Seed protein information help

APIS family ID APIS052
Inhibited defense system
CLAN ID CLAN001
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300012991_000489|3300012991|Ga0157148_10003866
gene_page: 164 18071.2 4.1386 -11.5
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains PF11195.11
Phrog phrog_30130,phrog_872,phrog_9467,phrog_1048
Host taxa
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending Thoeris because it belongs to the same clan as family APIS024,APIS029,APIS211,APIS245,APIS283,APIS315,APIS356,APIS372,APIS373,APIS378 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.6 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

No homologs found in AlphaFold database

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003620421190.pdb 5 164 6 142 0.8136 0.7311
MGYP000527072697.pdb 6 164 6 167 0.7617 0.7177
MGYP000948547793.pdb 13 164 1 135 0.7889 0.6935
MGYP000209244542.pdb 6 164 6 167 0.7292 0.6819
MGYP000914285054.pdb 77 163 1 87 0.8974 0.677
MGYP001070471033.pdb 72 164 1 89 0.8744 0.6641
MGYP003456190020.pdb 73 164 1 88 0.8638 0.6565
MGYP000632396215.pdb 6 164 6 152 0.7129 0.6551
MGYP000038000667.pdb 77 164 1 86 0.8574 0.6541
MGYP003410594368.pdb 14 164 1 116 0.7876 0.6537

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS052 IMGVR_UViG_3300012991_000489|3300012991|Ga0157148_10003866 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       download full data without filtering help

Clan ID: CLAN001

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS079 3.78E-65 1 164 13 172 - MF042361_00008
APIS029 1.09E-39 74 164 15 102 Thoeris YP_002300464.1
APIS043 2.00E-37 72 164 117 209 - MH238467_00052
APIS045 2.80E-26 77 163 23 115 - IMGVR_UViG_3300005805_000580|3300005805|Ga0079957_100145420
APIS070 5.30E-24 1 75 12 76 - IMGVR_UViG_3300037297_000240|3300037297|Ga0394146_0000041_21955_22497