Detailed information of TA system
Overview
TA module
| Type | IV | Classification (family/domain) | ygfYX/- |
| Location | 1396627..1397314 | Replicon | chromosome |
| Accession | NC_004347 | ||
| Organism | Shewanella oneidensis MR-1 | ||
Toxin (Protein)
| Gene name | ygfX | Uniprot ID | - |
| Locus tag | SO_RS06215 | Protein ID | WP_164925647.1 |
| Coordinates | 1396856..1397314 (+) | Length | 153 a.a. |
Antitoxin (Protein)
| Gene name | ygfY | Uniprot ID | Q8EH90 |
| Locus tag | SO_RS06210 | Protein ID | WP_011071548.1 |
| Coordinates | 1396627..1396875 (+) | Length | 83 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SO_RS06185 (SO_1334) | 1392263..1393069 | + | 807 | WP_011071543.1 | prolipoprotein diacylglyceryl transferase | - |
| SO_RS06190 (SO_1335) | 1393069..1393863 | + | 795 | WP_011071544.1 | thymidylate synthase | - |
| SO_RS06195 (SO_1336) | 1393982..1395151 | + | 1170 | WP_011071545.1 | Na+/H+ antiporter NhaA | - |
| SO_RS06200 (SO_1337) | 1395154..1395540 | + | 387 | WP_011071546.1 | hypothetical protein | - |
| SO_RS06205 (SO_1338) | 1395635..1396543 | + | 909 | WP_011071547.1 | transcriptional activator NhaR | - |
| SO_RS06210 (SO_1339) | 1396627..1396875 | + | 249 | WP_011071548.1 | succinate dehydrogenase assembly factor 2 | Antitoxin |
| SO_RS06215 (SO_1340) | 1396856..1397314 | + | 459 | WP_164925647.1 | hypothetical protein | Toxin |
| SO_RS06220 (SO_1341) | 1397396..1399009 | - | 1614 | WP_011071550.1 | L-aspartate oxidase | - |
| SO_RS06225 (SO_1342) | 1399199..1399777 | + | 579 | WP_011071551.1 | RNA polymerase sigma factor RpoE | - |
| SO_RS06230 (SO_1343) | 1399820..1400443 | + | 624 | WP_011071552.1 | sigma-E factor negative regulatory protein RseA | - |
| SO_RS06235 (SO_1344) | 1400456..1401388 | + | 933 | WP_011071553.1 | MucB/RseB C-terminal domain-containing protein | - |
| SO_RS06240 (SO_1345) | 1401400..1401873 | + | 474 | WP_011071554.1 | SoxR reducing system RseC family protein | - |
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: 153 a.a. Molecular weight: 17910.91 Da Isoelectric Point: 9.0053
>T10045 WP_164925647.1 NC_004347:1396856-1397314 [Shewanella oneidensis MR-1]
VDERRHSFSVKASFDQRLSLVVFVCVCVSSLLIWPQSEHPLWFGLKLVFALLVVSFLSYQLWRLRTWSCRFELNGKGGGW
LSTGEDFRVLSRTWITPFICLVYYESGDKVHLLPLWADMFSDDDYRHLCRLLFKAKNNYRVQTLIPNRCARI
VDERRHSFSVKASFDQRLSLVVFVCVCVSSLLIWPQSEHPLWFGLKLVFALLVVSFLSYQLWRLRTWSCRFELNGKGGGW
LSTGEDFRVLSRTWITPFICLVYYESGDKVHLLPLWADMFSDDDYRHLCRLLFKAKNNYRVQTLIPNRCARI
Download Length: 459 bp
>T10045 NC_004347:1396856-1397314 [Shewanella oneidensis MR-1]
GTGGACGAGCGGCGCCATAGTTTTAGTGTAAAAGCCTCCTTCGACCAACGACTGTCGTTGGTCGTTTTTGTTTGTGTTTG
CGTTAGTTCTTTACTTATTTGGCCACAGTCTGAACACCCATTATGGTTTGGGCTTAAGTTGGTATTTGCCCTATTGGTGG
TGAGCTTTTTGAGTTATCAGCTATGGCGGCTGAGGACATGGTCTTGCCGTTTTGAACTCAATGGCAAAGGGGGGGGATGG
TTATCTACTGGCGAGGATTTTCGCGTATTATCGCGAACTTGGATAACGCCTTTTATCTGCCTTGTTTACTATGAATCTGG
CGATAAGGTGCATCTTTTACCCCTTTGGGCAGACATGTTTAGTGATGATGACTATCGCCATTTATGTCGTCTATTATTCA
AAGCGAAAAATAACTATCGAGTCCAAACGCTAATCCCTAATCGGTGTGCTCGGATTTGA
GTGGACGAGCGGCGCCATAGTTTTAGTGTAAAAGCCTCCTTCGACCAACGACTGTCGTTGGTCGTTTTTGTTTGTGTTTG
CGTTAGTTCTTTACTTATTTGGCCACAGTCTGAACACCCATTATGGTTTGGGCTTAAGTTGGTATTTGCCCTATTGGTGG
TGAGCTTTTTGAGTTATCAGCTATGGCGGCTGAGGACATGGTCTTGCCGTTTTGAACTCAATGGCAAAGGGGGGGGATGG
TTATCTACTGGCGAGGATTTTCGCGTATTATCGCGAACTTGGATAACGCCTTTTATCTGCCTTGTTTACTATGAATCTGG
CGATAAGGTGCATCTTTTACCCCTTTGGGCAGACATGTTTAGTGATGATGACTATCGCCATTTATGTCGTCTATTATTCA
AAGCGAAAAATAACTATCGAGTCCAAACGCTAATCCCTAATCGGTGTGCTCGGATTTGA
Antitoxin
Download Length: 83 a.a. Molecular weight: 9641.24 Da Isoelectric Point: 4.3313
>AT10045 WP_011071548.1 NC_004347:1396627-1396875 [Shewanella oneidensis MR-1]
MELMNIARVRWACRRGMLELDVLFQPFVDNVYQDLSDEDKVLFIRLLECEDPELFAWFMGHEVCPDPELARMVVQVRGRA
AP
MELMNIARVRWACRRGMLELDVLFQPFVDNVYQDLSDEDKVLFIRLLECEDPELFAWFMGHEVCPDPELARMVVQVRGRA
AP
Download Length: 249 bp
>AT10045 NC_004347:1396627-1396875 [Shewanella oneidensis MR-1]
TTGGAGTTAATGAATATTGCTCGGGTCCGCTGGGCATGCCGCCGCGGAATGCTCGAATTGGACGTGTTGTTCCAGCCTTT
CGTTGACAACGTTTATCAGGACTTGTCAGATGAAGATAAAGTCTTGTTTATTCGTTTGCTTGAGTGTGAAGATCCTGAAT
TATTTGCATGGTTTATGGGCCATGAAGTATGCCCAGATCCTGAGCTTGCCCGTATGGTAGTGCAAGTCCGTGGACGAGCG
GCGCCATAG
TTGGAGTTAATGAATATTGCTCGGGTCCGCTGGGCATGCCGCCGCGGAATGCTCGAATTGGACGTGTTGTTCCAGCCTTT
CGTTGACAACGTTTATCAGGACTTGTCAGATGAAGATAAAGTCTTGTTTATTCGTTTGCTTGAGTGTGAAGATCCTGAAT
TATTTGCATGGTTTATGGGCCATGAAGTATGCCCAGATCCTGAGCTTGCCCGTATGGTAGTGCAAGTCCGTGGACGAGCG
GCGCCATAG
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT6368 | Escherichia coli str. K-12 substr. MG1655 |
53.086 |
98.78 |
0.524 |
| AT10068 | Acinetobacter baumannii strain ATCC 17978 |
38.571 |
85.366 |
0.329 |
Multiple sequence alignment
References
(1) Ming-Xing Zhang et al. (2021) YgfY Contributes to Stress Tolerance in Shewanella oneidensis Neither as an Antitoxin Nor as a Flavinylation Factor of Succinate Dehydrogenase. Microorganisms 9(11):2316. [PubMed:34835442]