APIS family ID | APIS055 | |||||||||||||
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Inhibited defense system | ||||||||||||||
CLAN ID | CLAN003 | |||||||||||||
Seed protein property |
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Phage property |
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PMID/References | ||||||||||||||
PDB structures | ; | |||||||||||||
Pfam domains | PF03230.16 | |||||||||||||
Phrog | phrog_10132 | |||||||||||||
Host taxa | d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas; | |||||||||||||
Gene Location | Start: ; End: ; Strand: | |||||||||||||
Description | ||||||||||||||
Note | This family does not have seed protein, but we infer its function is defending restriction-modification (RM) because it belongs to the same clan as family APIS007,ArdB which has seed 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-A0A0H3GW18-F1-model_v4 | 1 | 137 | 6 | 141 | 0.9313 | 0.9039 |
AF-P52139-F1-model_v4 | 1 | 137 | 16 | 152 | 0.9259 | 0.8679 |
AF-P75676-F1-model_v4 | 1 | 137 | 16 | 152 | 0.9255 | 0.867 |
AF-Q93GQ0-F1-model_v4 | 3 | 137 | 7 | 144 | 0.8948 | 0.8558 |
AF-Q327Q6-F1-model_v4 | 1 | 137 | 19 | 157 | 0.9249 | 0.8539 |
AF-A0A0H3GVF3-F1-model_v4 | 1 | 137 | 1 | 132 | 0.8913 | 0.8522 |
AF-A0A077ZNG7-F1-model_v4 | 6 | 137 | 7 | 141 | 0.878 | 0.8488 |
AF-Q32HM6-F1-model_v4 | 1 | 137 | 43 | 181 | 0.9244 | 0.8028 |
AF-A0A0H3GZ47-F1-model_v4 | 3 | 137 | 87 | 221 | 0.8742 | 0.7011 |
Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
---|---|---|---|---|---|---|
MGYP001248649841.pdb | 1 | 137 | 1 | 137 | 0.9885 | 0.9841 |
MGYP001201501853.pdb | 1 | 137 | 2 | 134 | 0.9757 | 0.9591 |
MGYP003390684032.pdb | 1 | 137 | 2 | 135 | 0.9609 | 0.9433 |
MGYP000117479218.pdb | 1 | 137 | 1 | 133 | 0.9646 | 0.939 |
MGYP000412510903.pdb | 3 | 137 | 1 | 131 | 0.9696 | 0.9384 |
MGYP001120502683.pdb | 1 | 137 | 1 | 133 | 0.9622 | 0.9363 |
MGYP001487061361.pdb | 3 | 137 | 1 | 132 | 0.9652 | 0.9361 |
MGYP001335377403.pdb | 2 | 137 | 1 | 131 | 0.9674 | 0.936 |
MGYP001992189960.pdb | 1 | 137 | 2 | 134 | 0.9554 | 0.9322 |
MGYP003460860055.pdb | 1 | 137 | 2 | 135 | 0.9462 | 0.9317 |
Fam ID | Seed protein | Member count | Model | Alignment | APIS055 | OL763419_00042 | 20 | HMM model | Member alignment |
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Hit APIS family | E-Value | Query Start | Query End | Hit Start | Hit End | Immune system | Seed protein |
---|---|---|---|---|---|---|---|
APIS007 | 2.99E-39 | 2 | 142 | 14 | 151 | restriction-modification (RM) | BAF33451.1 |
APIS038 | 9.43E-29 | 4 | 142 | 8 | 150 | IMGVR_UViG_2576861805_000002|2576861805|2579667884 | |
APIS069 | 1.64E-22 | 7 | 142 | 7 | 144 | IMGVR_UViG_3300036792_000137|3300036792|Ga0376663_0000427_343_774 | |
APIS039 | 8.76E-20 | 2 | 142 | 39 | 179 | IMGVR_UViG_2751185776_000007|2751185776|2753238834 | |
APIS037 | 1.90E-15 | 12 | 142 | 9 | 141 | IMGVR_UViG_2541047688_000003|2541047688|2543982737 |
Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
---|---|---|---|---|---|---|---|---|---|
DQ163916_00002 | 99.270 | 3.15e-98 | 286 | 100% | Pseudomonas phage M6 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
IMGVR_UViG_2595698855_000001|2595698855|2596517448 | 97.810 | 4.06e-97 | 283 | 96% | Burkholderiaceae | IMGVR | PF03230 | phrog_10132 | |
IMGVR_UViG_3300015607_001032|3300015607|Ga0182412_11370211 | 97.080 | 4.84e-95 | 278 | 96% | IMGVR | PF03230 | phrog_10132 | ||
IMGVR_UViG_3300028603_000095|3300028603|Ga0265293_1000173436 | 94.161 | 2.45e-93 | 274 | 100% | Gammaproteobacteria | IMGVR | PF03230 | phrog_10132 | |
IMGVR_UViG_3300033074_000335|3300033074|Ga0364573_111686 | 87.591 | 6.85e-86 | 255 | 100% | Proteobacteria | IMGVR | PF03230 | phrog_10132 | |
IMGVR_UViG_641509461_000001|641509461|641514143 | 89.781 | 2.40e-87 | 259 | 96% | Gammaproteobacteria | IMGVR | PF03230 | phrog_10132 | |
JX131330_00045 | 97.810 | 3.23e-97 | 283 | 100% | Pseudomonas phage MP1412 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
KX198613_00078 | 98.540 | 9.44e-98 | 285 | 100% | Pseudomonas phage AN14 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
KX961385_00071 | 97.810 | 2.46e-96 | 281 | 100% | Bordetella phage LK3 | Bordetella | INPHARED | PF03230 | phrog_10132 |
KY000221_00043 | 96.350 | 1.54e-95 | 279 | 100% | Bordetella phage CN1 | Bordetella | INPHARED | PF03230 | phrog_10132 |
MH791406_00059 | 88.321 | 3.55e-86 | 256 | 100% | Pseudomonas phage PaSz-4 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MN871456_00032 | 89.781 | 1.03e-86 | 257 | 100% | Pseudomonas phage Pa-C | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MN871469_00034 | 89.781 | 1.97e-87 | 259 | 100% | Pseudomonas phage Pa-S | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MN871478_00030 | 97.810 | 2.71e-97 | 284 | 100% | Pseudomonas phage PaSt-2_45_61k | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MN871482_00028 | 90.511 | 4.02e-88 | 260 | 100% | Pseudomonas virus PaSz-6 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MN871486_00009 | 89.051 | 4.30e-87 | 258 | 100% | Pseudomonas phage PaSz-9_45_61k | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
MZ089741_00002 | 99.270 | 1.67e-97 | 284 | 100% | Pseudomonas phage PSA39 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
OL763419_00042 | 100.000 | 1.11e-98 | 287 | 100% | Pseudomonas phage Churro | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
OM809160_00032 | 92.701 | 6.68e-91 | 268 | 100% | Pseudomonas phage 185 | Pseudomonas | INPHARED | PF03230 | phrog_10132 |
ON165687_00074 | 97.080 | 2.72e-96 | 281 | 100% | Sphaerotilus phage SN1 | Sphaerotilus | INPHARED | PF03230 | phrog_10132 |
APIS | Contig | Range |
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APIS055 | - |