Detailed information of TA system TA006111

Experimentally validated

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/-
• Location: 155487..156298
• Replicon: plasmid pRSB225
• Accession: NC_025100
• Organism: uncultured bacterium

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: pRSB225_204
• Protein ID: YP_009066159.1
• Coordinates: 155487..155888 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: pRSB225_205
• Protein ID: YP_009066160.1
• Coordinates: 155900..156298 (-)
• Length: 133 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
pRSB225_198	150619..151533	-	915	YP_009066153.1	iron transport system periplasmic binding protein	-
pRSB225_199	151889..152164	+	276	YP_009066154.1	insertion element IS1 protein InsA	-
pRSB225_200	152083..152586	+	504	YP_009066155.1	insertion element protein InsB	-
pRSB225_201	152620..152784	+	165	YP_009066156.1	hypothetical protein	-
pRSB225_202	152840..153862	-	1023	YP_009066157.1	hypothetical protein	-
pRSB225_203	153847..155412	-	1566	YP_009066158.1	hypothetical protein	-
pRSB225_204	155487..155888	-	402	YP_009066159.1	virulence associated protein D	Toxin
pRSB225_205	155900..156298	-	399	YP_009066160.1	virulence associated protein C	Antitoxin
pRSB225_206	156481..160305	+	3825	YP_009066161.1	hypothetical protein	-
pRSB225_207	160350..160751	-	402	YP_009066162.1	virulence associated protein D	-
pRSB225_208	160763..160993	-	231	YP_009066163.1	virulence associated protein C	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aph(3')-Ia / aph(6)-Id / aph(3'')-Ib / sul2 / blaTEM-1B / mph(A) / dfrA14 / catA1 / tet(B) / sitABCD	iutA / iucD / iucC / iucB / iucA	1..164550	164550
	-	flank	IS/Tn	sitABCD	-	148084..152586	4502

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 (1-124)

Antitoxin

• SpoVT-AbrB domain (63-108)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14614.92 Da
• Isoelectric Point: 6.4752

>T6111 YP_009066159.1 NC_025100:c155888-155487 [uncultured bacterium]
MLDTNICSFIMREQPEALLKHLEQSVLRGHRIVVSAITYSEMRFGATGPKASPRHVQLVDAFCERLDAVLPWDRAAVDAT
TEIKVALRLAGTPIGPNDTAIAGHAIAACAILVTNNVREFERVPGLVLEDWVR

Nucleotide

• Length: 402 bp

>T6111 NC_025100:c155888-155487 [uncultured bacterium]
ATGCTCGACACGAACATCTGCTCGTTCATCATGCGCGAGCAACCTGAAGCATTGCTTAAGCACCTGGAGCAGTCGGTGCT
GCGCGGTCACCGTATCGTGGTCTCGGCCATCACCTACTCCGAGATGCGCTTCGGTGCCACCGGTCCGAAGGCCTCGCCAC
GCCACGTGCAACTGGTTGACGCGTTCTGTGAGAGGCTCGATGCCGTCCTGCCGTGGGACCGCGCCGCGGTGGATGCGACC
ACGGAGATTAAGGTGGCACTGCGTCTCGCCGGCACGCCGATCGGTCCGAACGACACGGCGATAGCCGGACACGCCATCGC
TGCCTGTGCCATTCTGGTGACGAATAATGTGAGAGAGTTTGAGCGGGTACCGGGTCTTGTGCTGGAAGACTGGGTAAGAT
AA

Antitoxin

Protein

• Length: 133 a.a.
• Molecular weight: 15324.70 Da
• Isoelectric Point: 6.1313

>AT6111 YP_009066160.1 NC_025100:c156298-155900 [uncultured bacterium]
MPDICIFMVYAYPHHLHMLNLYICLTSAYTKHMHTPGAMNIIPDMHHISTLTRERIMRTVSIFKNGNNRAIRLPRDLDFE
GVSELEIVREGDSIILRPVRPTWGSFLELEKADPDFMTEREDVVSDEGRVNL

Nucleotide

• Length: 399 bp

>AT6111 NC_025100:c156298-155900 [uncultured bacterium]
ATGCCTGACATCTGCATATTCATGGTATACGCATATCCTCACCATCTGCATATGCTGAATCTATACATATGCCTAACATC
TGCCTATACTAAACATATGCACACACCCGGTGCAATGAACATCATTCCGGATATGCATCACATATCCACACTTACCCGGG
AGAGAATCATGAGAACCGTATCCATTTTTAAAAATGGCAACAACCGTGCTATCCGCCTTCCACGCGATCTGGATTTTGAG
GGGGTGAGCGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGCCCCGTCCGGCCGACCTGGGGCTCATTCCT
GGAGCTAGAAAAGGCCGATCCGGACTTTATGACGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGAGTTAACCTGTGA

Similar Proteins

Only experimentally validated proteins are listed.

Toxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
T6112	uncultured bacterium	93.893	98.496	0.925
T10197	Klebsiella pneumoniae	89.474	100	0.895
T439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	41.985	99.242	0.417
T10054	Bosea sp. PAMC 26642 strain PAMC26642	39.394	100	0.394
T4922	Actinobacillus pleuropneumoniae serovar 3 str. JL03	38.636	100	0.386
T3858	Dichelobacter nodosus VCS1703A	38.636	99.248	0.383
T3856	Dichelobacter nodosus VCS1703A	38.636	99.248	0.383
T1070	Haemophilus influenzae Rd KW20	36.364	100	0.364
T877	Sinorhizobium meliloti 1021	36.364	99.248	0.361
T10129	Haemophilus influenzae strain 69P2H1 N69P2H1_45_2	33.835	100	0.338
T1066	Haemophilus influenzae Rd KW20	33.083	100	0.331
T4914	Actinobacillus pleuropneumoniae serovar 3 str. JL03	29.412	100	0.31
T652	Leptospira interrogans serovar Lai str. 56601	29.851	100	0.303

Multiple sequence alignment

Antitoxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
AT6112	uncultured bacterium	90.789	100	0.908
AT10197	Klebsiella pneumoniae	91.781	96.053	0.882
AT652	Leptospira interrogans serovar Lai str. 56601	36.986	96.053	0.355
AT439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	36.232	92	0.333
AT3858	Dichelobacter nodosus VCS1703A	37.879	86.842	0.329
AT3856	Dichelobacter nodosus VCS1703A	37.879	86.842	0.329
AT4922	Actinobacillus pleuropneumoniae serovar 3 str. JL03	37.5	84.211	0.316
AT1070	Haemophilus influenzae Rd KW20	35.821	87.013	0.312
AT10033	Thermus thermophilus HB27	29.078	100	0.308
AT962	Synechocystis sp. PCC 6803	34.848	88	0.307

Multiple sequence alignment

References

(1) Daniel Wibberg et al. (2013) The IncF plasmid pRSB225 isolated from a municipal wastewater treatment plant's on-site preflooder combining antibiotic resistance and putative virulence functions is highly related to virulence plasmids identified in pathogenic E. coli isolates. Plasmid 69(2):127-37. [PubMed:23212116]