Detailed information of TA system TA128758

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 2999994..3000640
• Replicon: chromosome
• Accession: NZ_CP041614
• Organism: Shewanella sp. YLB-06

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: FM037_RS13235
• Protein ID: WP_144048942.1
• Coordinates: 3000239..3000640 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: FM037_RS13230
• Protein ID: WP_144046394.1
• Coordinates: 2999994..3000224 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
FM037_RS13215	2996173..2998218	+	2046	WP_144046391.1	NADPH-dependent 2,4-dienoyl-CoA reductase	-
FM037_RS13220	2998842..2999348	+	507	WP_144046392.1	hypothetical protein	-
FM037_RS13225	2999384..2999860	+	477	WP_144046393.1	DUF2913 family protein	-
FM037_RS13230	2999994..3000224	+	231	WP_144046394.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
FM037_RS13235	3000239..3000640	+	402	WP_144048942.1	type II toxin-antitoxin system VapC family toxin	Toxin
FM037_RS13240	3000903..3002449	-	1547	Protein_2564	IS3 family transposase	-
FM037_RS13245	3002691..3003724	-	1034	Protein_2565	tyrosine-type recombinase/integrase	-
FM037_RS13250	3004107..3004442	-	336	WP_185977024.1	TolC family protein	-
FM037_RS13255	3004455..3004901	+	447	Protein_2567	Hcp family type VI secretion system effector	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	hcp-2	2994165..3031027	36862

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

• PIN domain (1-124)

Antitoxin

• SpoVT-AbrB domain (7-50)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14954.30 Da
• Isoelectric Point: 7.7799

>T128758 WP_144048942.1 NZ_CP041614:3000239-3000640 [Shewanella sp. YLB-06]
MLDTCICSFIMREQPLSVLQQLQNAVSRQNRIVISVITYAEMRFGTIGKKASPKHTILVDEFLKRVDEVLPWDVKAVDAT
TEVKRQLISKGTQIGPNDTAIAGHAIASGCILVTNNVREFRRVDSLIYEDWAH

Nucleotide

• Length: 402 bp

>T128758 NZ_CP041614:3000239-3000640 [Shewanella sp. YLB-06]
ATGTTGGACACCTGTATTTGCAGTTTCATTATGCGTGAGCAGCCTTTAAGTGTGCTTCAGCAACTGCAAAATGCAGTCAG
TAGGCAAAATCGAATCGTTATATCGGTGATCACTTATGCTGAAATGCGATTCGGCACTATAGGTAAGAAAGCATCGCCTA
AGCATACAATTCTTGTGGATGAGTTTTTAAAGCGTGTTGATGAAGTGCTTCCTTGGGATGTGAAAGCCGTAGACGCTACG
ACGGAAGTAAAACGTCAATTGATCTCAAAAGGTACACAGATAGGGCCGAATGATACAGCAATAGCAGGTCATGCTATTGC
TTCTGGTTGTATTTTAGTGACTAACAATGTTCGTGAATTCAGACGTGTTGATTCATTAATTTATGAAGATTGGGCACATT
GA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8840.93 Da
• Isoelectric Point: 4.2463

>AT128758 WP_144046394.1 NZ_CP041614:2999994-3000224 [Shewanella sp. YLB-06]
MRTVSIFKNGRNQAIRLPKDMEFDGVSELEIIKDGDNVILRPVRPDWLSFNGQEMADSDFMTERESVITDEGRFEF

Nucleotide

• Length: 231 bp

>AT128758 NZ_CP041614:2999994-3000224 [Shewanella sp. YLB-06]
ATGAGAACTGTATCAATTTTTAAAAATGGTCGAAATCAAGCTATTCGATTACCTAAAGATATGGAATTTGATGGAGTGAG
TGAACTTGAGATCATTAAAGATGGTGATAACGTCATCTTAAGACCTGTTCGACCAGATTGGTTGTCTTTTAATGGACAAG
AAATGGCTGATAGTGATTTTATGACTGAGCGTGAGTCAGTCATCACTGATGAAGGGCGTTTTGAATTTTGA