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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 APIS045
Inhibited defense system
CLAN ID CLAN031
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300005805_000580|3300005805|Ga0079957_100145420
gene_page: 115 12473.3 5.6105 -1.5
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains PF11195.11
Phrog phrog_30130,phrog_872,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 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.73 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)
MGYP003602489207.pdb 19 115 1 94 0.911 0.8141
MGYP001502806657.pdb 19 115 1 93 0.9011 0.803
MGYP003370295980.pdb 23 115 1 94 0.8961 0.7989
MGYP001606264746.pdb 19 115 1 92 0.8993 0.7952
MGYP003299292040.pdb 19 115 1 94 0.8821 0.7868
MGYP000384891912.pdb 23 115 1 92 0.8905 0.7867
MGYP001616459512.pdb 23 115 1 84 0.9149 0.781
MGYP000611009890.pdb 18 115 1 96 0.873 0.7805
MGYP000506228510.pdb 19 115 1 94 0.8728 0.779
MGYP003299842018.pdb 19 115 1 97 0.8585 0.7777

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS045 IMGVR_UViG_3300005805_000580|3300005805|Ga0079957_100145420 5 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       download full data without filtering help

Clan ID: CLAN031

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS029 2.46E-31 20 115 15 101 Thoeris YP_002300464.1
APIS052 1.03E-25 19 115 73 162 IMGVR_UViG_3300012991_000489|3300012991|Ga0157148_10003866
APIS079 4.67E-24 20 115 85 171 MF042361_00008
APIS043 3.38E-22 21 115 120 208 MH238467_00052

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_3300005805_000580|3300005805|Ga0079957_100145420 100.000 1.51e-77 232 100% IMGVR PF11195 phrog_30130 phrog_872 phrog_1048
IMGVR_UViG_3300016471_000437|3300016471|Ga0186767_10096683 98.261 7.72e-76 228 100% IMGVR PF11195 phrog_30130 phrog_872 phrog_1048
IMGVR_UViG_3300017785_005335|3300017785|Ga0181355_10084467 83.478 9.72e-59 184 98% IMGVR PF11195 phrog_30130 phrog_872 phrog_1048
IMGVR_UViG_3300031857_001469|3300031857|Ga0315909_1000259022 100.000 2.00e-77 232 100% IMGVR PF11195 phrog_30130 phrog_872 phrog_1048
IMGVR_UViG_3300037508_000466|3300037508|Ga0335038_0000137_48885_49223 85.217 1.18e-60 189 98% IMGVR PF11195 phrog_30130 phrog_872 phrog_1048