Detailed information of TA system TA046964

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 59137..59780
• Replicon: plasmid pKPN-262
• Accession: NZ_CP007734
• Organism: Klebsiella pneumoniae subsp. pneumoniae KPNIH27

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A3Q8D6L7
• Locus tag: KPNIH27_RS28515
• Protein ID: WP_020804312.1
• Coordinates: 59364..59780 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q84A07
• Locus tag: KPNIH27_RS28510
• Protein ID: WP_001261276.1
• Coordinates: 59137..59367 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KPNIH27_RS34890	54677..54790	+	114	WP_014343462.1	hypothetical protein	-
KPNIH27_RS28475	54919..55176	+	258	WP_009310077.1	hypothetical protein	-
KPNIH27_RS28480	55234..56013	-	780	WP_023287113.1	site-specific integrase	-
KPNIH27_RS28485	56211..57227	-	1017	WP_009309921.1	hypothetical protein	-
KPNIH27_RS28490	57261..57596	-	336	WP_009309920.1	hypothetical protein	-
KPNIH27_RS34205	57646..57957	-	312	WP_023287114.1	hypothetical protein	-
KPNIH27_RS28500	58015..58320	-	306	WP_004197633.1	type II toxin-antitoxin system toxin CcdB	-
KPNIH27_RS28505	58322..58540	-	219	WP_006788213.1	type II toxin-antitoxin system antitoxin CcdA	-
KPNIH27_RS28510	59137..59367	+	231	WP_001261276.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
KPNIH27_RS28515	59364..59780	+	417	WP_020804312.1	type II toxin-antitoxin system VapC family toxin	Toxin
KPNIH27_RS28520	59821..60699	-	879	WP_009309916.1	restriction endonuclease	-
KPNIH27_RS28525	61361..62422	+	1062	Protein_68	HlyD family secretion protein	-
KPNIH27_RS28530	62571..63551	-	981	WP_009310076.1	IS5-like element ISKpn26 family transposase	-
KPNIH27_RS28535	63613..64310	+	698	Protein_70	IS1 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	mrkB / mrkC / mrkD / mrkF / mrkJ	1..338850	338850

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: 139 a.a.
• Molecular weight: 15154.59 Da
• Isoelectric Point: 7.8637

>T46964 WP_020804312.1 NZ_CP007734:59364-59780 [Klebsiella pneumoniae subsp. pneumoniae KPNIH27]
MKKTWMLDTNICSFIMREQPESVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAILVTNNTREFERVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T46964 NZ_CP007734:59364-59780 [Klebsiella pneumoniae subsp. pneumoniae KPNIH27]
ATGAAGAAAACCTGGATGCTCGACACTAACATCTGCTCGTTCATCATGCGCGAGCAGCCGGAATCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGTGACCGCATTGTGGTCTCGGCCGTGACGTATGCCGAGATGCGCTTCGGCGCCACCGGCC
CGAAGGCCTCGCCGCGCCATATTCAGCTGGTCGACGCGTTCTGCGCGCGCCTCGATGCCATCCTGCCCTGGGACCGGGCC
GCGGTGGACGCCACGACGGACATCCGGGTGGCGCTGCGCCTCGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCTATCGCGGCCGGCGCCATCCTGGTGACGAATAATACAAGAGAGTTTGAGCGGGTGCCGGGTCTGGTGCTGG
AAGACTGGGTGAAGTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8721.74 Da
• Isoelectric Point: 4.3533

>AT46964 WP_001261276.1 NZ_CP007734:59137-59367 [Klebsiella pneumoniae subsp. pneumoniae KPNIH27]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT46964 NZ_CP007734:59137-59367 [Klebsiella pneumoniae subsp. pneumoniae KPNIH27]
ATGCGCACAGTTTCGATATTTAAAAACGGCAATAACCGCGCCATTCGGCTGCCCCGGGACCTGGATTTTGACGGCGTCAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGCTGG
ACAGGGCCGATCCGGACTTTATGGCGGAGCGTGAGGATGTGGTCAGCGATGAAGGACGCTTTGAGCCATGA

Structures

Toxin

• AlphaFold DB: A0A3Q8D6L7

Antitoxin

• AlphaFold DB: A0A387K023