| APIS family ID | APIS142 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | ||||||||||||||
| CLAN ID | CLAN037 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | ||||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | ||||||||||||||
| Phrog | phrog_14043,phrog_14043 | |||||||||||||
| Host taxa | d__Eukaryota;p__Chordata;c__Amphibia;o__Caudata;f__Proteidae;g__Proteus;s__unclassified Proteus species | |||||||||||||
| Gene Location | Start: 44744; End: 45241; Strand: - | |||||||||||||
| Description | ||||||||||||||
| Note | This family does not have seed protein, but we infer its function is defending Retron because it belongs to the same clan as family APIS094 which has seed protein. | |||||||||||||
| Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MT740244 | 41767 | 43605 | - | MT740244_00057 | 612 | 69851.25 | 17.0 | 8.5565 | DNA polymerase | phrog_24147 | PF00476.25 |
| MT740244 | 43858 | 44124 | - | MT740244_00058 | 88 | 10083.58 | 0.5 | 6.9704 | hypothetical protein | ||
| MT740244 | 44151 | 44336 | - | MT740244_00059 | 61 | 7054.64 | -7.0 | 4.1068 | hypothetical protein | phrog_10677 | |
| MT740244 | 44337 | 44555 | - | MT740244_00060 | 72 | 8230.61 | 1.5 | 8.4938 | hypothetical protein | ||
| MT740244 | 44545 | 44760 | - | MT740244_00061 | 71 | 8514.86 | 2.5 | 9.3658 | hypothetical protein | ||
| MT740244 | 44744 | 45241 | - | MT740244_00062 | 165 | 18797.48 | 3.5 | 7.8100 | DNA primase | phrog_14043 ; phrog_14043 | |
| MT740244 | 45301 | 45705 | - | MT740244_00063 | 134 | 16081.34 | -6.5 | 4.5071 | hypothetical protein | PF22885.1 | |
| MT740244 | 45748 | 46110 | - | MT740244_00064 | 120 | 13341.44 | 28.0 | 11.9303 | hypothetical protein | phrog_4590 | |
| MT740244 | 46103 | 46399 | - | MT740244_00065 | 98 | 11098.62 | -2.5 | 5.1085 | hypothetical protein | phrog_36488 | PF03477.21 |
| MT740244 | 46410 | 46874 | - | MT740244_00066 | 154 | 17663.91 | -3.0 | 5.2956 | DNA binding protein | phrog_3636 | PF00210.29 |
| MT740244 | 46874 | 47158 | - | MT740244_00067 | 94 | 10741.48 | 4.5 | 10.0262 | hypothetical protein | phrog_10984 |
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-P56064-F1-model_v4 | 1 | 165 | 126 | 351 | 0.8161 | 0.5202 |
| AF-P0ABS5-F1-model_v4 | 1 | 165 | 138 | 367 | 0.8186 | 0.5175 |
| AF-Q32BQ1-F1-model_v4 | 1 | 165 | 138 | 367 | 0.8182 | 0.5173 |
| AF-Q9PM37-F1-model_v4 | 1 | 165 | 126 | 353 | 0.8173 | 0.5115 |
| Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
|---|---|---|---|---|---|---|
| MGYP000119266823.pdb | 1 | 165 | 4 | 172 | 0.8974 | 0.8575 |
| MGYP000909425859.pdb | 1 | 165 | 8 | 174 | 0.8936 | 0.8544 |
| MGYP000550666186.pdb | 1 | 163 | 3 | 176 | 0.8825 | 0.8368 |
| MGYP000682962050.pdb | 1 | 165 | 1 | 175 | 0.8812 | 0.8353 |
| MGYP000155127275.pdb | 2 | 164 | 1 | 165 | 0.8527 | 0.833 |
| MGYP001916582558.pdb | 1 | 165 | 21 | 189 | 0.8955 | 0.8262 |
| MGYP003650345132.pdb | 1 | 164 | 4 | 174 | 0.8696 | 0.8225 |
| MGYP000909753780.pdb | 1 | 164 | 4 | 169 | 0.8464 | 0.8125 |
| MGYP000346546465.pdb | 1 | 165 | 4 | 172 | 0.8511 | 0.812 |
| MGYP000338160990.pdb | 2 | 165 | 1 | 183 | 0.872 | 0.8093 |
| Fam ID | Seed protein | Member count | Model | Alignment | APIS142 | MT740244_00062 | 3 | HMM model | Member alignment |
|---|
| Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
|---|---|---|---|---|---|---|---|---|---|
| MT740244_00062 | 100.000 | 8.528E-115 | 358 | 1.000% | Proteus phage 3H10_20 | Proteus | INPHARED | phrog_14043 phrog_14043 | |
| LC519601_00131 | 89.000 | 2.175E-97 | 308 | 1.000% | Cronobacter phage vB_CsaP_009 | Cronobacter | INPHARED | phrog_14043 | |
| MT028297_00060 | 100.000 | 3.013E-114 | 357 | 1.000% | Proteus phage Privateer | Proteus | INPHARED | phrog_14043 |