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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 APIS050
Inhibited defense system
CLAN ID CLAN028
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300010885_038456|3300010885|Ga0133913_1000088583
gene_page: 116 13771.2 4.0862 -10.5
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains
Phrog phrog_3972
Host taxa
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending broad-spectrum counter-defense because it belongs to the same clan as family APIS035 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.79 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)
MGYP000932118009.pdb 2 109 1 96 0.7406 0.6652
MGYP003611076310.pdb 2 108 1 94 0.6536 0.583

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS050 IMGVR_UViG_3300010885_038456|3300010885|Ga0133913_1000088583 11 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       download full data without filtering help

Clan ID: CLAN028

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS035 2.50E-52 1 116 17 121 broad-spectrum counter-defense YP_009790938.1
APIS075 1.63E-50 1 116 25 129 KY083726_00051
APIS047 8.41E-49 1 116 20 123 IMGVR_UViG_3300009183_005911|3300009183|Ga0114974_10000105111
APIS074 8.58E-48 2 116 5 105 IMGVR_UViG_3300042691_005779|3300042691|Ga0415385_0000706_88760_89182
APIS082 3.96E-21 1 110 1 98 MGV-GENOME-0365202_107

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_3300009149_000235|3300009149|Ga0114918_100009059 36.842 2.82e-12 50.1 49% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300009161_000163|3300009161|Ga0114966_1000077517 45.614 5.75e-22 91.7 97% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300010885_038456|3300010885|Ga0133913_1000088583 100.000 1.09e-80 240 100% IMGVR phrog_3972
IMGVR_UViG_3300024262_000234|3300024262|Ga0210003_10010779 36.842 2.93e-12 50.1 46% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300027708_000054|3300027708|Ga0209188_100015629 38.793 3.03e-18 82.0 98% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300027770_000046|3300027770|Ga0209086_1000006835 45.614 5.31e-22 91.7 99% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300032270_000270|3300032270|Ga0335253_174157224 44.348 1.19e-21 92.0 82% IMGVR phrog_3972
IMGVR_UViG_3300035188_001379|3300035188|Ga0335059_0000014_64639_64959 43.478 6.74e-21 89.0 99% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300043424_000674|3300043424|Ga0451743_0000005_89178_89495 46.847 3.69e-22 92.0 96% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300044948_000079|3300044948|Ga0485157_0000025_27276_27617 45.217 1.48e-22 93.2 99% IMGVR phrog_3972
IMGVR_UViG_3300046450_001444|3300046450|Ga0491204_0000413_23775_24182 40.157 1.76e-16 78.6 93% IMGVR phrog_3972 phrog_16544