Detailed information of TA system TA023904

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN(toxin)
• Location: 428708..429375
• Replicon: plasmid pR132503
• Accession: NC_012853
• Organism: Rhizobium leguminosarum bv. trifolii WSM1325

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: C6B8A6
• Locus tag: RLEG_RS32045
• Protein ID: WP_012760493.1
• Coordinates: 428932..429375 (+)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: RLEG_RS32040
• Protein ID: WP_003555338.1
• Coordinates: 428708..428935 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RLEG_RS32015	424104..424517	-	414	WP_012760489.1	nuclear transport factor 2 family protein	-
RLEG_RS32020	424587..425186	-	600	WP_012760490.1	NAD(P)-binding domain-containing protein	-
RLEG_RS32025	425260..425994	-	735	WP_012760491.1	SDR family oxidoreductase	-
RLEG_RS32030	426202..427149	+	948	WP_012760492.1	LysR family transcriptional regulator	-
RLEG_RS35545	427278..427457	+	180	Protein_408	hypothetical protein	-
RLEG_RS36805	427411..428206	-	796	Protein_409	LysR family transcriptional regulator	-
RLEG_RS38325	428362..428538	+	177	WP_164902435.1	hypothetical protein	-
RLEG_RS32040	428708..428935	+	228	WP_003555338.1	hypothetical protein	Antitoxin
RLEG_RS32045	428932..429375	+	444	WP_012760493.1	PIN domain-containing protein	Toxin
RLEG_RS32055	429651..430420	+	770	Protein_413	Crp/Fnr family transcriptional regulator	-
RLEG_RS32060	430450..430653	-	204	WP_012760495.1	hypothetical protein	-
RLEG_RS32065	430955..432856	+	1902	WP_012760496.1	potassium transporter Kup	-
RLEG_RS32070	432906..434162	+	1257	WP_012760497.1	sodium:proton antiporter	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	htpB	1..516088	516088

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 (4-131)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 148 a.a.
• Molecular weight: 15565.76 Da
• Isoelectric Point: 6.9770

>T23904 WP_012760493.1 NC_012853:428932-429375 [Rhizobium leguminosarum bv. trifolii WSM1325]
VTFLLDVNVLIALIDPGHVAHDDAHEWFAAIGQSAWATCPITENGVIRIVGNPQYPNSPGSPSLVMEIVRKLRSLPGHSF
WPDDVSLVGSGDIAPAKILTSGQVTDTYLLALAKARGGQLATFDRKLSAAAVTRGNSALHLITTSRS

Nucleotide

• Length: 444 bp

>T23904 NC_012853:428932-429375 [Rhizobium leguminosarum bv. trifolii WSM1325]
GTGACTTTCCTGCTCGACGTCAATGTGCTGATTGCCTTAATCGATCCGGGCCATGTAGCCCATGATGATGCGCACGAATG
GTTCGCGGCGATAGGTCAGAGCGCGTGGGCTACCTGCCCCATTACCGAAAATGGTGTCATCCGGATTGTCGGCAACCCCC
AATATCCCAACTCTCCCGGTTCACCGTCACTCGTGATGGAAATTGTCCGCAAATTGCGGTCGCTCCCCGGTCACAGTTTT
TGGCCGGACGATGTGAGCCTTGTCGGGTCAGGTGATATCGCTCCCGCGAAAATTCTAACATCGGGGCAGGTAACTGACAC
CTACCTGCTCGCGCTAGCCAAGGCGCGTGGGGGCCAGCTGGCAACATTCGATCGCAAGCTGTCAGCAGCAGCGGTTACAA
GGGGCAATTCTGCCTTGCACCTGATCACCACGAGTAGATCGTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8220.39 Da
• Isoelectric Point: 7.0120

>AT23904 WP_003555338.1 NC_012853:428708-428935 [Rhizobium leguminosarum bv. trifolii WSM1325]
MRTTLAIDDDVLTAAKAMATQQHRSVGEVISELARRSLRRPPSSGERNGIPLLSTRPDTPPVTLEIVNAMRDELP

Nucleotide

• Length: 228 bp

>AT23904 NC_012853:428708-428935 [Rhizobium leguminosarum bv. trifolii WSM1325]
ATGAGAACGACCTTGGCAATCGACGACGATGTGCTGACCGCCGCAAAAGCGATGGCAACCCAGCAGCACCGGAGCGTCGG
CGAGGTCATTTCCGAGCTGGCGAGACGTTCTCTGCGCCGACCGCCGAGCAGCGGCGAGCGCAATGGCATTCCTCTCTTGT
CAACACGGCCGGATACGCCGCCAGTGACGCTCGAAATCGTGAACGCCATGCGTGACGAACTGCCGTGA

Structures

Toxin

• AlphaFold DB: C6B8A6