| APIS family ID | APIS143 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | restriction-modification (RM) | |||||||||||||
| CLAN ID | CLAN028 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | PMID:28509398 | |||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | PF18788.6,PF18788.6 | |||||||||||||
| Phrog | phrog_1620,phrog_1620 | |||||||||||||
| Host taxa | d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia; | |||||||||||||
| Gene Location | Start: 29825; End: 30436; Strand: - | |||||||||||||
| Description | A key member in the P1 Dar antirestriction system. The absence of either Hdf or DarA results in failure to incorporate any of the other antirestriction proteins. | |||||||||||||
| Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
|---|---|---|---|---|---|---|---|---|---|---|---|
| NC_005856.1 | 24244 | 24552 | - | YP_006490.1 | 102 | 11034.04 | -20.0 | 3.4283 | Hxr | phrog_2292 | |
| NC_005856.1 | 24542 | 27529 | - | YP_006491.1 | 995 | 108753.15 | -13.5 | 5.4395 | DdrB | phrog_2299 ; phrog_2299 ; phrog_5143 ; phrog_5143 ; phrog_14693 ; phrog_14693 ; phrog_1849 ; phrog_1849 | PF18763.6 ;PF18763.6 |
| NC_005856.1 | 26577 | 26975 | + | YP_006492.1 | 132 | 13541.06 | 14.0 | 11.4674 | IddB | ||
| NC_005856.1 | 27542 | 27907 | - | YP_006493.1 | 121 | 13013.56 | -14.0 | 3.8317 | DdrA-like anti-restriction protein | phrog_1855 ; phrog_1855 | |
| NC_005856.1 | 27904 | 29823 | - | YP_006494.1 | 639 | 69479.93 | -28.0 | 4.4870 | released from the phage upon host infection | phrog_1639 ; phrog_26978 ; phrog_1926 | PF18788.6 ;PF18789.6 |
| NC_005856.1 | 29825 | 30436 | - | YP_006495.1 | 203 | 22151.46 | 21.0 | 10.9850 | Hdf-like antirestriction | phrog_1620 ; phrog_1620 | PF18788.6 ;PF18788.6 |
| NC_005856.1 | 30414 | 30857 | - | YP_006496.1 | 147 | 17097.72 | 2.5 | 7.8661 | lysis determining protein | phrog_1898 ; phrog_18375 | PF16084.10 |
| NC_005856.1 | 30854 | 31183 | - | YP_006497.1 | 109 | 11466.42 | -1.0 | 5.6051 | holin | phrog_1527 | PF16083.10 |
| NC_005856.1 | 31251 | 31532 | - | YP_006498.1 | 93 | 10450.29 | -0.5 | 5.7511 | LydC | phrog_11376 ; phrog_1527 ; phrog_18875 ; phrog_32746 | PF16083.10 |
| NC_005856.1 | 31660 | 32220 | + | YP_006499.1 | 186 | 21230.61 | 11.0 | 10.6525 | DNA invertase | phrog_8275 ; phrog_664 ; phrog_125 | PF00239.26 ;PF02796.20 |
| NC_005856.1 | 33785 | 34318 | + | YP_006500.1 | 177 | 20677.34 | -3.0 | 5.1188 | tail fiber chaperone | phrog_11571 ; phrog_3792 ; phrog_24494 ; phrog_136 ; phrog_21546 | PF02413.22 |
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) |
|---|---|---|---|---|---|---|
| MGYP000978432647.pdb | 10 | 130 | 4 | 129 | 0.8247 | 0.6455 |
| MGYP001448806754.pdb | 9 | 125 | 1 | 118 | 0.8478 | 0.6102 |
| MGYP000588437991.pdb | 7 | 142 | 1 | 215 | 0.5588 | 0.5279 |
| Fam ID | Seed protein | Member count | Model | Alignment | APIS143 | YP_006495.1 | 82 | HMM model | Member alignment |
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