Detailed information of TA system TA077420

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2406750..2407423
• Replicon: chromosome
• Accession: NZ_CP021793
• Organism: Sinorhizobium meliloti strain USDA1157

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO31_RS12495
• Protein ID: WP_010969926.1
• Coordinates: 2407019..2407423 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO31_RS12490
• Protein ID: WP_003536345.1
• Coordinates: 2406750..2407022 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO31_RS12470	2402741..2404381	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
CDO31_RS12475	2404429..2405484	-	1056	WP_088194531.1	dipeptidase	-
CDO31_RS12480	2405664..2406005	-	342	WP_003536339.1	EamA family transporter	-
CDO31_RS12485	2406053..2406613	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
CDO31_RS12490	2406750..2407022	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO31_RS12495	2407019..2407423	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO31_RS12500	2407551..2407943	+	393	WP_003536349.1	globin	-
CDO31_RS12505	2407949..2408323	+	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO31_RS12510	2408446..2408706	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO31_RS12515	2408821..2409135	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO31_RS12520	2409148..2409414	-	267	WP_010969929.1	hypothetical protein	-
CDO31_RS12525	2409467..2409880	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
CDO31_RS12530	2410088..2411014	-	927	WP_010969930.1	energy transducer TonB	-
CDO31_RS12535	2411055..2411489	-	435	WP_010969931.1	hypothetical protein	-
CDO31_RS12540	2411719..2411859	+	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

>T77420 WP_010969926.1 NZ_CP021793:2407019-2407423 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77420 NZ_CP021793:2407019-2407423 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77420 WP_003536345.1 NZ_CP021793:2406750-2407022 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77420 NZ_CP021793:2406750-2407022 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10