Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/- |
| Location | 52351..52901 | Replicon | chromosome |
| Accession | NZ_CP007799 | ||
| Organism | Escherichia coli Nissle 1917 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | S1PDG4 |
| Locus tag | ECOLIN_RS00270 | Protein ID | WP_001160966.1 |
| Coordinates | 52587..52901 (+) | Length | 105 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | V0VEX8 |
| Locus tag | ECOLIN_RS00265 | Protein ID | WP_000125566.1 |
| Coordinates | 52351..52584 (+) | Length | 78 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ECOLIN_RS00240 (ECOLIN_00215) | 47424..47711 | + | 288 | WP_000203741.1 | ferredoxin-like protein FixX | - |
| ECOLIN_RS00245 (ECOLIN_00220) | 47770..49101 | + | 1332 | WP_001183207.1 | MFS transporter | - |
| ECOLIN_RS00250 (ECOLIN_00225) | 49209..49739 | + | 531 | WP_000600725.1 | glutathione-regulated potassium-efflux system oxidoreductase KefF | - |
| ECOLIN_RS00255 (ECOLIN_00230) | 49732..51594 | + | 1863 | WP_000377123.1 | glutathione-regulated potassium-efflux system protein KefC | - |
| ECOLIN_RS00260 (ECOLIN_00235) | 51786..52265 | + | 480 | WP_000624375.1 | type 3 dihydrofolate reductase | - |
| ECOLIN_RS00265 (ECOLIN_00240) | 52351..52584 | + | 234 | WP_000125566.1 | type II toxin-antitoxin system CcdA family antitoxin | Antitoxin |
| ECOLIN_RS00270 (ECOLIN_00245) | 52587..52901 | + | 315 | WP_001160966.1 | CcdB family protein | Toxin |
| ECOLIN_RS00275 (ECOLIN_00250) | 52898..53746 | - | 849 | WP_000257182.1 | bis(5'-nucleosyl)-tetraphosphatase (symmetrical) ApaH | - |
| ECOLIN_RS00280 (ECOLIN_00255) | 53753..54130 | - | 378 | WP_000610901.1 | Co2+/Mg2+ efflux protein ApaG | - |
| ECOLIN_RS00285 (ECOLIN_00260) | 54133..54954 | - | 822 | WP_001065363.1 | 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA | - |
| ECOLIN_RS00290 (ECOLIN_00265) | 54951..55940 | - | 990 | WP_000241229.1 | 4-hydroxythreonine-4-phosphate dehydrogenase PdxA | - |
| ECOLIN_RS00295 (ECOLIN_00270) | 55940..57226 | - | 1287 | WP_000800457.1 | peptidylprolyl isomerase SurA | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|
Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.
Sequences
Toxin
Download Length: 105 a.a. Molecular weight: 11711.72 Da Isoelectric Point: 9.0851
>T10099 WP_001160966.1 NZ_CP007799:52587-52901 [Escherichia coli Nissle 1917]
MQFTVYRSRGRNAAFPFVIDVTSDIIGEINRRIVIPLTPIERFSRIRPPERLNPILLLVDGKEYVLMTHETATVPVNALG
TKFCDASAHRTLIKGALDFMLDGI
MQFTVYRSRGRNAAFPFVIDVTSDIIGEINRRIVIPLTPIERFSRIRPPERLNPILLLVDGKEYVLMTHETATVPVNALG
TKFCDASAHRTLIKGALDFMLDGI
Download Length: 315 bp
>T10099 NZ_CP007799:52587-52901 [Escherichia coli Nissle 1917]
ATGCAATTTACGGTATACCGCAGTCGCGGCAGGAACGCCGCGTTTCCCTTTGTTATTGATGTTACCAGCGACATTATTGG
TGAGATTAATCGCCGTATCGTTATTCCATTAACACCTATTGAACGATTTAGCCGTATTCGCCCACCAGAACGGCTTAACC
CAATCCTTTTACTGGTAGACGGCAAAGAATATGTGCTCATGACGCATGAGACTGCAACTGTTCCAGTTAACGCGCTGGGA
ACGAAATTTTGCGATGCCAGCGCGCACCGAACGTTGATTAAAGGAGCATTAGATTTTATGCTCGACGGGATTTAA
ATGCAATTTACGGTATACCGCAGTCGCGGCAGGAACGCCGCGTTTCCCTTTGTTATTGATGTTACCAGCGACATTATTGG
TGAGATTAATCGCCGTATCGTTATTCCATTAACACCTATTGAACGATTTAGCCGTATTCGCCCACCAGAACGGCTTAACC
CAATCCTTTTACTGGTAGACGGCAAAGAATATGTGCTCATGACGCATGAGACTGCAACTGTTCCAGTTAACGCGCTGGGA
ACGAAATTTTGCGATGCCAGCGCGCACCGAACGTTGATTAAAGGAGCATTAGATTTTATGCTCGACGGGATTTAA
Antitoxin
Download Length: 78 a.a. Molecular weight: 8530.53 Da Isoelectric Point: 5.8062
>AT10099 WP_000125566.1 NZ_CP007799:52351-52584 [Escherichia coli Nissle 1917]
MTAKRTTQSVTVTVDRELVNRARDAGLNMSATLTVALNAELKKHAATRWREENAEAIAALNQLADETGCFSDEYRSF
MTAKRTTQSVTVTVDRELVNRARDAGLNMSATLTVALNAELKKHAATRWREENAEAIAALNQLADETGCFSDEYRSF
Download Length: 234 bp
>AT10099 NZ_CP007799:52351-52584 [Escherichia coli Nissle 1917]
ATGACTGCAAAACGTACCACACAAAGTGTGACCGTCACCGTCGACCGTGAGTTAGTCAATCGCGCTCGTGATGCAGGCTT
AAATATGAGCGCCACCCTTACGGTTGCGCTCAATGCTGAACTTAAAAAACATGCAGCAACACGTTGGCGTGAAGAGAACG
CAGAAGCTATCGCTGCGTTAAATCAATTGGCTGATGAAACCGGATGTTTCTCTGATGAGTACCGGAGCTTCTAG
ATGACTGCAAAACGTACCACACAAAGTGTGACCGTCACCGTCGACCGTGAGTTAGTCAATCGCGCTCGTGATGCAGGCTT
AAATATGAGCGCCACCCTTACGGTTGCGCTCAATGCTGAACTTAAAAAACATGCAGCAACACGTTGGCGTGAAGAGAACG
CAGAAGCTATCGCTGCGTTAAATCAATTGGCTGATGAAACCGGATGTTTCTCTGATGAGTACCGGAGCTTCTAG
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T10018 | Escherichia coli O157:H7 str. Sakai |
98.077 |
100 |
0.981 |
| T190 | Escherichia coli O157:H7 str. EDL933 |
98.077 |
100 |
0.981 |
| T10064 | Dickeya dadantii 3937 |
48.544 |
100 |
0.49 |
| T6109 | uncultured bacterium |
35.577 |
100 |
0.366 |
| T6145 | Escherichia coli K-12 |
35.577 |
100 |
0.366 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT190 | Escherichia coli O157:H7 str. EDL933 |
100 |
100 |
1 |
| AT10018 | Escherichia coli O157:H7 str. Sakai |
100 |
100 |
1 |
| AT10064 | Dickeya dadantii 3937 |
43.421 |
98.701 |
0.429 |
Multiple sequence alignment
Structures
Toxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A829G815 |
Antitoxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A7U9LTM9 |
References
(1) Jun Xu et al. (2020) Functional investigation of the chromosomal ccdAB and hipAB operon in Escherichia coli Nissle 1917. Applied Microbiology And Biotechnology 104(15):6731-6747. [PubMed:32535695]