Detailed information of TA system TA059058

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 241482..242191
• Replicon: plasmid pRspN324a
• Accession: NZ_CP013631
• Organism: Rhizobium sp. N324

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: AMK05_RS23415
• Protein ID: WP_064841696.1
• Coordinates: 241745..242191 (+)
• Length: 149 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A235ANE7
• Locus tag: AMK05_RS23410
• Protein ID: WP_064841695.1
• Coordinates: 241482..241748 (+)
• Length: 89 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMK05_RS23390	237091..238143	+	1053	WP_064841691.1	iron ABC transporter permease	-
AMK05_RS23395	238140..238928	+	789	WP_064841692.1	ABC transporter ATP-binding protein	-
AMK05_RS23400	238951..239388	-	438	WP_064841693.1	MarR family transcriptional regulator	-
AMK05_RS23405	239595..241406	+	1812	WP_064841694.1	chloride channel protein	-
AMK05_RS23410	241482..241748	+	267	WP_064841695.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
AMK05_RS23415	241745..242191	+	447	WP_064841696.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMK05_RS23420	242227..242997	-	771	WP_064841697.1	ABC transporter ATP-binding protein	-
AMK05_RS23425	243007..243990	-	984	WP_064841698.1	ABC transporter substrate-binding protein	-
AMK05_RS23430	244028..244882	-	855	WP_064841699.1	ABC transporter permease	-
AMK05_RS23435	244893..246245	-	1353	WP_064841700.1	LLM class flavin-dependent oxidoreductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..305839	305839

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 (4-125)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (9-62)

Sequences

Toxin

Protein

• Length: 149 a.a.
• Molecular weight: 16631.16 Da
• Isoelectric Point: 4.7985

>T59058 WP_064841696.1 NZ_CP013631:241745-242191 [Rhizobium sp. N324]
VRLLLDTNVLSEVTKPNPDMRVLAWLDKLDEDRTFISIVSIAEIRRGVALMDSGRKRDALTEWLARDLPQRFQRRIIPVE
EPVALAWGDLMGQAKRSGRGLSSMDGLIAATAVAHDLTLATRNTRDFVGFGIELVDPWLDPLDLWVDP

Nucleotide

• Length: 447 bp

>T59058 NZ_CP013631:241745-242191 [Rhizobium sp. N324]
GTGAGGCTTCTGCTGGACACCAACGTCCTGTCCGAGGTGACGAAGCCGAACCCTGACATGCGCGTCTTGGCGTGGCTGGA
TAAGCTCGACGAGGATCGCACCTTCATCAGCATCGTGTCGATCGCGGAGATCAGGCGTGGTGTCGCCTTGATGGACAGCG
GACGAAAACGCGACGCGCTGACCGAATGGCTTGCCCGGGACCTGCCGCAACGCTTCCAGCGCCGCATCATCCCGGTGGAG
GAGCCGGTTGCCTTGGCCTGGGGCGACCTGATGGGCCAGGCGAAGCGGAGCGGTCGCGGCCTCTCCTCGATGGACGGCCT
GATCGCAGCAACCGCGGTTGCTCACGATCTCACTCTGGCTACACGTAACACCAGAGATTTCGTGGGATTCGGGATCGAAC
TCGTTGATCCCTGGCTCGATCCTCTCGATCTCTGGGTCGATCCCTAG

Antitoxin

Protein

• Length: 89 a.a.
• Molecular weight: 9849.05 Da
• Isoelectric Point: 5.1972

>AT59058 WP_064841695.1 NZ_CP013631:241482-241748 [Rhizobium sp. N324]
MQPSREGDESWTVASAKAKLSEVIERAQSAPQTITRNGKPSVVVVSAEEWQRKTARKGTLVEFLMSSPLRGADLDLERQR
DEPRDPEL

Nucleotide

• Length: 267 bp

>AT59058 NZ_CP013631:241482-241748 [Rhizobium sp. N324]
ATGCAGCCATCACGGGAAGGCGATGAAAGCTGGACCGTTGCCAGCGCAAAGGCGAAGCTTTCCGAGGTTATCGAACGGGC
GCAATCCGCGCCGCAGACGATAACCCGGAACGGCAAGCCGAGCGTCGTCGTCGTCTCCGCTGAGGAATGGCAGCGCAAGA
CTGCGCGCAAGGGTACGCTTGTCGAATTTCTGATGAGTTCGCCGCTGCGCGGCGCTGATCTGGATCTCGAGCGTCAACGC
GACGAACCGCGTGATCCTGAACTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A235ANE7