF13401 PF07726 phrog_
IMGVR_UViG_3300018080_003262|3300018080|Ga0180433_1000270316 62.700 8.344E-142 447 0.986% IMGVR PF07728 PF08406 phrog_249