Detailed information of TA system TA216551

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 124650..125320
• Replicon: plasmid unnamed3
• Accession: NZ_CP083484
• Organism: Escherichia coli strain elppa9

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: K9U12_RS25295
• Protein ID: WP_004213072.1
• Coordinates: 124877..125320 (+)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: K9U12_RS25290
• Protein ID: WP_004213073.1
• Coordinates: 124650..124880 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
K9U12_RS25265 (120873)	120873..121772	-	900	WP_004225022.1	nucleotide-binding protein	-
K9U12_RS25270 (121762)	121762..122052	-	291	WP_004213078.1	hypothetical protein	-
K9U12_RS25275 (122404)	122404..122610	+	207	WP_004213077.1	hypothetical protein	-
K9U12_RS25280 (122600)	122600..122893	-	294	WP_004213076.1	hypothetical protein	-
K9U12_RS25285 (122909)	122909..124042	-	1134	WP_004213075.1	DUF3800 domain-containing protein	-
K9U12_RS25290 (124650)	124650..124880	+	231	WP_004213073.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
K9U12_RS25295 (124877)	124877..125320	+	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
K9U12_RS25300 (125469)	125469..125720	+	252	WP_186987481.1	hypothetical protein	-
K9U12_RS25305 (125743)	125743..126047	-	305	Protein_150	transposase	-
K9U12_RS25310 (126464)	126464..127100	+	637	Protein_151	mucoid phenotype regulator RmpA2	-
K9U12_RS25315 (127618)	127618..128021	-	404	Protein_152	GAF domain-containing protein	-
K9U12_RS25320 (128112)	128112..129032	-	921	WP_004213934.1	DUF1471 domain-containing protein	-
K9U12_RS25325 (129081)	129081..129572	-	492	WP_011251327.1	DM13 domain-containing protein	-
K9U12_RS25330 (129635)	129635..129910	-	276	WP_004213932.1	carboxymuconolactone decarboxylase family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aac(3)-IId	rmpA2 / iutA / iucD / iucC / iucB / iucA / rmpA / iroN / iroD / iroC / iroB	1..224105	224105

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 (6-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 148 a.a.
• Molecular weight: 16006.74 Da
• Isoelectric Point: 9.3642

>T216551 WP_004213072.1 NZ_CP083484:124877-125320 [Escherichia coli]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T216551 NZ_CP113163:4559816-4560223 [Citrobacter braakii]
GTGGTCCAGTGGCAATCTGATTTACGCGTTTCATGGCGCGCGCAATGGCTTTCGCTGCTCATTCATGGGCTGGTCGCGGT
ATTTATTTTATTGATGCCCTGGCCATTGAGCTATACCCCATTATGGCTGATGCTGCTCTCTCTGGTGGTGTTCGATAGCG
TCCGTAGCCAGCGCCGAATCAATGCCTGTCAGGGCGAGATTCGGTTGTTGATGGACGGTCGTCTGCGCTGGCAAGGGCAA
GAGTGGTCTATTGTTAGCGCACCCTGGATGGTCAAAACAGGCATGATGCTGCGTTTACGTTCCGATGTCGGAAAACGTCA
GCATTTGTGGCTGGCGGCAGACAGTATGGATGACGCGGAGTGGCGGGATTTACGGCGATTAATACTGCAACAGGCGAAGC
AGGGATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8677.73 Da
• Isoelectric Point: 4.4563

>AT216551 WP_004213073.1 NZ_CP083484:124650-124880 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT216551 NZ_CP113163:4559569-4559835 [Citrobacter braakii]
ATGGATATTAACAACAAAGCACGTATTCATTGGGCATGCCGTCGCGGTATGCGTGAGCTGGACATCTCGATCATGCCGTT
TTTCGAACATGAATATGACAGCTTAAGTGACGAAGAAAAACGTATCTTTATCCGTCTGCTAGAATGTGATGATCCAGACT
TATTTAACTGGTTGATGAATCATGGGAAACCGGCTGATGCTCAGCTGGAGCAGATGGTGCGACTAATCCAGACACGGAAT
CGGGAACGTGGTCCAGTGGCAATCTGA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620