Seed protein information help

APIS family ID APIS051
Inhibited defense system
CLAN ID CLAN003
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300012016_000701|3300012016|Ga0120387_100082722
gene_page: 223 26277.46 3.5608 -44.0
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains PF07275.14
Phrog phrog_14321,phrog_2059
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 APIS003,ardu which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.7 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-A0A0H3GZQ3-F1-model_v4 55 223 5 168 0.7952 0.6754

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003228289826.pdb 37 223 1 190 0.9258 0.8467
MGYP002627441165.pdb 36 221 1 189 0.9162 0.8361
MGYP003538369595.pdb 39 223 1 186 0.9113 0.8242
MGYP002522264593.pdb 29 222 2 195 0.8904 0.8233
MGYP002523803474.pdb 41 223 23 207 0.9271 0.8031
MGYP002855897325.pdb 34 223 34 223 0.944 0.7996
MGYP003306129017.pdb 27 222 10 202 0.8456 0.7918
MGYP002624915303.pdb 20 223 9 205 0.8283 0.7829
MGYP000232002069.pdb 55 222 2 166 0.9078 0.7805
MGYP003298723900.pdb 54 222 1 170 0.9003 0.78

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS051 IMGVR_UViG_3300012016_000701|3300012016|Ga0120387_100082722 8 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart