Detailed information of TA system TA075681

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 958064..958638
• Replicon: plasmid pRetNXC12e
• Accession: NZ_CP020911
• Organism: Rhizobium etli strain NXC12

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: S5SHE0
• Locus tag: NXC12_RS32815
• Protein ID: WP_020919987.1
• Coordinates: 958064..958429 (-)
• Length: 122 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: S5SXW7
• Locus tag: NXC12_RS32820
• Protein ID: WP_011428858.1
• Coordinates: 958423..958638 (-)
• Length: 72 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NXC12_RS32800	953348..954733	+	1386	WP_086084484.1	DegQ family serine endoprotease	-
NXC12_RS32805	954754..956577	+	1824	WP_086084549.1	ATP-dependent zinc metalloprotease FtsH	-
NXC12_RS32810	956913..957215	+	303	WP_020919986.1	DUF982 domain-containing protein	-
NXC12_RS33395	957212..957514	-	303	WP_155249502.1	GNAT family N-acetyltransferase	-
NXC12_RS32815	958064..958429	-	366	WP_020919987.1	type II toxin-antitoxin system VapC family toxin	Toxin
NXC12_RS32820	958423..958638	-	216	WP_011428858.1	ribbon-helix-helix domain-containing protein	Antitoxin
NXC12_RS32830	958962..959645	-	684	WP_020919988.1	redoxin domain-containing protein	-
NXC12_RS32835	960022..961068	-	1047	WP_086084485.1	S-adenosylmethionine:tRNA ribosyltransferase-isomerase	-
NXC12_RS32840	961065..961787	-	723	WP_086084486.1	SDR family oxidoreductase	-
NXC12_RS32845	961873..962307	+	435	WP_020919991.1	redox-sensitive transcriptional activator SoxR	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	htpB	1..978479	978479

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 (5-108)

Antitoxin

• Ribbon-helix-helix protein, CopG (5-40)

Sequences

Toxin

Protein

• Length: 122 a.a.
• Molecular weight: 13686.05 Da
• Isoelectric Point: 7.2029

>T75681 WP_020919987.1 NZ_CP020911:c958429-958064 [Rhizobium etli]
MVKSLFDTNVLIDYLNAVPQARDELRRYPEKAISIITWMEVLVGAKPEVAIGTRAFLAGFAVIAVDDAIAERAVSLRQLH
RIKLPDAIIWATANVHSMLLITRNTKDFPREMPDIRVPYEI

Nucleotide

• Length: 366 bp

>T75681 NZ_CP020911:c958429-958064 [Rhizobium etli]
ATGGTAAAGTCTCTGTTCGACACTAATGTCTTGATCGATTATCTCAACGCAGTTCCACAAGCGCGAGACGAACTGAGGAG
ATATCCCGAAAAGGCGATCAGCATTATCACCTGGATGGAGGTTCTCGTCGGTGCCAAGCCTGAGGTGGCAATCGGAACGC
GCGCTTTCCTGGCCGGCTTTGCGGTCATCGCTGTCGATGACGCCATAGCCGAACGAGCAGTTTCTCTGCGACAACTTCAT
CGTATCAAGCTTCCAGATGCCATCATCTGGGCAACGGCCAATGTTCACTCGATGTTGCTGATCACCCGAAACACGAAGGA
TTTCCCTCGTGAAATGCCGGACATACGAGTGCCATACGAAATTTGA

Antitoxin

Protein

• Length: 72 a.a.
• Molecular weight: 8233.40 Da
• Isoelectric Point: 6.3273

>AT75681 WP_011428858.1 NZ_CP020911:c958638-958423 [Rhizobium etli]
MRTLVDIGDPEVKALDRLAQREKMSRAALIRKAINDFLARNNADIEAEAFGLWGDRKIDGLAYQENMRREW

Nucleotide

• Length: 216 bp

>AT75681 NZ_CP020911:c958638-958423 [Rhizobium etli]
ATGAGAACGTTGGTAGATATCGGCGACCCAGAAGTCAAAGCGCTGGATCGGCTGGCACAGCGGGAAAAAATGTCGAGAGC
AGCGCTGATCCGAAAGGCGATCAATGACTTCCTGGCTAGGAACAATGCCGATATCGAAGCAGAAGCGTTCGGGCTCTGGG
GCGATCGAAAGATCGATGGTTTGGCCTATCAGGAAAACATGCGCCGCGAATGGTAA

Structures

Toxin

• AlphaFold DB: S5SHE0

Antitoxin

• AlphaFold DB: S5SXW7