Detailed information of TA system TA120378

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): hicAB/-
• Location: 4242704..4243335
• Replicon: chromosome
• Accession: NZ_CP037923
• Organism: Shigella flexneri 5a str. M90T

Toxin (Protein)

• Gene name: hicA
• Uniprot ID: U9Y2A7
• Locus tag: EKN05_RS21610
• Protein ID: WP_001259385.1
• Coordinates: 4242704..4242979 (+)
• Length: 92 a.a.

Antitoxin (Protein)

• Gene name: hicB
• Uniprot ID: U9Y7E1
• Locus tag: EKN05_RS21615
• Protein ID: WP_000593555.1
• Coordinates: 4242976..4243335 (+)
• Length: 120 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EKN05_RS21595 (EKN05_021600)	4237722..4238789	+	1068	WP_000361470.1	HlyD family secretion protein	-
EKN05_RS21600 (EKN05_021605)	4238786..4241521	+	2736	WP_000149171.1	ribosome-associated ATPase/putative transporter RbbA	-
EKN05_RS21605 (EKN05_021610)	4241521..4242645	+	1125	WP_001216257.1	ABC transporter permease	-
EKN05_RS21610 (EKN05_021615)	4242704..4242979	+	276	WP_001259385.1	type II toxin-antitoxin system HicA family toxin	Toxin
EKN05_RS21615 (EKN05_021620)	4242976..4243335	+	360	WP_000593555.1	type II toxin-antitoxin system HicB family antitoxin	Antitoxin
EKN05_RS21620 (EKN05_021625)	4243455..4243856	-	402	WP_001190062.1	nickel-responsive transcriptional regulator NikR	-
EKN05_RS21625 (EKN05_021630)	4243862..4244668	-	807	WP_000173670.1	nickel import ATP-binding protein NikE	-
EKN05_RS21630 (EKN05_021635)	4244665..4245429	-	765	WP_001136248.1	nickel import ATP-binding protein NikD	-
EKN05_RS21635 (EKN05_021640)	4245429..4246262	-	834	WP_001008974.1	nickel ABC transporter permease subunit NikC	-
EKN05_RS21640 (EKN05_021645)	4246259..4247203	-	945	WP_000947077.1	nickel ABC transporter permease subunit NikB	-

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 NC_004741 Shigella flexneri 2a str. 2457T Genomic island TA020951 4163334..4184370 0.001 View NC_017328 Shigella flexneri 2002017 Genomic island TA026551 3624350..3644096 0.003 View NZ_CP007037 Shigella flexneri G1663 Genomic island TA045989 3579685..3596782 0.006 View NZ_CP012137 Shigella flexneri 2a strain 981 Genomic island TA055989 3634449..3654193 0.003 View NZ_CP012140 Shigella flexneri 4c strain 1205 Genomic island TA056017 3655872..3675616 0.003 View NZ_CP012735 Shigella flexneri 1a strain 0228 Genomic island TA057087 1329880..1350898 0.001 View NZ_CP020086 Shigella flexneri 1a strain 0670 Genomic island TA074001 803674..824692 0.001 View NZ_CP020336 Shigella flexneri 4c strain 1602 Genomic island TA074280 3734212..3753956 0.003 View NZ_CP020339 Shigella flexneri 4c strain 0702 Genomic island TA074303 2903299..2923043 0.003 View NZ_CP020342 Shigella flexneri 1a strain 0439 Genomic island TA074309 1083573..1103317 0.003 View NZ_CP026776 Shigella flexneri strain 98-3193 Genomic island TA095824 3273790..3295603 0.002 View NZ_CP026793 Shigella flexneri strain 74-1170 Genomic island TA095972 1493390..1513152 0.002 View NZ_CP026799 Shigella flexneri strain NCTC 9728 Genomic island TA096013 120411..141446 0.001 View NZ_CP026803 Shigella flexneri strain 89-141 Genomic island TA096071 4294225..4315563 0.004 View NZ_CP032513 Shigella flexneri strain SFL1520 Genomic island TA111885 3593062..3609698 0.008 View NZ_CP033510 Shigella flexneri strain 2016AM-0877 Genomic island TA113780 1849566..1869310 0.003 View NZ_CP034060 Shigella flexneri strain FDAARGOS_535 Genomic island TA115072 614719..636532 0.002 View NZ_CP034931 Shigella flexneri strain 2013C-3749 Genomic island TA116957 3868683..3888427 0.003 View NZ_CP042980 Shigella flexneri Y strain PE577 Genomic island TA136850 3575493..3592590 0.006 View NZ_CP044152 Shigella flexneri strain AR-0425 Genomic island TA140354 2856700..2877722 0.001 View NZ_CP044155 Shigella flexneri strain AR-0424 Genomic island TA140378 1840975..1862309 0.001 View NZ_CP044158 Shigella flexneri strain AR-0423 Genomic island TA140419 3875029..3894773 0.003 View NZ_CP045941 Shigella flexneri 2a strain AUSMDU00010535 Genomic island TA143063 357840..379652 0.002 View NZ_CP054913 Shigella flexneri strain FDAARGOS_691 Genomic island TA160608 280520..301870 0.001 View NZ_CP084879 Shigella flexneri strain CMCC51574 Genomic island TA219774 278131..299166 0.001 View NZ_CP094987 Shigella flexneri strain 3160_NCHU22 Genomic island TA240877 4350340..4370101 0.003 View NZ_CP097831 Shigella flexneri strain D Genomic island TA246300 1215075..1236888 0.002 View NZ_CP097834 Shigella flexneri strain C Genomic island TA246331 3688012..3709825 0.002 View NZ_CP097840 Shigella flexneri strain A Genomic island TA246361 1214252..1236065 0.002 View NZ_CP121223 Shigella flexneri 2a strain Sflex 21-42 Genomic island TA276094 1362026..1381770 0.003 View NZ_LR213452 Shigella flexneri strain AUSMDU00008355 isolate AUSMDU00008355 Genomic island TA288241 266960..290082 0.004 View NZ_LR213455 Shigella flexneri strain AUSMDU00008332 isolate AUSMDU00008332 Genomic island TA288265 357852..379664 0.002	inside	Genomic island	-	-	4222298..4243335	21037

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

• HicA mRNA interferase family (30-80)

Antitoxin

• Uncharacterised protein family HicB (60-112)

Sequences

Toxin

Protein

• Length: 92 a.a.
• Molecular weight: 10199.94 Da
• Isoelectric Point: 10.7076

>T120378 WP_001259385.1 NZ_CP037923:4242704-4242979 [Shigella flexneri 5a str. M90T]
MRTKVQALRKKQKNTLDQIFKTPVPQGIKWSDIESLVKALGGEIKEGRGSRCKFILNMSVACFHRPHPSPDTDKGAVESV
RDWLLSIGVKP

Nucleotide

• Length: 276 bp

>T120378 NZ_CP037923:4242704-4242979 [Shigella flexneri 5a str. M90T]
ATGAGAACCAAGGTACAGGCTTTACGGAAGAAACAAAAAAATACATTGGATCAAATATTTAAAACTCCTGTTCCTCAAGG
GATCAAGTGGTCTGATATAGAGTCACTGGTTAAAGCATTAGGCGGAGAAATTAAGGAAGGAAGAGGTTCGCGTTGCAAGT
TCATACTAAATATGAGCGTTGCGTGTTTCCATCGGCCTCATCCGTCGCCAGATACCGATAAAGGCGCTGTAGAAAGCGTG
CGTGACTGGTTACTAAGTATAGGGGTAAAACCATGA

Antitoxin

Protein

• Length: 120 a.a.
• Molecular weight: 13402.27 Da
• Isoelectric Point: 5.1987

>AT120378 WP_000593555.1 NZ_CP037923:4242976-4243335 [Shigella flexneri 5a str. M90T]
MIKLKTPNSMEIAGQPAVITYVPELNAFRGKFLGLSGYCDFVSDSIQGLQKEGELSLREYLEDCKAAGIEPYARTEKIKT
FTLRYPESLSERLNNAAAQQQVSVNTYIIETLNERLNHL

Nucleotide

• Length: 360 bp

>AT120378 NZ_CP037923:4242976-4243335 [Shigella flexneri 5a str. M90T]
ATGATCAAACTGAAGACGCCAAACTCTATGGAGATTGCCGGGCAACCAGCTGTTATTACCTACGTGCCAGAACTGAATGC
ATTTCGTGGCAAATTCCTGGGCTTGTCAGGTTATTGTGATTTTGTCTCTGACAGTATTCAGGGGCTGCAAAAAGAAGGAG
AGCTTTCCCTGCGAGAGTATCTTGAGGATTGTAAAGCTGCGGGTATTGAGCCGTATGCGCGTACAGAAAAGATTAAGACC
TTTACGTTACGCTATCCAGAATCGCTGAGTGAACGCCTTAATAATGCGGCTGCGCAGCAACAAGTCTCTGTTAATACCTA
TATTATTGAAACACTGAATGAGCGTTTGAATCATTTATAA

Structures

Toxin

• AlphaFold DB: A0A4P7TTW8

Antitoxin

• AlphaFold DB: A0A7U9LKZ6