Detailed information of TA system TA077480

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1748011..1748642
• Replicon: chromosome
• Accession: NZ_CP021808
• Organism: Sinorhizobium meliloti strain Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO27_RS08940
• Protein ID: WP_013844828.1
• Coordinates: 1748011..1748409 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92MD9
• Locus tag: CDO27_RS08945
• Protein ID: WP_010970129.1
• Coordinates: 1748409..1748642 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO27_RS08905	1743093..1743395	-	303	WP_010970122.1	type II toxin-antitoxin system RelE/ParE family toxin	-
CDO27_RS08910	1743392..1743667	-	276	WP_010970123.1	type II toxin-antitoxin system ParD family antitoxin	-
CDO27_RS08915	1743953..1744102	+	150	WP_010970124.1	hypothetical protein	-
CDO27_RS08920	1744099..1745034	+	936	WP_010970125.1	site-specific tyrosine recombinase XerD	-
CDO27_RS08925	1745098..1746051	+	954	WP_003527479.1	acetyl-CoA carboxylase carboxyltransferase subunit alpha	-
CDO27_RS08930	1746296..1747738	+	1443	WP_015007947.1	murein L,D-transpeptidase	-
CDO27_RS08935	1747738..1747977	+	240	WP_010970127.1	sulfurtransferase TusA family protein	-
CDO27_RS08940	1748011..1748409	-	399	WP_013844828.1	type II toxin-antitoxin system toxin VapC	Toxin
CDO27_RS08945	1748409..1748642	-	234	WP_010970129.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO27_RS08950	1748751..1749896	-	1146	WP_010970130.1	GTP-binding protein	-
CDO27_RS08955	1749910..1750992	-	1083	WP_010970131.1	D-alanyl-D-alanine carboxypeptidase	-
CDO27_RS08960	1751244..1752407	+	1164	WP_010970132.1	amidohydrolase	-
CDO27_RS08965	1752430..1752894	+	465	WP_010970133.1	Lrp/AsnC ligand binding domain-containing 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.

Domains

Predicted by InterproScan

Toxin

• PIN domain (4-123)

Antitoxin

• SpoVT-AbrB domain (7-56)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14829.13 Da
• Isoelectric Point: 6.9581

>T77480 WP_013844828.1 NZ_CP021808:c1748409-1748011 [Sinorhizobium meliloti]
MLTYMLDTNICIYVMKTYPPAVREKFNGLAEQLCISSITLGELHYGAEKSARRVENLTAIEHFVARLEVLPFADKAAAHY
GQVRAELERTGTPCGPHDMQIGAHARSEGLIVVTNNIREFVRMPGVRVENWL

Nucleotide

• Length: 399 bp

>T77480 NZ_CP021808:c1748409-1748011 [Sinorhizobium meliloti]
ATGCTCACCTATATGCTCGATACCAATATCTGCATCTATGTGATGAAGACCTATCCGCCGGCCGTGCGCGAAAAGTTCAA
CGGACTGGCGGAGCAGCTTTGCATATCGAGCATCACGCTGGGAGAATTACACTATGGCGCCGAAAAATCGGCCCGGCGCG
TTGAGAACCTTACGGCTATCGAACATTTCGTGGCACGGCTGGAGGTGCTGCCGTTCGCAGACAAGGCAGCGGCCCACTAC
GGGCAGGTTCGGGCTGAACTGGAGCGGACGGGAACGCCATGCGGCCCTCATGACATGCAGATCGGCGCGCATGCGCGCAG
CGAAGGGCTGATTGTCGTGACCAACAATATACGCGAGTTCGTCCGCATGCCGGGTGTAAGGGTCGAGAACTGGCTGTGA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8673.87 Da
• Isoelectric Point: 8.9167

>AT77480 WP_010970129.1 NZ_CP021808:c1748642-1748409 [Sinorhizobium meliloti]
MASSTVFISNRSQAVRLPKAVAFPEGVHQVDILKIGRSRVIVPQGKRWDDLFLSGPRVSEDFMSERDQPVAETRESF

Nucleotide

• Length: 234 bp

>AT77480 NZ_CP021808:c1748642-1748409 [Sinorhizobium meliloti]
TTGGCCAGTTCGACCGTATTCATCAGTAACCGTAGCCAGGCGGTGCGGCTGCCAAAGGCCGTCGCCTTTCCCGAGGGCGT
GCATCAGGTCGATATCCTCAAGATCGGCCGCAGCCGCGTGATCGTCCCCCAGGGCAAAAGATGGGACGATCTGTTCCTCA
GCGGGCCGCGCGTCAGCGAGGATTTCATGAGCGAGCGTGATCAGCCGGTGGCGGAAACACGCGAATCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: Q92MD9