Detailed information of TA system TA039911

Bioinformatically predicted

Overview

TA module

• Type: IV
• Classification (family/domain): ygfYX/Cpta(toxin)
• Location: 3516421..3517090
• Replicon: chromosome
• Accession: NZ_AP025014
• Organism: Shewanella xiamenensis strain NUITM-VS1

Toxin (Protein)

• Gene name: ygfX
• Uniprot ID: -
• Locus tag: LDO18_RS15570
• Protein ID: WP_224020869.1
• Coordinates: 3516421..3516861 (-)
• Length: 147 a.a.

Antitoxin (Protein)

• Gene name: ygfY
• Uniprot ID: -
• Locus tag: LDO18_RS15575
• Protein ID: WP_139122633.1
• Coordinates: 3516842..3517090 (-)
• Length: 83 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LDO18_RS15545 (NUITMVS1_30320)	3511841..3512314	-	474	WP_037427577.1	SoxR reducing system RseC family protein	-
LDO18_RS15550 (NUITMVS1_30330)	3512326..3513258	-	933	WP_037427579.1	MucB/RseB C-terminal domain-containing protein	-
LDO18_RS15555 (NUITMVS1_30340)	3513271..3513882	-	612	WP_169546955.1	RseA family anti-sigma factor	-
LDO18_RS15560 (NUITMVS1_30350)	3513924..3514502	-	579	WP_037415584.1	RNA polymerase sigma factor RpoE	-
LDO18_RS15565 (NUITMVS1_30360)	3514692..3516305	+	1614	WP_169546954.1	L-aspartate oxidase	-
LDO18_RS15570	3516421..3516861	-	441	WP_224020869.1	hypothetical protein	Toxin
LDO18_RS15575 (NUITMVS1_30370)	3516842..3517090	-	249	WP_139122633.1	succinate dehydrogenase assembly factor 2	Antitoxin
LDO18_RS15580 (NUITMVS1_30380)	3517175..3518083	-	909	WP_037415659.1	transcriptional activator NhaR	-
LDO18_RS15585 (NUITMVS1_30390)	3518178..3518564	-	387	WP_037415577.1	hypothetical protein	-
LDO18_RS15590 (NUITMVS1_30400)	3518567..3519736	-	1170	WP_224020870.1	Na+/H+ antiporter NhaA	-
LDO18_RS15595 (NUITMVS1_30410)	3519854..3520648	-	795	WP_037415574.1	thymidylate synthase	-
LDO18_RS15600 (NUITMVS1_30420)	3520648..3521454	-	807	WP_037415571.1	prolipoprotein diacylglyceryl transferase	-

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.

Domains

Predicted by InterproScan

Toxin

• Inner membrane protein YgfX (5-134)

Antitoxin

• Flavinator of succinate dehydrogenase (7-77)

Sequences

Toxin

Protein

• Length: 147 a.a.
• Molecular weight: 16905.76 Da
• Isoelectric Point: 7.6899

>T39911 WP_224020869.1 NZ_AP025014:c3516861-3516421 [Shewanella xiamenensis]
VAELRHSFSVKASFDQRLSLVVFVCVCSTSLLLWPETDTAVLHGLRAIFAVLILGFLCSQLWQLRKWHCRFELNGQGEGW
LSTGEAFHVLQRTWVTPFICLVYYQSADRLHLLPLWADMFSDTDYRHLCRLLLKVKTQAVSQHELL

Nucleotide

• Length: 441 bp

>T39911 NZ_AP025014:c3516861-3516421 [Shewanella xiamenensis]
GTGGCCGAGCTGCGCCATAGTTTTAGTGTAAAAGCCTCCTTTGACCAACGTCTCTCGTTGGTCGTATTTGTTTGTGTCTG
TAGCACTTCTTTACTTCTCTGGCCAGAAACGGATACCGCAGTACTACATGGACTGAGGGCTATATTCGCCGTCTTAATAT
TGGGATTCTTGTGCTCTCAGTTATGGCAACTGAGGAAATGGCATTGCCGTTTTGAGCTTAATGGTCAAGGAGAAGGCTGG
CTATCAACGGGAGAGGCATTTCACGTATTGCAAAGAACTTGGGTAACGCCGTTTATCTGCTTGGTTTACTATCAATCTGC
CGATAGGTTGCATCTCTTACCTCTATGGGCGGATATGTTTAGTGATACAGATTATCGCCACTTGTGCCGGCTATTACTTA
AAGTTAAAACTCAGGCGGTGAGCCAACACGAACTACTTTAA

Antitoxin

Protein

• Length: 83 a.a.
• Molecular weight: 9627.21 Da
• Isoelectric Point: 4.3440

>AT39911 WP_139122633.1 NZ_AP025014:c3517090-3516842 [Shewanella xiamenensis]
MELMNIARVRWACRRGMLELDVLFQPFVENVYQDLSDEDKALFIRLLECEDPELFAWFMGHEVCPDPELARMVVQVRGRA
AP

Nucleotide

• Length: 249 bp

>AT39911 NZ_AP025014:c3517090-3516842 [Shewanella xiamenensis]
TTGGAGTTAATGAACATTGCACGGGTCCGTTGGGCATGTCGCCGCGGAATGCTCGAATTAGACGTTTTGTTCCAGCCCTT
CGTTGAGAATGTTTATCAGGATTTGTCTGATGAAGATAAAGCCCTGTTTATTCGTTTGCTCGAGTGTGAAGATCCTGAAT
TATTTGCATGGTTTATGGGTCATGAAGTTTGCCCTGATCCTGAGCTTGCCCGCATGGTAGTGCAAGTCCGTGGCCGAGCT
GCGCCATAG