Detailed information of TA system TA024508

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): higBA (relBE)/HigB-HigA
• Location: 3183424..3184151
• Replicon: chromosome
• Accession: NC_013716
• Organism: Citrobacter rodentium ICC168

Toxin (Protein)

• Gene name: higB
• Uniprot ID: D2TKI0
• Locus tag: ROD_RS14865
• Protein ID: WP_012907141.1
• Coordinates: 3183840..3184151 (-)
• Length: 104 a.a.

Antitoxin (Protein)

• Gene name: higA
• Uniprot ID: -
• Locus tag: ROD_RS14860
• Protein ID: WP_012907140.1
• Coordinates: 3183424..3183843 (-)
• Length: 140 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ROD_RS26500	3178700..3179299	-	600	WP_012907136.1	hypothetical protein	-
ROD_RS14830	3179296..3179610	-	315	WP_024132853.1	type III secretion system filament chaperone	-
ROD_RS14835	3179616..3179834	-	219	WP_012907138.1	EscE/YscE/SsaE family type III secretion system needle protein co-chaperone	-
ROD_RS14840	3179849..3180220	-	372	WP_024132854.1	H-NS histone family protein	-
ROD_RS14845	3180574..3182145	-	1572	WP_012904571.1	IS66-like element ISCro1 family transposase	-
ROD_RS14850	3182165..3182512	-	348	WP_012904570.1	IS66 family insertion sequence element accessory protein TnpB	-
ROD_RS14855	3182512..3183189	-	678	WP_012904569.1	IS66 family insertion sequence hypothetical protein	-
ROD_RS14860	3183424..3183843	-	420	WP_012907140.1	helix-turn-helix domain-containing protein	Antitoxin
ROD_RS14865	3183840..3184151	-	312	WP_012907141.1	type II toxin-antitoxin system HigB family toxin	Toxin
ROD_RS14870	3184380..3184709	+	330	WP_012907142.1	YqcC family protein	-
ROD_RS14875	3184709..3185491	+	783	Protein_2947	tRNA pseudouridine(65) synthase TruC	-
ROD_RS14880	3185509..3185958	+	450	WP_012907143.1	flavodoxin	-
ROD_RS14885	3186442..3187794	+	1353	WP_012907145.1	galactarate/glucarate/glycerate transporter GudP	-
ROD_RS14890	3187797..3189137	+	1341	WP_012907146.1	glucarate dehydratase family 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

• Toxin-antitoxin system, mRNA interferase HigB (22-93)

Antitoxin

• Cro/C1-type helix-turn-helix domain (85-138)

Sequences

Toxin

Protein

• Length: 104 a.a.
• Molecular weight: 12320.07 Da
• Isoelectric Point: 9.7853

>T24508 WP_012907141.1 NC_013716:c3184151-3183840 [Citrobacter rodentium ICC168]
VHIISKEPFEQAARLFPNDAMAIRALYRLVSETDFKSPDELRTAVPSLDNFKYRNKWWVLDVGGHNLRVIAYINFVNKRF
YVKHIATHAEYDKLTRYYRENKE

Nucleotide

• Length: 312 bp

>T24508 NC_013716:c3184151-3183840 [Citrobacter rodentium ICC168]
GTGCACATCATCTCCAAAGAGCCATTTGAGCAAGCGGCGCGGTTATTTCCAAACGACGCCATGGCCATTAGGGCGCTGTA
TCGCCTGGTAAGCGAAACAGACTTCAAATCGCCCGATGAGTTGCGCACCGCCGTGCCGAGTCTCGACAATTTTAAGTACC
GGAACAAATGGTGGGTTTTAGATGTGGGTGGTCATAATTTGCGAGTTATCGCCTACATCAACTTTGTGAATAAACGCTTC
TACGTGAAGCACATCGCCACCCACGCTGAATACGATAAGCTGACTCGCTACTATCGGGAGAACAAAGAATGA

Antitoxin

Protein

• Length: 140 a.a.
• Molecular weight: 15518.62 Da
• Isoelectric Point: 4.5455

>AT24508 WP_012907140.1 NC_013716:c3183843-3183424 [Citrobacter rodentium ICC168]
MIADTTKAIEATKQLVAAVPLLGGSTSEKDYRDALELVEYLIDHDDENPLIDFLAAKIADYEDNSEQFAEFNKRIAEIPV
GVALLRTLIDQHQLSYSDLKNEIGSKSLVSQILSGQRSLTISHIKALSERFGIKPQWFL

Nucleotide

• Length: 420 bp

>AT24508 NC_013716:c3183843-3183424 [Citrobacter rodentium ICC168]
ATGATCGCCGACACCACTAAAGCTATCGAAGCAACGAAGCAACTGGTAGCTGCCGTCCCTCTGCTGGGGGGCAGCACCTC
AGAGAAAGACTACCGCGACGCGCTGGAGCTGGTGGAGTACCTGATCGACCACGACGACGAGAACCCGCTGATCGACTTCC
TGGCAGCCAAGATTGCGGATTACGAGGACAACAGCGAACAGTTTGCGGAGTTCAACAAACGCATTGCAGAGATTCCGGTT
GGCGTCGCGCTACTGCGCACCCTGATTGACCAGCATCAGCTCTCCTACTCCGACCTGAAGAATGAGATTGGATCCAAATC
GCTGGTGAGCCAGATCCTTTCCGGCCAGCGCTCCCTGACGATCTCACACATCAAGGCGCTTTCGGAGCGGTTCGGCATCA
AGCCGCAGTGGTTTCTCTGA

Structures

Toxin

• AlphaFold DB: D2TKI0