Detailed information of TA system TA077538

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 634936..635567
• Replicon: chromosome
• Accession: NZ_CP021825
• Organism: Sinorhizobium meliloti strain KH35c

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO23_RS02965
• Protein ID: WP_013844828.1
• Coordinates: 635169..635567 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92MD9
• Locus tag: CDO23_RS02960
• Protein ID: WP_010970129.1
• Coordinates: 634936..635169 (+)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO23_RS02940	630684..631148	-	465	WP_010970133.1	Lrp/AsnC ligand binding domain-containing protein	-
CDO23_RS02945	631171..632334	-	1164	WP_028011314.1	amidohydrolase	-
CDO23_RS02950	632586..633668	+	1083	WP_027989807.1	D-alanyl-D-alanine carboxypeptidase	-
CDO23_RS02955	633682..634827	+	1146	WP_028011313.1	GTP-binding protein	-
CDO23_RS02960	634936..635169	+	234	WP_010970129.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO23_RS02965	635169..635567	+	399	WP_013844828.1	type II toxin-antitoxin system toxin VapC	Toxin
CDO23_RS02970	635601..635840	-	240	WP_028011312.1	sulfurtransferase TusA family protein	-
CDO23_RS02975	635840..637282	-	1443	WP_028011311.1	murein L,D-transpeptidase	-
CDO23_RS02980	637527..638480	-	954	WP_028011310.1	acetyl-CoA carboxylase carboxyltransferase subunit alpha	-
CDO23_RS02985	638544..639479	-	936	WP_028011309.1	site-specific tyrosine recombinase XerD	-
CDO23_RS02990	639476..639625	-	150	WP_027989811.1	hypothetical protein	-
CDO23_RS02995	639858..640436	+	579	WP_027989814.1	shikimate kinase	-

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

>T77538 WP_013844828.1 NZ_CP021825:635169-635567 [Sinorhizobium meliloti]
MLTYMLDTNICIYVMKTYPPAVREKFNGLAEQLCISSITLGELHYGAEKSARRVENLTAIEHFVARLEVLPFADKAAAHY
GQVRAELERTGTPCGPHDMQIGAHARSEGLIVVTNNIREFVRMPGVRVENWL

Nucleotide

• Length: 399 bp

>T77538 NZ_CP021825:635169-635567 [Sinorhizobium meliloti]
ATGCTCACCTATATGCTCGATACCAATATCTGTATCTATGTGATGAAGACCTATCCGCCGGCCGTGCGCGAAAAGTTCAA
CGGACTGGCGGAGCAGCTTTGCATATCGAGCATCACGCTGGGAGAATTACACTATGGCGCTGAAAAATCGGCCCGGCGCG
TTGAGAACCTTACGGCTATCGAACATTTCGTGGCACGGCTGGAGGTGCTGCCGTTCGCAGACAAGGCAGCGGCCCACTAC
GGGCAGGTTCGGGCTGAACTGGAGCGGACGGGAACGCCATGCGGCCCTCACGACATGCAGATCGGCGCGCATGCGCGCAG
CGAAGGGCTGATTGTCGTGACCAACAATATACGCGAGTTCGTCCGCATGCCGGGTGTAAGGGTCGAGAACTGGCTGTGA

Antitoxin

Protein

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

>AT77538 WP_010970129.1 NZ_CP021825:634936-635169 [Sinorhizobium meliloti]
MASSTVFISNRSQAVRLPKAVAFPEGVHQVDILKIGRSRVIVPQGKRWDDLFLSGPRVSEDFMSERDQPVAETRESF

Nucleotide

• Length: 234 bp

>AT77538 NZ_CP021825:634936-635169 [Sinorhizobium meliloti]
TTGGCCAGTTCGACCGTATTCATCAGTAACCGTAGCCAGGCGGTGCGGCTGCCAAAGGCCGTCGCCTTTCCCGAGGGCGT
GCATCAGGTCGATATCCTCAAGATCGGCCGCAGCCGCGTGATCGTCCCCCAGGGCAAAAGATGGGACGATCTGTTCCTCA
GCGGGCCGCGCGTCAGCGAGGATTTCATGAGCGAGCGTGATCAGCCGGTGGCGGAAACACGCGAATCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: Q92MD9