Seed protein information help

APIS family ID APIS198
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300050581_000016|3300050581|Ga0531113_000653_18870_19973
gene_page: 367 40966.96 6.8370 1.5
Phage property
Phage Assembly id
IMGVR_UViG_3300050581_000016
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF08406.15,PF07726.16,PF00004.34,PF04851.20
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 = 0.78 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 65 366 1 281 0.9391 0.824
AF-Q51481-F1-model_v4 93 366 1 260 0.9239 0.7833
AF-Q2G2J8-F1-model_v4 100 365 1 263 0.9064 0.772
AF-K0EW51-F1-model_v4 27 367 1 294 0.7878 0.7008
AF-X8F327-F1-model_v4 64 367 5 289 0.7931 0.7002
AF-P71922-F1-model_v4 24 367 1 291 0.7905 0.6998
AF-O53705-F1-model_v4 66 367 1 297 0.7798 0.6974
AF-K0FAA2-F1-model_v4 65 367 2 288 0.7837 0.6955
AF-Q9I0D5-F1-model_v4 68 363 1 276 0.7762 0.6759
AF-P33348-F1-model_v4 64 367 35 355 0.6858 0.6507

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000089807778.pdb 64 366 1 309 0.933 0.8546
MGYP000300022970.pdb 64 367 1 309 0.9267 0.8478
MGYP000858003990.pdb 67 366 1 306 0.9274 0.8453
MGYP003663999631.pdb 51 367 1 308 0.9216 0.8439
MGYP001466739184.pdb 57 366 3 319 0.9083 0.8433
MGYP001626237157.pdb 64 366 1 312 0.9137 0.8416
MGYP001557083938.pdb 59 367 1 312 0.907 0.8403
MGYP003646054441.pdb 58 367 1 315 0.9017 0.84
MGYP001281949795.pdb 58 367 1 321 0.8986 0.8376
MGYP001467461195.pdb 21 367 1 324 0.8947 0.8366

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS198 IMGVR_UViG_3300050581_000016|3300050581|Ga0531113_000653_18870_19973 5 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN039

APIS198 has no similar APIS family.