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 | APIS087 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | ||||||||||||||
| CLAN ID | CLAN009 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | ||||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | PF08684.13 | |||||||||||||
| Phrog | phrog_2568 | |||||||||||||
| Host taxa | d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Shigella; | |||||||||||||
| Gene Location | Start: ; End: ; Strand: | |||||||||||||
| Description | ||||||||||||||
| Note | This family does not have seed protein, but we infer its function is defending restriction-modification (RM);bacteriophage exclusion (BREX) because it belongs to the same clan as family APIS010 which has seed protein. | |||||||||||||
Predicted 3D structure by alphafold2 with pTM = 0.58 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 ;
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help
Structural homologs
No homologs found in AlphaFold database
No homologs found in esmfold database
Family information Download help
| Fam ID | Seed protein | Member count | Model | Alignment | APIS087 | ON528733_00011 | 3 | HMM model | Member alignment |
|---|
Host Taxa distribution
Length distribution
Homology to other families download full data without filtering help
Clan ID: CLAN009
| Hit APIS family | E-Value | Query Start | Query End | Hit Start | Hit End | Immune system | Seed protein |
|---|---|---|---|---|---|---|---|
| APIS077 | 3.27E-55 | 1 | 114 | 1 | 114 | - | KU946962_00005 |
| APIS010 | 2.92E-32 | 1 | 120 | 1 | 120 | restriction-modification (RM);bacteriophage exclusion (BREX) | NP_041954.1 |
| APIS085 | 1.62E-26 | 1 | 113 | 1 | 113 | - | OL964750_00001 |
Family members, sources, and their hosts help
| Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
|---|---|---|---|---|---|---|---|---|---|
| MG966531_00003 | 55.952 | 1.32e-46 | 158 | 97% | Escherichia phage Ebrios | Escherichia | INPHARED | PF08684 | phrog_2568 |
| MW258709_00002 | 74.757 | 2.04e-54 | 161 | 56% | Kosakonia phage Kc166A | Kosakonia | INPHARED | PF08684 | phrog_2568 |
| ON528733_00011 | 100.000 | 7.21e-119 | 341 | 100% | Shigella phage ESh23 | Shigella | INPHARED | PF08684 | phrog_2568 |
| APIS | Contig | Range |
|---|---|---|
| APIS087 | - |