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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 APIS171
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300014656_005885|3300014656|Ga0180007_100018939
gene_page: 342 38328.99 6.8850 1.0
Phage property
Phage Assembly id
IMGVR_UViG_3300014656_005885
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF00004.34,PF07726.16,PF20030.4
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 = 0.81 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 37 341 1 281 0.9483 0.86
AF-Q2G2J8-F1-model_v4 69 340 1 263 0.8988 0.7879
AF-Q51481-F1-model_v4 65 341 1 260 0.9039 0.7872
AF-O53705-F1-model_v4 39 341 1 294 0.7912 0.7318
AF-X8F327-F1-model_v4 36 341 5 289 0.796 0.7239
AF-P71922-F1-model_v4 37 341 7 291 0.791 0.7215
AF-K0FAA2-F1-model_v4 37 341 2 287 0.7876 0.7211
AF-K0EW51-F1-model_v4 37 341 9 294 0.7853 0.7198
AF-Q9I0D5-F1-model_v4 40 334 1 274 0.7891 0.7094
AF-A0A2R8Q9W4-F1-model_v4 37 326 25 292 0.7103 0.644

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003663999631.pdb 28 341 1 307 0.9422 0.8952
MGYP001352132134.pdb 23 341 1 316 0.9313 0.8928
MGYP000154782524.pdb 26 335 1 307 0.9336 0.8802
MGYP000612083078.pdb 25 341 1 316 0.9121 0.88
MGYP001556888016.pdb 23 341 1 315 0.9089 0.8759
MGYP001437179942.pdb 34 341 1 305 0.9302 0.8743
MGYP000089807778.pdb 36 341 1 309 0.9235 0.8735
MGYP002793151584.pdb 26 341 1 315 0.9112 0.8728
MGYP000487978036.pdb 34 341 1 318 0.9056 0.8719
MGYP003639579488.pdb 28 341 1 309 0.9199 0.8718

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS171 IMGVR_UViG_3300014656_005885|3300014656|Ga0180007_100018939 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN039

APIS171 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_3300014656_005885|3300014656|Ga0180007_100018939 100.000 6.691E-223 680 1.000% IMGVR PF07728 PF00004 PF07726 PF20030 phrog_
IMGVR_UViG_3300014656_000110|3300014656|Ga0180007_100018502 82.900 3.377E-190 586 0.997% IMGVR PF07728 PF00004 PF07726 phrog_
IMGVR_UViG_2502422304_000001|2502422304|2502439237 63.400 1.533E-128 408 0.933% Desulfosarcina IMGVR PF07728 PF00004 PF07726 phrog_