| APIS family ID | APIS059 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Inhibited defense system | ||||||||||||||
| CLAN ID | CLAN002 | |||||||||||||
| Seed protein property |
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| Phage property |
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| PMID/References | ||||||||||||||
| PDB structures | ; | |||||||||||||
| Pfam domains | ||||||||||||||
| Phrog | phrog_18122,phrog_27100,phrog_4400,phrog_25514,phrog_37109,phrog_16176 | |||||||||||||
| Host taxa | d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas; | |||||||||||||
| Gene Location | Start: 89110; End: 90342; Strand: + | |||||||||||||
| Description | ||||||||||||||
| Note | This family does not have seed protein, but we infer its function is defending Gabija because it belongs to the same clan as family APIS008 which has seed protein. | |||||||||||||
| Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
|---|---|---|---|---|---|---|---|---|---|---|---|
| KF302034 | 86250 | 86417 | + | KF302034_00148 | 55 | 6450.02 | 6450.02 | 3.3430 | hypothetical protein | ||
| KF302034 | 86402 | 86674 | + | KF302034_00149 | 90 | 10545.22 | 10545.22 | 5.1344 | hypothetical protein | ||
| KF302034 | 86671 | 87294 | + | KF302034_00150 | 207 | 24623.54 | 24623.54 | 4.3480 | hypothetical protein | phrog_3451 | |
| KF302034 | 87291 | 87671 | + | KF302034_00151 | 126 | 14860.57 | 14860.57 | 4.1869 | hypothetical protein | phrog_6035 | |
| KF302034 | 87664 | 89007 | + | KF302034_00152 | 447 | 50757.76 | 50757.76 | 5.4939 | ATP-dependent DNA ligase | phrog_114 | PF01068.24 |
| KF302034 | 87664 | 89007 | + | KF302034_00152 | 447 | 50757.76 | 50757.76 | 5.4939 | ATP-dependent DNA ligase | phrog_114 | PF14743.9 |
| KF302034 | 89110 | 90342 | + | KF302034_00153 | 410 | 46301.13 | 46301.13 | 4.3665 | hypothetical protein | phrog_27100 ; phrog_37109 ; phrog_16176 ; phrog_25514 ; phrog_4400 ; phrog_18122 | |
| KF302034 | 90342 | 91319 | + | KF302034_00154 | 325 | 37570.05 | 37570.05 | 4.6167 | hypothetical protein | phrog_7063 ; phrog_9919 ; phrog_4317 ; phrog_35442 ; phrog_37456 ; phrog_4521 ; phrog_27924 | |
| KF302034 | 91288 | 91599 | + | KF302034_00155 | 103 | 11455.74 | 11455.74 | 8.7298 | holin | phrog_7045 | |
| KF302034 | 91592 | 91801 | + | KF302034_00156 | 69 | 8012.95 | 8012.95 | 3.6299 | hypothetical protein | ||
| KF302034 | 91801 | 91989 | + | KF302034_00157 | 62 | 6908.03 | 6908.03 | 8.4597 | hypothetical protein | ||
| KF302034 | 92017 | 92244 | + | KF302034_00158 | 75 | 8430.20 | 8430.20 | 3.9271 | 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) |
|---|---|---|---|---|---|---|
| MGYP000373333736.pdb | 19 | 280 | 1 | 204 | 0.934 | 0.6967 |
| MGYP003394315973.pdb | 13 | 285 | 1 | 202 | 0.9296 | 0.6901 |
| MGYP000999235125.pdb | 21 | 275 | 1 | 206 | 0.9132 | 0.6821 |
| MGYP001439174798.pdb | 20 | 283 | 1 | 227 | 0.8599 | 0.6742 |
| MGYP000376116683.pdb | 18 | 297 | 1 | 248 | 0.8346 | 0.6645 |
| MGYP003537377462.pdb | 20 | 354 | 1 | 254 | 0.8071 | 0.6614 |
| MGYP001240424264.pdb | 18 | 282 | 1 | 229 | 0.8441 | 0.6584 |
| MGYP001760742232.pdb | 30 | 280 | 1 | 235 | 0.8417 | 0.6576 |
| MGYP001577530143.pdb | 13 | 274 | 1 | 220 | 0.8358 | 0.6508 |
| MGYP000095912522.pdb | 17 | 277 | 1 | 234 | 0.8205 | 0.6504 |
| Fam ID | Seed protein | Member count | Model | Alignment | APIS059 | KF302034_00153 | 4 | HMM model | Member alignment |
|---|
| Hit APIS family | E-Value | Query Start | Query End | Hit Start | Hit End | Immune system | Seed protein |
|---|---|---|---|---|---|---|---|
| APIS008 | 4.59E-68 | 4 | 400 | 8 | 408 | Gabija | Gad2 |
| APIS056 | 8.47E-65 | 19 | 398 | 2 | 352 | IMGVR_UViG_3300020049_002891|3300020049|Ga0206652_100507913 | |
| APIS089 | 1.24E-29 | 21 | 381 | 2 | 367 | uvig_330502_68 |
| Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
|---|---|---|---|---|---|---|---|---|---|
| IMGVR_UViG_3300009545_000050|3300009545|Ga0105237_1000148626 | 39.276 | 6.87e-79 | 256 | 98% | IMGVR | phrog_18122 phrog_27100 phrog_4400 phrog_25514 phrog_37109 phrog_16176 | |||
| IMGVR_UViG_3300023192_002208|3300023192|Ga0255805_1000004146 | 90.244 | 0.0 | 758 | 100% | IMGVR | phrog_18122 phrog_27100 phrog_4400 phrog_25514 phrog_37109 phrog_16176 | |||
| KF302034_00153 | 100.000 | 0.0 | 842 | 100% | Pseudoalteromonas phage HM1 | Pseudoalteromonas | INPHARED | phrog_18122 phrog_27100 phrog_4400 phrog_25514 phrog_37109 phrog_16176 | |
| MF370964_00035 | 91.525 | 0.0 | 762 | 100% | Pseudoalteromonas phage J2-1 | Pseudoalteromonas | INPHARED | phrog_18122 phrog_27100 phrog_4400 phrog_25514 phrog_37109 phrog_16176 |
| APIS | Contig | Range |
|---|---|---|
| APIS059 | KF302034 | 86250 - 92244 |