Detailed information of TA system TA112861

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 142359..143029
• Replicon: plasmid pAt1D1460
• Accession: NZ_CP032928
• Organism: Agrobacterium tumefaciens strain 1D1460

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: At1D1460_RS24995
• Protein ID: WP_121593481.1
• Coordinates: 142610..143029 (+)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A822VAD5
• Locus tag: At1D1460_RS24990
• Protein ID: WP_060726010.1
• Coordinates: 142359..142613 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
At1D1460_RS24970	137571..139163	-	1593	WP_121593480.1	ABC transporter substrate-binding protein	-
At1D1460_RS24975	139279..139989	+	711	WP_112960072.1	GntR family transcriptional regulator	-
At1D1460_RS24980	139991..140911	+	921	WP_112960071.1	dihydrodipicolinate synthase family protein	-
At1D1460_RS24985	140925..142064	+	1140	WP_112960070.1	mandelate racemase/muconate lactonizing enzyme family protein	-
At1D1460_RS24990	142359..142613	+	255	WP_060726010.1	hypothetical protein	Antitoxin
At1D1460_RS24995	142610..143029	+	420	WP_121593481.1	type II toxin-antitoxin system VapC family toxin	Toxin
At1D1460_RS25000	143119..143871	-	753	WP_060725901.1	FadR family transcriptional regulator	-
At1D1460_RS25005	144329..144802	+	474	WP_060725902.1	RidA family protein	-
At1D1460_RS25010	144821..145576	+	756	WP_174014749.1	amino acid ABC transporter ATP-binding protein	-
At1D1460_RS25015	145587..146255	+	669	WP_060725903.1	amino acid ABC transporter permease	-
At1D1460_RS25020	146265..146915	+	651	WP_060725904.1	amino acid ABC transporter permease	-
At1D1460_RS25025	146955..147800	+	846	WP_121593482.1	transporter substrate-binding domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..520191	520191

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

• Toxin YoeB (6-85)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (2-72)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 17962.39 Da
• Isoelectric Point: 12.9430

>T112861 WP_121593481.1 NZ_CP032928:142610-143029 [Agrobacterium tumefaciens]
KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK

Nucleotide

• Length: 420 bp

>T112861 NZ_CP032928:142610-143029 [Agrobacterium tumefaciens]
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 10912.81 Da
• Isoelectric Point: 12.7242

>AT112861 WP_060726010.1 NZ_CP032928:142359-142613 [Agrobacterium tumefaciens]
KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
KKKKK

Nucleotide

• Length: 255 bp

>AT112861 NZ_CP032928:142359-142613 [Agrobacterium tumefaciens]
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAA

Structures

Antitoxin

• AlphaFold DB: A0A822VAD5