| APIS family ID | APIS130 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | Retron | |||||||||||||
| CLAN ID | CLAN054 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | PMID:35850148 | |||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | ||||||||||||||
| Phrog | phrog_4778,phrog_4778 | |||||||||||||
| Host taxa | d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia; | |||||||||||||
| Gene Location | Start: 1417488; End: 1417763; Strand: - | |||||||||||||
| Description | RacC is a Rac prophage gene, function as retron TA blocker. It directly blocks RcaT toxicity, inhibit the toxin of abortive infection systems. | |||||||||||||
| Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
|---|---|---|---|---|---|---|---|---|---|---|---|
| NC_000913.3 | 1413237 | 1413452 | - | NP_415862.4 | 71 | 8455.79 | 3.5 | 9.5243 | excisionase | phrog_539 | PF06806.17 |
| NC_000913.3 | 1413531 | 1413740 | - | NP_415863.1 | 69 | 7863.08 | 7.0 | 10.2244 | double-strand break reduction protein | phrog_5753 | PF06688.16 |
| NC_000913.3 | 1413733 | 1413927 | - | NP_415864.1 | 64 | 7018.89 | 5.5 | 8.9538 | endodeoxyribonuclease toxin RalR | phrog_599 | PF14354.11 |
| NC_000913.3 | 1413984 | 1414793 | - | NP_415865.1 | 269 | 29721.04 | 4.5 | 8.4625 | recombinase RecT | phrog_148 ; phrog_34786 | PF03837.19 |
| NC_000913.3 | 1414786 | 1417386 | - | NP_415866.1 | 866 | 96368.27 | -53.0 | 4.4307 | exonuclease VIII%2C ds DNA exonuclease%2C 5' --> 3' specific | phrog_14078 ; phrog_11568 ; phrog_412 ; phrog_607 ; phrog_20376 | PF06630.16 ;PF12684.12 |
| NC_000913.3 | 1417488 | 1417763 | - | NP_415867.1 | 91 | 10015.67 | -1.0 | 5.7121 | protein RacC | phrog_4778 ; phrog_4778 | |
| NC_000913.3 | 1417838 | 1418008 | - | YP_588451.1 | 56 | 6583.73 | 3.0 | 7.7292 | zinc-binding protein | phrog_1520 ; phrog_6751 | PF04181.18 |
| NC_000913.3 | 1418008 | 1418229 | - | NP_415869.2 | 73 | 8433.81 | 6.5 | 10.2283 | inhibitor of FtsZ | phrog_294 | |
| NC_000913.3 | 1418671 | 1419159 | + | NP_415870.4 | 162 | 19243.79 | 12.0 | 10.3776 | phage superinfection exclusion protein | phrog_6399 | PF14163.11 |
| NC_000913.3 | 1419156 | 1419311 | - | NP_415872.2 | 51 | 5768.53 | 2.5 | 9.1450 | DUF1391 domain-containing protein YdaF | phrog_37620 ; phrog_751 ; phrog_6326 | PF07151.17 |
| NC_000913.3 | 1419322 | 1419456 | - | NP_415873.2 | 44 | 5193.93 | -1.5 | 4.6285 | uncharacterized protein YdaG | phrog_14709 | PF14555.11 |
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 .
| Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
|---|---|---|---|---|---|---|
| AF-P15033-F1-model_v4 | 1 | 91 | 1 | 91 | 0.9875 | 0.983 |
| Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
|---|---|---|---|---|---|---|
| MGYP003474699709.pdb | 1 | 73 | 1 | 75 | 0.9071 | 0.7966 |
| Fam ID | Seed protein | Member count | Model | Alignment | APIS130 | NP_415867.1 | 4 | HMM model | Member alignment |
|---|
| Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
|---|---|---|---|---|---|---|---|---|---|
| IMGVR_UViG_3300000059_000085|3300000059|PaHGMunAill_00050063 | 96.000 | 1.497E-56 | 186 | 1.000% | Escherichia | IMGVR | phrog_4778 | ||
| NP_415867.1 | 100.000 | 1.497E-56 | 186 | 1.000% | prophage of Escherichia coli str. K-12 substr. MG1655 | Escherichia | NCBI | phrog_4778 phrog_4778 | |
| IMGVR_UViG_3300033575_000024|3300033575|Ga0372746_0134_10086_10409 | 96.000 | 1.497E-56 | 186 | 1.000% | Escherichia | IMGVR | phrog_4778 | ||
| IMGVR_UViG_3300013958_000143|3300013958|Ga0117815_100100923 | 96.000 | 1.497E-56 | 186 | 1.000% | Escherichia | IMGVR | phrog_4778 |