Detailed information of TA system TA052559

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): rnlAB/RnlA-RnlB
• Location: 3502660..3504097
• Replicon: chromosome
• Accession: NZ_CP010441
• Organism: Escherichia coli K-12 strain K-12 MG1655

Toxin (Protein)

• Gene name: rnlA
• Uniprot ID: P52129
• Locus tag: SH03_RS17295
• Protein ID: WP_000155570.1
• Coordinates: 3502660..3503733 (+)
• Length: 358 a.a.

Antitoxin (Protein)

• Gene name: rnlB
• Uniprot ID: P52130
• Locus tag: SH03_RS17300
• Protein ID: WP_000461704.1
• Coordinates: 3503726..3504097 (+)
• Length: 124 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SH03_RS17280	3498093..3500282	-	2190	WP_000136402.1	DEAD/DEAH box helicase	-
SH03_RS17285	3500279..3501895	-	1617	WP_000445380.1	anti-bacteriophage protein AbpA	-
SH03_RS17290	3502255..3502518	-	264	WP_000502050.1	DUF1524 domain-containing protein	-
SH03_RS17295	3502660..3503733	+	1074	WP_000155570.1	type II toxin-antitoxin system toxin mRNA endoribonuclease RnlA	Toxin
SH03_RS17300	3503726..3504097	+	372	WP_000461704.1	type II toxin-antitoxin system antitoxin RnlB	Antitoxin
SH03_RS17305	3504452..3505315	+	864	WP_000787597.1	GTPase family protein	-
SH03_RS17310	3505407..3506228	+	822	WP_000197391.1	DUF945 domain-containing protein	-
SH03_RS17315	3506445..3507146	+	702	WP_000189409.1	WYL domain-containing protein	-
SH03_RS17320	3507187..3507423	+	237	WP_001144029.1	hypothetical protein	-
SH03_RS17325	3507423..3507866	+	444	WP_000824222.1	hypothetical protein	-
SH03_RS17330	3507890..3508357	+	468	WP_000702495.1	hypothetical protein	-
SH03_RS17335	3508582..3508896	-	315	WP_000065803.1	arsenate reductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	Similar MGE(s) Similar MGE(s) is defined as other TA-related MGE(s) with Mash distance < 0.01 to this MGE. Detail Genome accession Organism MGE type Related TA Coordinates Mash distance View HG738867 Escherichia coli str. K-12 substr. MC4100 Genomic island TA020085, TA020086 3996347..4028227 0.007 View NZ_HG738867 Escherichia coli str. K-12 substr. MC4100 strain K-12 Genomic island TA285030, TA285031 3996347..4028227 0.007	inside	Genomic island	-	-	3492901..3534786	41885

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

• Bacterial toxin, RNase RnlA/LsoA, N-terminal repeated domain (98-183)

Antitoxin

• Antitoxin RnlB/LsoB (14-111)

Sequences

Toxin

Protein

• Length: 358 a.a.
• Molecular weight: 40061.13 Da
• Isoelectric Point: 6.8293

>T52559 WP_000155570.1 NZ_CP010441:3502660-3503733 [Escherichia coli K-12]
MTIRSYKNLNLVRANIETESRQFIENKNYSIQSIGPMPGSRAGLRVVFTRPGVNLATVDIFYNGDGSTTIQYLTGANRSL
GQELADHLFETINPAEFEQVNMVLQGFVETSVLPVLELSADESHIEFREHSRNAHTVVWKIISTSYQDELTVSLHITTGK
LQIQGRPLSCYRVFTFNLAALLDLQGLEKVLIRQEDGKANIVQQEVARTYLQTVMADAYPHLHVTAEKLLVSGLCVKLAA
PDLPDYCMLLYPELRTIEGVLKSKMSGLGMPVQQPAGFGTYFDKPAAHYILKPQFAATLRPEQINIISTAYTFFNVERHS
LFHMETVVDASRMISDMARLMGKATRAWGIIKDLYIV

Nucleotide

• Length: 1074 bp

>T52559 NZ_CP010441:3502660-3503733 [Escherichia coli K-12]
ATGACAATCAGGAGTTACAAAAACTTAAATCTGGTCAGGGCAAATATCGAGACTGAATCCAGACAATTCATTGAAAATAA
AAACTATTCAATCCAATCAATTGGTCCTATGCCAGGGTCAAGGGCTGGGCTTCGGGTCGTATTTACCAGACCAGGGGTTA
ACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTG
GGCCAAGAGTTAGCGGATCATCTTTTTGAAACCATCAATCCTGCTGAATTTGAGCAGGTAAATATGGTACTGCAAGGATT
TGTAGAGACAAGCGTTCTACCTGTACTTGAGCTATCAGCAGATGAATCGCATATAGAGTTCAGAGAACACTCTCGTAACG
CTCATACCGTAGTGTGGAAAATTATTTCCACCAGCTATCAGGACGAATTGACTGTGAGCCTGCATATCACAACAGGTAAG
CTCCAGATTCAGGGCCGACCGCTGTCATGTTACAGAGTTTTCACGTTTAACTTGGCAGCCCTGCTTGATTTACAGGGTTT
GGAGAAAGTGCTAATCCGCCAGGAGGATGGTAAAGCTAATATTGTTCAACAGGAGGTTGCCCGCACTTACTTGCAGACTG
TAATGGCCGATGCTTACCCGCATCTCCACGTGACTGCCGAAAAATTGCTCGTTTCAGGGCTATGTGTTAAACTCGCCGCC
CCTGATTTGCCTGACTACTGTATGTTACTTTATCCTGAACTACGCACCATTGAAGGTGTCTTAAAAAGTAAGATGAGTGG
GTTAGGCATGCCAGTACAGCAGCCGGCAGGTTTTGGAACTTACTTTGATAAACCTGCTGCTCATTACATTCTGAAACCGC
AATTTGCAGCTACTCTTAGACCGGAACAGATTAACATCATCAGCACAGCCTATACTTTTTTTAATGTGGAACGTCATTCT
CTGTTCCACATGGAAACTGTGGTCGATGCCAGCCGTATGATTTCTGATATGGCCCGGTTGATGGGTAAAGCCACTAGAGC
GTGGGGAATAATCAAGGACTTATATATTGTTTGA

Antitoxin

Protein

• Length: 124 a.a.
• Molecular weight: 13664.69 Da
• Isoelectric Point: 4.2391

>AT52559 WP_000461704.1 NZ_CP010441:3503726-3504097 [Escherichia coli K-12]
MFEITGINVSGALKAVVMATGFENPLSSVNEIETKLSALLGSETTGEILFDLLCANGPEWNRFVTLEMKYGRIMLDTAKI
IDEQDVPTHILSKLTFTLRNHPEYLEASVLSPDDVRQVLSMDF

Nucleotide

• Length: 372 bp

>AT52559 NZ_CP010441:3503726-3504097 [Escherichia coli K-12]
TTGTTTGAAATCACCGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTC
CTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCTTGT
GCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATT
ATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAATCATCCTGAGTACCTAGAAGC
CTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGA

Structures

Toxin

• PDB: 6Y2R
• PDB: 7AEX
• PDB: 6Y2Q
• PDB: 4I8O
• PDB: 6Y2P
• PDB: 6Y2S

Antitoxin

• PDB: 6Y2P
• AlphaFold DB: A0A373F4G4