Detailed information of TA system TA021506

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 647471..648182
• Replicon: chromosome
• Accession: NC_007908
• Organism: Albidiferax ferrireducens T118 (Rhodoferax ferrireducens T118)

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q221C8
• Locus tag: RFER_RS03105
• Protein ID: WP_011462948.1
• Coordinates: 647757..648182 (+)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q221C9
• Locus tag: RFER_RS03100
• Protein ID: WP_011462947.1
• Coordinates: 647471..647755 (+)
• Length: 95 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RFER_RS03085	644055..645221	+	1167	WP_011462944.1	tricarballylate utilization 4Fe-4S protein TcuB	-
RFER_RS03090	645295..645999	+	705	WP_011462945.1	hypothetical protein	-
RFER_RS03095	646032..647315	+	1284	WP_011462946.1	FIST C-terminal domain-containing protein	-
RFER_RS03100	647471..647755	+	285	WP_011462947.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
RFER_RS03105	647757..648182	+	426	WP_011462948.1	type II toxin-antitoxin system VapC family toxin	Toxin
RFER_RS03110	648304..648714	-	411	WP_166485797.1	hypothetical protein	-
RFER_RS03115	648806..650023	-	1218	WP_011462950.1	tRNA guanosine(34) transglycosylase Tgt	-
RFER_RS03120	650058..651320	-	1263	WP_011462951.1	HD domain-containing protein	-
RFER_RS03125	651353..652435	-	1083	WP_011462952.1	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	-
RFER_RS03130	652621..653016	+	396	WP_011462953.1	universal stress protein	-

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 (7-131)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (10-59)

Sequences

Toxin

Protein

• Length: 142 a.a.
• Molecular weight: 15708.21 Da
• Isoelectric Point: 5.7559

>T21506 WP_011462948.1 NC_007908:647757-648182 [Rhodoferax ferrireducens T118]
MAVLTGYLLDTNVISETVRAAPDPSVMRWLDSLEPEQLYVSVLSLGEIRKGALAVADKRRRDKLLAWLHNKLPEWFENRV
LPIDAAVCERWADLMVKAGTPTPAIDSLLAATAAHAGLVVATRNVRDFVRLEVGVFNPWEF

Nucleotide

• Length: 426 bp

>T21506 NC_007908:647757-648182 [Rhodoferax ferrireducens T118]
ATGGCGGTCCTTACCGGTTATCTGCTCGACACCAACGTCATTTCTGAAACCGTACGCGCCGCACCTGACCCCAGCGTGAT
GCGTTGGCTTGACAGCCTGGAGCCGGAGCAACTGTATGTGAGTGTTCTGAGCCTGGGCGAAATCCGCAAGGGCGCGCTGG
CTGTGGCCGACAAGCGTCGCCGCGACAAGCTGCTGGCCTGGCTGCACAACAAACTGCCCGAGTGGTTTGAAAACCGTGTG
TTGCCGATTGACGCGGCGGTGTGTGAACGCTGGGCCGACTTGATGGTGAAAGCGGGAACTCCCACGCCCGCGATCGACAG
CTTGCTGGCCGCCACGGCGGCCCACGCGGGCCTGGTGGTGGCAACGCGCAATGTGCGCGACTTTGTGCGGTTGGAGGTGG
GGGTTTTCAATCCTTGGGAGTTTTAA

Antitoxin

Protein

• Length: 95 a.a.
• Molecular weight: 10334.72 Da
• Isoelectric Point: 11.1414

>AT21506 WP_011462947.1 NC_007908:647471-647755 [Rhodoferax ferrireducens T118]
MNPSTSHPSSTWQLQDAKAQFSAVVRQAETSGPQLISVRGKPAVVVLSNADYRRLQARSNKPGFTQLMRSSPLVGLDLAV
DRSQDLTRQITLEK

Nucleotide

• Length: 285 bp

>AT21506 NC_007908:647471-647755 [Rhodoferax ferrireducens T118]
ATGAATCCATCCACGTCCCATCCATCGTCAACCTGGCAGCTTCAGGATGCCAAGGCTCAGTTCAGCGCCGTGGTCCGGCA
GGCTGAAACCAGCGGGCCACAACTCATCAGTGTGCGCGGCAAGCCGGCCGTGGTGGTGCTCTCCAATGCGGACTACCGGC
GGCTGCAAGCTCGCTCCAACAAACCCGGTTTTACGCAGTTGATGCGGAGTTCGCCGCTGGTTGGACTGGATTTGGCCGTC
GATCGAAGCCAGGACCTCACGCGCCAGATCACGCTGGAGAAATGA

Structures

Toxin

• AlphaFold DB: Q221C8

Antitoxin

• AlphaFold DB: Q221C9