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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 APIS047
Inhibited defense system
CLAN ID CLAN028
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300009183_005911|3300009183|Ga0114974_10000105111
gene_page: 138 16209.1 4.2837 -11
Phage property
Phage Assembly id
PMID/References
PDB structures ;
Pfam domains
Phrog phrog_3972,phrog_16544
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 = 0.66 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 28 129 1 96 0.7738 0.6097

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS047 IMGVR_UViG_3300009183_005911|3300009183|Ga0114974_10000105111 21 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
APIS075 4.73E-56 22 137 20 130 KY083726_00051
APIS035 4.40E-54 21 137 11 122 broad-spectrum counter-defense YP_009790938.1
APIS074 3.06E-49 26 136 3 105 IMGVR_UViG_3300042691_005779|3300042691|Ga0415385_0000706_88760_89182
APIS050 3.56E-48 27 137 1 113 IMGVR_UViG_3300010885_038456|3300010885|Ga0133913_1000088583
APIS082 1.54E-20 27 130 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_2162886012_000017|2162886012|MBSR1b_0969.00001160 48.649 7.40e-22 92.0 98% IMGVR phrog_3972
IMGVR_UViG_3300002092_001594|3300002092|JGI24218J26658_10000589 61.607 2.07e-40 139 97% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300005066_000002|3300005066|Ga0068536_100001411 48.649 1.31e-21 91.7 80% Aeromonadaceae IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300005293_000125|3300005293|Ga0065715_100915643 48.649 7.68e-22 92.0 97% IMGVR phrog_3972
IMGVR_UViG_3300009158_000568|3300009158|Ga0114977_100030464 39.823 3.03e-14 73.6 83% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300009183_005911|3300009183|Ga0114974_10000105111 100.000 9.01e-98 285 100% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300011336_000379|3300011336|Ga0153703_110628 46.364 4.32e-18 82.0 98% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300020045_001345|3300020045|Ga0206662_100004046 49.107 4.24e-23 95.1 100% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300020045_004648|3300020045|Ga0206662_100003098 45.872 1.46e-20 88.6 97% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300020577_004796|3300020577|Ga0212215_1000007050 47.222 2.15e-22 93.2 94% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300021963_000087|3300021963|Ga0222712_10000228111 60.169 1.38e-40 139 100% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300025372_000524|3300025372|Ga0207957_10000345 56.780 4.39e-34 123 97% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300027759_003827|3300027759|Ga0209296_100006921 64.394 1.09e-50 166 99% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300028584_000416|3300028584|Ga0308423_11571818 38.182 1.76e-14 72.8 96% IMGVR phrog_3972
IMGVR_UViG_3300032291_001809|3300032291|Ga0335297_159572621 47.368 3.32e-21 90.5 96% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300032665_000860|3300032665|Ga0316221_10091637 73.729 1.72e-52 170 100% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300033094_000369|3300033094|Ga0364582_119129 46.364 4.16e-18 82.0 99% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300037312_000780|3300037312|Ga0395899_0000701_8940_9251 50.909 5.67e-26 102 97% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300043395_001765|3300043395|Ga0451677_0000218_37366_37707 46.364 3.09e-21 90.5 90% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300043470_000815|3300043470|Ga0453122_0000013_186597_186974 43.750 8.49e-20 87.4 82% IMGVR phrog_3972 phrog_16544
IMGVR_UViG_3300044912_000426|3300044912|Ga0485170_0000317_10320_10718 42.857 5.33e-20 88.2 83% IMGVR phrog_3972