Detailed information of TA system TA072708

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2663182..2663855
• Replicon: chromosome
• Accession: NZ_CP019584
• Organism: Sinorhizobium meliloti strain CCMM B554 (FSM-MA)

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: SMB554_RS13390
• Protein ID: WP_010969926.1
• Coordinates: 2663451..2663855 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: SMB554_RS13385
• Protein ID: WP_003536345.1
• Coordinates: 2663182..2663454 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SMB554_RS13365	2659173..2660813	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
SMB554_RS13370	2660861..2661916	-	1056	WP_088895795.1	dipeptidase	-
SMB554_RS13375	2662096..2662437	-	342	WP_003536339.1	EamA family transporter	-
SMB554_RS13380	2662485..2663045	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
SMB554_RS13385	2663182..2663454	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SMB554_RS13390	2663451..2663855	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
SMB554_RS13395	2663983..2664375	+	393	WP_003536349.1	globin	-
SMB554_RS13400	2664381..2664755	+	375	WP_010969927.1	DUF423 domain-containing protein	-
SMB554_RS13405	2664878..2665138	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
SMB554_RS13410	2665253..2665567	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
SMB554_RS13415	2665580..2665846	-	267	WP_010969929.1	hypothetical protein	-
SMB554_RS13420	2665899..2666312	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
SMB554_RS13425	2666520..2667446	-	927	WP_010969930.1	energy transducer TonB	-
SMB554_RS13430	2667487..2667921	-	435	WP_010969931.1	hypothetical protein	-
SMB554_RS13435	2668151..2668291	+	141	WP_010969932.1	hemin uptake protein HemP	-

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

>T72708 WP_010969926.1 NZ_CP019584:2663451-2663855 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T72708 NZ_CP019584:2663451-2663855 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT72708 WP_003536345.1 NZ_CP019584:2663182-2663454 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT72708 NZ_CP019584:2663182-2663454 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10