| APIS family ID | APIS041 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | ||||||||||||||
| CLAN ID | CLAN030 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | ||||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | PF00753.30 | |||||||||||||
| Phrog | phrog_392 | |||||||||||||
| Host taxa | d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Paraliobacillus;s__Paraliobacillus ryukyuensis | |||||||||||||
| Gene Location | Start: 923901; End: 924644; Strand: - | |||||||||||||
| Description | ||||||||||||||
| Note | This family does not have seed protein, but we infer its function is defending pyrimidine cyclase system for antiphage resistance (Pycsar) because it belongs to the same clan as family APIS001 which has seed protein. | |||||||||||||
| Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
|---|---|---|---|---|---|---|---|---|---|---|---|
| IMGVR_UViG_2832702071_000001 | 920815 | 921990 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704092 | 391 | 45191.84 | -22.5 | 4.5291 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 922073 | 922561 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704093 | 162 | 18578.57 | 0.0 | 6.4832 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 922619 | 922801 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704094 | 60 | 6990.80 | -7.5 | 4.0377 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 922943 | 923491 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704095 | 182 | 22218.17 | 0.5 | 6.7472 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 923525 | 923761 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704096 | 78 | 9357.76 | 5.0 | 10.0248 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 923901 | 924644 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704097 | 247 | 28993.97 | -2.0 | 6.2226 | ribonuclease BN (tRNA processing enzyme) | phrog_392 | PF00753.30 |
| IMGVR_UViG_2832702071_000001 | 924780 | 925136 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704098 | 118 | 14238.48 | 7.5 | 9.6145 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 925151 | 925423 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704099 | 90 | 10338.59 | -5.0 | 4.3228 | hypothetical protein | ||
| IMGVR_UViG_2832702071_000001 | 925463 | 926035 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704100 | 190 | 21654.57 | -4.5 | 5.0067 | O-acetyl-ADP-ribose deacetylase (regulator of RNase III) | phrog_2613 ; phrog_14717 | PF01661.24 |
| IMGVR_UViG_2832702071_000001 | 925463 | 926035 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704100 | 190 | 21654.57 | -4.5 | 5.0067 | O-acetyl-ADP-ribose deacetylase (regulator of RNase III) | phrog_2613 ; phrog_14717 | PF20016.2 |
| IMGVR_UViG_2832702071_000001 | 926112 | 926648 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704101 | 178 | 21055.73 | -14.0 | 4.2159 | hypothetical protein | phrog_2259 | PF16473.8 |
| IMGVR_UViG_2832702071_000001 | 926689 | 926868 | - | IMGVR_UViG_2832702071_000001|2832702071|2832704102 | 59 | 6943.91 | -2.0 | 4.6691 | hypothetical protein |
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-A0A133CTF0-F1-model_v4 | 2 | 247 | 1 | 246 | 0.8379 | 0.8175 |
| AF-A0A0H3GHL8-F1-model_v4 | 6 | 247 | 1 | 240 | 0.8327 | 0.8037 |
| AF-P9WGC1-F1-model_v4 | 1 | 247 | 17 | 269 | 0.8469 | 0.7915 |
| AF-Q58769-F1-model_v4 | 1 | 247 | 2 | 255 | 0.8313 | 0.7828 |
| AF-A0A0H3GM29-F1-model_v4 | 1 | 247 | 2 | 251 | 0.8049 | 0.7784 |
| AF-P50474-F1-model_v4 | 1 | 247 | 26 | 278 | 0.847 | 0.7782 |
| AF-P16692-F1-model_v4 | 1 | 247 | 2 | 251 | 0.8039 | 0.777 |
| AF-Q329H1-F1-model_v4 | 1 | 247 | 2 | 251 | 0.8029 | 0.7769 |
| AF-O74545-F1-model_v4 | 1 | 247 | 5 | 299 | 0.8586 | 0.7697 |
| AF-Q9HYM9-F1-model_v4 | 2 | 247 | 1 | 256 | 0.7995 | 0.7671 |
| Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
|---|---|---|---|---|---|---|
| MGYP001278173685.pdb | 2 | 247 | 1 | 252 | 0.9257 | 0.9025 |
| MGYP003194564429.pdb | 2 | 247 | 1 | 252 | 0.9256 | 0.9024 |
| MGYP001047755842.pdb | 2 | 247 | 1 | 248 | 0.9009 | 0.884 |
| MGYP001450167839.pdb | 2 | 247 | 1 | 247 | 0.905 | 0.8826 |
| MGYP001093182360.pdb | 2 | 247 | 1 | 255 | 0.8957 | 0.8647 |
| MGYP000919716965.pdb | 2 | 247 | 1 | 252 | 0.8964 | 0.8605 |
| MGYP000754846076.pdb | 1 | 247 | 2 | 245 | 0.879 | 0.8601 |
| MGYP001157950379.pdb | 1 | 247 | 2 | 247 | 0.8703 | 0.854 |
| MGYP000856702051.pdb | 1 | 247 | 2 | 267 | 0.9038 | 0.8532 |
| MGYP003452926687.pdb | 1 | 247 | 1 | 265 | 0.8956 | 0.8522 |
| Fam ID | Seed protein | Member count | Model | Alignment | APIS041 | IMGVR_UViG_2832702071_000001|2832702071|2832704097 | 4 | HMM model | Member alignment |
|---|
| Hit APIS family | E-Value | Query Start | Query End | Hit Start | Hit End | Immune system | Seed protein |
|---|---|---|---|---|---|---|---|
| APIS001 | 1.00E-44 | 1 | 247 | 19 | 270 | pyrimidine cyclase system for antiphage resistance (Pycsar) | YP_009840594.1 |
| APIS058 | 6.47E-37 | 2 | 247 | 16 | 268 | IMGVR_UViG_3300022562_000702|3300022562|Ga0247387_1000200120 | |
| APIS076 | 3.10E-31 | 2 | 246 | 6 | 258 | IMGVR_UViG_3300044693_000096|3300044693|Ga0466961_0000159_42271_43065 | |
| APIS062 | 3.11E-29 | 2 | 247 | 1 | 263 | IMGVR_UViG_3300028374_000006|3300028374|Ga0306906_100003345 | |
| APIS073 | 2.60E-28 | 2 | 247 | 23 | 285 | IMGVR_UViG_3300042197_004918|3300042197|Ga0451494_0000046_37885_38742 | |
| APIS054 | 4.48E-26 | 2 | 246 | 3 | 261 | IMGVR_UViG_3300014204_000482|3300014204|Ga0172381_1000105623 | |
| APIS066 | 1.23E-25 | 2 | 247 | 1 | 293 | IMGVR_UViG_3300035396_000446|3300035396|Ga0393109_006065_59543_60412 | |
| APIS064 | 1.12E-23 | 2 | 247 | 1 | 258 | IMGVR_UViG_3300033145_003233|3300033145|Ga0366840_1000004654 | |
| APIS060 | 3.65E-23 | 2 | 247 | 1 | 259 | IMGVR_UViG_3300024258_000005|3300024258|Ga0233440_1000037199 | |
| APIS044 | 3.48E-19 | 4 | 236 | 2 | 233 | HM144387_00160 |
| Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
|---|---|---|---|---|---|---|---|---|---|
| IMGVR_UViG_2582580961_000009|2582580961|2584062426 | 49.565 | 8.86e-73 | 230 | 92% | Priestia flexa | IMGVR | PF00753 | phrog_392 | |
| IMGVR_UViG_2832702071_000001|2832702071|2832704097 | 100.000 | 0.0 | 512 | 100% | Paraliobacillus ryukyuensis | IMGVR | PF00753 | phrog_392 | |
| IMGVR_UViG_3300009011_000023|3300009011|Ga0105251_1000039243 | 47.200 | 1.14e-76 | 240 | 100% | IMGVR | PF00753 | phrog_392 | ||
| IMGVR_UViG_3300025735_000016|3300025735|Ga0207713_100037673 | 47.200 | 1.10e-76 | 240 | 100% | IMGVR | PF00753 | phrog_392 |