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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 APIS116
Inhibited defense system
CLAN ID CLAN037
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_2645727582_000005|2645727582|2646091902
gene_page: 284 32692.64 8.5611 6.0
Phage property
Phage Assembly id
IMGVR_UViG_2645727582_000005
PMID/References
PDB structures ;
Pfam domains
Phrog phrog_849,phrog_14043
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter;s__Acinetobacter baumannii
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending Retron because it belongs to the same clan as family APIS094 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.64 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-Q32BQ1-F1-model_v4 111 284 136 364 0.6088 0.3817

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003945228509.pdb 34 284 1 172 0.9412 0.7546
MGYP002648059426.pdb 34 280 1 171 0.9393 0.7486
MGYP000682962050.pdb 113 284 1 173 0.9332 0.7452
MGYP000550666186.pdb 111 284 1 175 0.9122 0.7325
MGYP003451470354.pdb 36 284 1 174 0.8913 0.7215
MGYP000411629796.pdb 34 284 1 173 0.9046 0.7206
MGYP000680009746.pdb 34 284 1 173 0.9041 0.72
MGYP000582941204.pdb 104 284 9 187 0.8915 0.7171
MGYP000155127275.pdb 114 284 1 165 0.9144 0.7162
MGYP001152145515.pdb 34 284 1 173 0.8958 0.7151

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS116 IMGVR_UViG_2645727582_000005|2645727582|2646091902 6 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN037

APIS116 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_2645727582_000005|2645727582|2646091902 100.000 2.068E-190 583 1.000% Acinetobacter baumannii IMGVR phrog_14043 phrog_849
IMGVR_UViG_3300012075_000001|3300012075|Ga0153917_100007659 90.000 2.428E-172 531 0.993% IMGVR phrog_14043 phrog_849
IMGVR_UViG_2529292945_000012|2529292945|2530621425 97.000 1.878E-189 580 0.996% Acinetobacter baumannii IMGVR phrog_14043 phrog_849
IMGVR_UViG_2588253958_000004|2588253958|2589411059 96.600 4.836E-189 579 1.000% Acinetobacter baumannii IMGVR phrog_14043 phrog_849
IMGVR_UViG_2568526322_000002|2568526322|2569628467 97.000 5.323E-190 582 1.000% Acinetobacter baumannii IMGVR phrog_14043 phrog_849
IMGVR_UViG_2925533587_000001|2925533587|2925537612 98.800 5.386E-177 544 0.915% Acinetobacter baumannii IMGVR phrog_14043 phrog_849