Detailed information of TA system TA077438

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2720101..2720774
• Replicon: chromosome
• Accession: NZ_CP021797
• Organism: Sinorhizobium meliloti strain USDA1106

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO30_RS13095
• Protein ID: WP_010969926.1
• Coordinates: 2720101..2720505 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO30_RS13100
• Protein ID: WP_003536345.1
• Coordinates: 2720502..2720774 (-)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO30_RS13050	2715749..2715889	-	141	WP_010969932.1	hemin uptake protein HemP	-
CDO30_RS13055	2716119..2716553	+	435	WP_010969931.1	hypothetical protein	-
CDO30_RS13060	2716594..2717520	+	927	WP_010969930.1	energy transducer TonB	-
CDO30_RS13065	2717644..2718057	+	414	WP_003536357.1	DUF2325 domain-containing protein	-
CDO30_RS13070	2718110..2718376	+	267	WP_010969929.1	hypothetical protein	-
CDO30_RS13075	2718389..2718703	+	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO30_RS13080	2718818..2719078	-	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO30_RS13085	2719201..2719575	-	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO30_RS13090	2719581..2719973	-	393	WP_003536349.1	globin	-
CDO30_RS13095	2720101..2720505	-	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO30_RS13100	2720502..2720774	-	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO30_RS13105	2720911..2721471	+	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
CDO30_RS13110	2721519..2721860	+	342	WP_003536339.1	EamA family transporter	-
CDO30_RS13115	2722040..2723095	+	1056	WP_010969924.1	dipeptidase	-
CDO30_RS13120	2723143..2724783	+	1641	WP_003536336.1	ABC transporter substrate-binding 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 (4-124)

Antitoxin

• SpoVT-AbrB domain (16-54)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14747.98 Da
• Isoelectric Point: 5.1974

>T77438 WP_010969926.1 NZ_CP021797:c2720505-2720101 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77438 NZ_CP021797:c2720505-2720101 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

• Length: 91 a.a.
• Molecular weight: 10334.02 Da
• Isoelectric Point: 6.3950

>AT77438 WP_003536345.1 NZ_CP021797:c2720774-2720502 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77438 NZ_CP021797:c2720774-2720502 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10