APIS family ID | APIS037 | |||||||||||||
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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__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli | |||||||||||||
Gene Location | Start: 142165; End: 142590; 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. |
Genome accession | Start | End | Strand | Protein ID | Length | Molecular weight | Charge | Isoelectric point | Function | Phrog | PFAM |
---|---|---|---|---|---|---|---|---|---|---|---|
IMGVR_UViG_2541047688_000003 | 138994 | 139197 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982732 | 67 | 7305.88 | -12.5 | 3.3580 | hypothetical protein | phrog_37043 | |
IMGVR_UViG_2541047688_000003 | 139581 | 140264 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982733 | 227 | 25436.93 | 8.0 | 9.2535 | site-specific DNA-methyltransferase (adenine-specific) | phrog_23085 ; phrog_3008 ; phrog_18293 ; phrog_6025 ; phrog_498 ; phrog_6952 ; phrog_8769 ; phrog_23148 ; phrog_67 ; phrog_12862 | PF01555.21 |
IMGVR_UViG_2541047688_000003 | 140265 | 140486 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982734 | 73 | 8674.86 | -2.0 | 5.1002 | hypothetical protein | phrog_4830 | |
IMGVR_UViG_2541047688_000003 | 140500 | 140934 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982735 | 144 | 16127.30 | -7.5 | 4.4673 | Protein of unknown function (DUF1380) | phrog_9024 | PF07128.15 |
IMGVR_UViG_2541047688_000003 | 140979 | 141749 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982736 | 256 | 28725.97 | -1.0 | 6.1331 | hypothetical protein | phrog_8919 | |
IMGVR_UViG_2541047688_000003 | 142165 | 142590 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982737 | 141 | 16245.46 | -6.0 | 4.7142 | Antirestriction protein | phrog_10132 | PF03230 |
IMGVR_UViG_2541047688_000003 | 142637 | 143059 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982738 | 140 | 15641.69 | -14.5 | 4.1242 | Protein of unknown function (DUF1380) | ||
IMGVR_UViG_2541047688_000003 | 143056 | 143247 | + | IMGVR_UViG_2541047688_000003|2541047688|2543982739 | 63 | 7264.29 | 3.5 | 9.9914 | 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-Q93GQ0-F1-model_v4 | 3 | 141 | 6 | 144 | 0.9678 | 0.9404 |
AF-A0A077ZNG7-F1-model_v4 | 5 | 141 | 5 | 141 | 0.9703 | 0.9367 |
AF-A0A0H3GW18-F1-model_v4 | 7 | 141 | 10 | 141 | 0.8924 | 0.8519 |
AF-A0A0H3GVF3-F1-model_v4 | 7 | 141 | 5 | 132 | 0.8497 | 0.8024 |
AF-P52139-F1-model_v4 | 7 | 141 | 20 | 152 | 0.8506 | 0.7993 |
AF-P75676-F1-model_v4 | 7 | 141 | 20 | 152 | 0.8455 | 0.793 |
AF-Q327Q6-F1-model_v4 | 7 | 141 | 23 | 157 | 0.8383 | 0.78 |
AF-A0A0H3GZ47-F1-model_v4 | 3 | 141 | 83 | 221 | 0.9301 | 0.7593 |
AF-Q32HM6-F1-model_v4 | 7 | 141 | 47 | 181 | 0.8393 | 0.7351 |
Hit | Query start | Query end | Hit start | Hit end | TMscore(ali) | TMscore(avg) |
---|---|---|---|---|---|---|
MGYP001142107270.pdb | 6 | 141 | 6 | 141 | 0.9716 | 0.9314 |
MGYP003561631401.pdb | 6 | 141 | 7 | 142 | 0.9718 | 0.9286 |
MGYP000112106482.pdb | 7 | 141 | 6 | 140 | 0.9681 | 0.9223 |
MGYP002759879196.pdb | 7 | 141 | 7 | 141 | 0.9676 | 0.9186 |
MGYP000816921373.pdb | 6 | 141 | 5 | 139 | 0.9509 | 0.9134 |
MGYP000926023203.pdb | 6 | 141 | 1 | 136 | 0.9402 | 0.912 |
MGYP000465578469.pdb | 6 | 141 | 8 | 143 | 0.9545 | 0.9041 |
MGYP001044518354.pdb | 7 | 141 | 8 | 143 | 0.9428 | 0.9006 |
MGYP000611349549.pdb | 7 | 141 | 10 | 145 | 0.9557 | 0.9005 |
MGYP000014743116.pdb | 7 | 141 | 9 | 143 | 0.9549 | 0.8977 |
Fam ID | Seed protein | Member count | Model | Alignment | APIS037 | IMGVR_UViG_2541047688_000003|2541047688|2543982737 | 3 | 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 | 1.98E-30 | 5 | 141 | 20 | 151 | restriction-modification (RM) | BAF33451.1 |
APIS069 | 5.96E-27 | 4 | 141 | 7 | 144 | IMGVR_UViG_3300036792_000137|3300036792|Ga0376663_0000427_343_774 | |
APIS038 | 9.50E-21 | 4 | 141 | 11 | 150 | IMGVR_UViG_2576861805_000002|2576861805|2579667884 | |
APIS039 | 2.94E-17 | 6 | 141 | 46 | 179 | IMGVR_UViG_2751185776_000007|2751185776|2753238834 | |
APIS055 | 2.42E-15 | 12 | 141 | 16 | 142 | OL763419_00042 |
Member | pident | evalue | bitscore | qcovs | phage | host | SourceDB | Pfam | Phrog |
---|---|---|---|---|---|---|---|---|---|
IMGVR_UViG_2541047688_000003|2541047688|2543982737 | 100.000 | 3.62e-102 | 296 | 100% | Escherichia coli | IMGVR | PF03230 | phrog_10132 | |
IMGVR_UViG_2609460178_000003|2609460178|2611808575 | 65.248 | 2.38e-63 | 198 | 100% | Klebsiella pneumoniae | IMGVR | PF03230 | phrog_10132 | |
uvig_397292_14 | 98.582 | 4.82e-101 | 293 | 100% | Escherichia coli | GPD | PF03230 | phrog_10132 |