Seed protein information help

APIS family ID APIS054
Inhibited defense system
CLAN ID CLAN001
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300014204_000482|3300014204|Ga0172381_1000105623
gene_page: 317 36215.78 5.6870 -6.0
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains PF00753.30
Phrog phrog_392
Host taxa
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending pyrimidine cyclase system for antiphage resistance (Pycsar) because it belongs to the same clan as family APIS001 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-Q58769-F1-model_v4 1 289 3 266 0.807 0.7254
AF-A0A133CTF0-F1-model_v4 1 275 1 246 0.8271 0.7206
AF-A0A0H3GHL8-F1-model_v4 5 276 1 242 0.8103 0.7123
AF-A0A0H3GT57-F1-model_v4 1 277 1 306 0.7253 0.7013
AF-P9WGC1-F1-model_v4 1 277 18 272 0.77 0.7012
AF-O74545-F1-model_v4 1 276 6 301 0.7309 0.6986
AF-A0A0H3GM29-F1-model_v4 1 275 3 252 0.7892 0.6967
AF-Q329H1-F1-model_v4 1 275 3 252 0.7884 0.6962
AF-K0EUK8-F1-model_v4 22 275 1 232 0.8163 0.6949
AF-Q9HYM9-F1-model_v4 1 275 1 256 0.7786 0.6909

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP002654867125.pdb 1 274 3 255 0.9459 0.8491
MGYP000134058721.pdb 1 282 1 267 0.9184 0.8365
MGYP001483237707.pdb 1 289 1 272 0.8825 0.8079
MGYP000228473758.pdb 1 276 1 255 0.9036 0.807
MGYP003606950373.pdb 1 275 4 255 0.887 0.7939
MGYP003952926961.pdb 1 275 2 254 0.8888 0.7906
MGYP000036998451.pdb 1 280 1 258 0.8817 0.7898
MGYP001465423269.pdb 1 275 1 253 0.8894 0.7897
MGYP002634904410.pdb 1 275 1 261 0.8762 0.7881
MGYP003624123598.pdb 1 275 1 259 0.8778 0.788

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS054 IMGVR_UViG_3300014204_000482|3300014204|Ga0172381_1000105623 10 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart