Detailed information of TA system TA006352

Experimentally validated

Overview

TA module

• Type: I
• Classification (family/domain): symER/-
• Location: 4579499..4579911
• Replicon: chromosome
• Accession: NC_000913
• Organism: Escherichia coli str. K-12 substr. MG1655
• T1TAdb ID: TA04749

Toxin (Protein)

• Gene name: symE
• Uniprot ID: P39394
• Locus tag: b4347
• Protein ID: NP_418767.4
• Coordinates: 4579499..4579840 (-)
• Length: 114 a.a.

Antitoxin (RNA)

Gene name	symR
Locus tag	b4625
Coordinates	4579835..4579911 (+)

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
b4345	4576912..4577958	-	1047	NP_418765.1	Type IV methyl-directed restriction enzyme EcoKMcrBC subunit	-
b4346	4577958..4578854	-	897	YP_010051217.1	McrBS	-
b4346	4577958..4579337	-	1380	NP_418766.4	5-methylcytosine-specific restriction enzyme subunit McrB	-
b4347	4579499..4579840	-	342	NP_418767.4	nucleoid-associated protein SymE	Toxin
-	4579835..4579911	+	77	-	-	Antitoxin
b4348	4580068..4581462	-	1395	NP_418768.1	type I restriction enzyme EcoKI specificity subunit	-
b4349	4581459..4583048	-	1590	NP_418769.1	type I restriction enzyme EcoKI methylase subunit	-

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 TA020090 4458009..4467057 0 View NC_012759 Escherichia coli BW2952 Genomic island TA006351 4508921..4517969 0 View NC_017638 Escherichia coli DH1 Genomic island TA027427 4552192..4561240 0 View NZ_CP009273 Escherichia coli BW25113 Genomic island TA048706 4562231..4571279 0 View HG738867 Escherichia coli str. K-12 substr. MC4100 Genomic island TA020090 4458009..4467057 0 View NC_007779 Escherichia coli str. K-12 substr. W3110 Genomic island TA021461 4577094..4586142 0 View NZ_HG738867 Escherichia coli str. K-12 substr. MC4100 strain K-12 Genomic island TA285035 4458009..4467057 0 View NZ_CP025520 Escherichia coli strain DH5alpha Genomic island TA090501 3428612..3437660 0 View NZ_CP008801 Escherichia coli KLY Genomic island TA047532 4649273..4658321 0 View NZ_CP011320 Escherichia coli strain SQ37 Genomic island TA053867 4564223..4573271 0 View NZ_CP011321 Escherichia coli strain SQ88 Genomic island TA053910 4541643..4550691 0 View NZ_CP011322 Escherichia coli strain SQ110 Genomic island TA053953 4535897..4544945 0 View NZ_CP011324 Escherichia coli strain SQ2203 Genomic island TA053996 4536063..4545111 0 View NZ_CP011342 Escherichia coli K-12 substr. GM4792 Genomic island TA054081 4553104..4562152 0 View NZ_CP011343 Escherichia coli K-12 substr. GM4792 Genomic island TA054120 4552418..4561466 0 View NZ_CP011495 Escherichia coli strain NCM3722 isolate K-12 Genomic island TA054305 1149283..1158331 0 View NZ_CP012125 Escherichia coli strain DH1Ec095 Genomic island TA055863 4544985..4554033 0 View NZ_CP012126 Escherichia coli strain DH1Ec104 Genomic island TA055906 4543125..4552173 0 View NZ_CP012127 Escherichia coli strain DH1Ec169 Genomic island TA055949 4540284..4549332 0 View NZ_CP014225 Escherichia coli str. K-12 substr. MG1655 strain K-12 Genomic island TA060394 2769503..2778551 0 View NZ_CP014270 Escherichia coli K-12 strain K-12 DHB4 Genomic island TA060550 4477615..4486663 0 View NZ_CP014272 Escherichia coli K-12 strain K-12 C3026 Genomic island TA060602 4676017..4685065 0 View NZ_CP017100 Escherichia coli strain K-12 NEB 5-alpha Genomic island TA066001 4514401..4523449 0 View NZ_CP019629 Escherichia coli strain MGY Genomic island TA073099 4574012..4583060 0 View NZ_CP025268 Escherichia coli str. K-12 substr. MG1655 strain K-12 Genomic island TA090019 4574328..4583376 0 View NZ_CP026026 Escherichia coli strain CAR Genomic island TA092783 4475408..4484456 0 View NZ_CP026027 Escherichia coli strain LIM Genomic island TA092826 4555730..4564778 0 View NZ_CP026028 Escherichia coli strain CIT Genomic island TA092869 4570435..4579483 0 View NZ_CP026342 Escherichia coli strain 9FA Genomic island TA093884 4572414..4581462 0 View NZ_CP026343 Escherichia coli strain 9A Genomic island TA093927 4572409..4581457 0 View NZ_CP026344 Escherichia coli strain 8FA Genomic island TA093970 4572416..4581464 0 View NZ_CP026346 Escherichia coli strain 7FA Genomic island TA094056 4572410..4581458 0 View NZ_CP026347 Escherichia coli strain 7A Genomic island TA094099 4572409..4581457 0 View NZ_CP026348 Escherichia coli strain 6FA Genomic island TA094142 4572415..4581463 0 View NZ_CP026349 Escherichia coli strain 6A Genomic island TA094185 4572360..4581408 0 View NZ_CP026350 Escherichia coli strain 5FA Genomic island TA094228 4572416..4581464 0 View NZ_CP026351 Escherichia coli strain 5A Genomic island TA094271 4572415..4581463 0 View NZ_CP026352 Escherichia coli strain 4FA Genomic island TA094314 4572416..4581464 0 View NZ_CP026353 Escherichia coli strain 4A Genomic island TA094357 4572416..4581464 0 View NZ_CP026355 Escherichia coli strain 3A Genomic island TA094443 4572416..4581464 0 View NZ_CP026356 Escherichia coli strain 2FA Genomic island TA094486 4572415..4581463 0 View NZ_CP026357 Escherichia coli strain 2F_0 Genomic island TA094529 4572415..4581463 0 View NZ_CP026358 Escherichia coli strain 2A Genomic island TA094572 4572332..4581380 0 View NZ_CP026359 Escherichia coli strain 2_0 Genomic island TA094615 4572415..4581463 0 View NZ_CP026360 Escherichia coli strain 1FA Genomic island TA094658 4572416..4581464 0 View NZ_CP026361 Escherichia coli strain 1A Genomic island TA094701 4572424..4581472 0 View NZ_CP026612 Escherichia coli strain DTU-1 Genomic island TA095266 1623995..1633043 0 View NZ_CP028702 Escherichia coli strain J53 Genomic island TA102939 327150..336198 0 View NZ_CP028703 Escherichia coli strain ME8067 Genomic island TA102983 821599..830647 0.001 View NZ_CP029238 Escherichia coli strain CJ236 Genomic island TA105273 4572414..4581462 0 View NZ_CP030240 Escherichia coli strain ER1709 Genomic island TA107371 2135429..2144476 0 View NZ_CP032679 Escherichia coli str. K-12 substr. MG1655 strain K-12 Genomic island TA112130 4562305..4571353 0 View NZ_CP034658 Escherichia coli strain ATCC 98082 Genomic island TA116337 4544305..4553353 0 View NZ_CP037857 Escherichia coli BW25113 strain AM187 Genomic island TA120236 4555619..4564667 0 View NZ_CP040643 Escherichia coli strain BE104 Genomic island TA126288 4705885..4714933 0 View NZ_CP040663 Escherichia coli strain EK2009 Genomic island TA126375 4535777..4544825 0 View NZ_CP040664 Escherichia coli strain KR2009 Genomic island TA126418 4532273..4541321 0 View NZ_CP042843 Escherichia coli strain JME67 Genomic island TA136071 641369..650417 0 View NZ_CP042844 Escherichia coli strain JME66 Genomic island TA136114 636488..645536 0 View NZ_CP042845 Escherichia coli strain JME65 Genomic island TA136157 641369..650417 0 View NZ_CP042846 Escherichia coli strain JME64 Genomic island TA136200 636488..645536 0 View NZ_CP043185 Escherichia coli O16:H48 strain PG20180171 Genomic island TA137449 3303736..3312784 0 View NZ_CP043199 Escherichia coli O16:H48 strain PG20180060 Genomic island TA137652 950636..959684 0 View NZ_CP043213 Escherichia coli O16:H48 strain CV601gfp Genomic island TA137893 389253..398301 0 View NZ_CP044410 Escherichia coli strain ecMN1F Genomic island TA140873 638130..647178 0 View NZ_CP053603 Escherichia coli strain Dam/Dcm Genomic island TA157088 4558804..4567852 0 View NZ_CP053607 Escherichia coli strain NEB5-alpha_F'Iq Genomic island TA157200 4516177..4525225 0 View NZ_CP054665 Escherichia coli strain IGC_EcoliInv_1.1 Genomic island TA160069 4624205..4633253 0 View NZ_CP058948 Escherichia coli strain SY3626C5 Genomic island TA167984 327150..336198 0 View NZ_CP059043 Escherichia coli strain SY3626C1 Genomic island TA168112 327150..336198 0 View NZ_CP060708 Escherichia coli strain MFDpir Genomic island TA170803 4617196..4626244 0 View NZ_CP062239 Escherichia coli strain AML001_ev03 Genomic island TA173669 4562231..4571279 0 View NZ_CP062240 Escherichia coli strain AML001_ev02 Genomic island TA173712 4563430..4572478 0 View NZ_CP062241 Escherichia coli strain AML001_ev01 Genomic island TA173755 4563430..4572478 0 View NZ_CP062242 Escherichia coli strain AML001_par Genomic island TA173798 4562231..4571279 0 View NZ_CP062243 Escherichia coli strain AML003_ev03 Genomic island TA173841 4563438..4572486 0 View NZ_CP062244 Escherichia coli strain AML003_ev02 Genomic island TA173884 4562231..4571279 0 View NZ_CP062245 Escherichia coli strain AML003_ev01 Genomic island TA173927 4562230..4571278 0 View NZ_CP062246 Escherichia coli strain AML003_par Genomic island TA173970 4562231..4571279 0 View NZ_CP062247 Escherichia coli strain AML002_ev03 Genomic island TA174013 4563434..4572482 0 View NZ_CP062248 Escherichia coli strain AML002_ev02 Genomic island TA174056 4562232..4571280 0 View NZ_CP062249 Escherichia coli strain AML002_ev01 Genomic island TA174099 4563430..4572478 0 View NZ_CP062250 Escherichia coli strain AML002_par Genomic island TA174142 4562231..4571279 0 View NZ_CP064678 Escherichia coli K-12 strain CETR3G40 Genomic island TA181450 4562232..4571280 0 View NZ_CP064679 Escherichia coli K-12 strain CETR2G40 Genomic island TA181493 4562232..4571280 0 View NZ_CP064680 Escherichia coli K-12 strain CETR1G40 Genomic island TA181536 4562229..4571277 0 View NZ_CP064681 Escherichia coli K-12 strain BZKR3G40 Genomic island TA181579 4562238..4571286 0 View NZ_CP064682 Escherichia coli K-12 strain BZKR2G40 Genomic island TA181622 4562232..4571280 0 View NZ_CP068281 Escherichia coli strain CY706 Genomic island TA187038 1139247..1148295 0 View NZ_CP068283 Escherichia coli strain CY598 Genomic island TA187119 4619625..4628673 0 View NZ_CP069132 Escherichia coli BW25113 substr. CHXR1G20 Genomic island TA189942 4562227..4571275 0 View NZ_CP069133 Escherichia coli BW25113 substr. CHXR2G20 Genomic island TA189985 4562231..4571279 0 View NZ_CP069386 Escherichia coli strain XH1815 Genomic island TA190318 3201202..3210250 0 View NZ_CP072054 Escherichia coli strain K1508 Genomic island TA197282 4457508..4466556 0 View NZ_CP076404 Escherichia coli strain K-12 substr. AB1157 Genomic island TA205650 4520860..4529908 0 View NZ_CP077969 Escherichia coli strain JM83 Genomic island TA208778 4487429..4496477 0 View NZ_CP079991 Escherichia coli strain KMS2005 Genomic island TA210453 822775..831823 0 View NZ_CP079992 Escherichia coli strain KMS2001 Genomic island TA210485 822775..831823 0 View NZ_CP079993 Escherichia coli strain EV36 Genomic island TA210517 822775..831823 0 View NZ_CP083410 Escherichia coli strain RP437 Genomic island TA216394 4572278..4581326 0 View NZ_CP084893 Escherichia coli strain g94 Genomic island TA219850 4582720..4591768 0 View NZ_CP084894 Escherichia coli strain g83 Genomic island TA219893 4582722..4591770 0 View NZ_CP084895 Escherichia coli strain g74 Genomic island TA219936 4582722..4591770 0 View NZ_CP084896 Escherichia coli strain g62 Genomic island TA219979 4582721..4591769 0 View NZ_CP084897 Escherichia coli strain gb37 Genomic island TA220022 4582721..4591769 0 View NZ_CP084899 Escherichia coli strain W3110-P Genomic island TA220108 4582721..4591769 0 View NZ_CP087136 Escherichia coli strain JW5503 Genomic island TA224854 4561401..4570449 0 View NZ_CP091065 Escherichia coli strain DOC14 Genomic island TA232638 4561401..4570449 0 View NZ_CP092702 Escherichia coli strain S-P-C-029.01 Genomic island TA237003 4572361..4581409 0 View NZ_CP093368 Escherichia coli strain EV36 mutant 1a Genomic island TA238241 822775..831823 0 View NZ_CP093369 Escherichia coli strain EV36 mutant 5a Genomic island TA238273 822776..831824 0 View NZ_CP102378 Escherichia coli strain JB41 Genomic island TA253524 4583050..4592098 0 View NZ_CP102379 Escherichia coli strain BM28 lysU Genomic island TA253558 4449535..4459921 0.004 View NZ_CP102380 Escherichia coli strain BM28 Genomic island TA253592 4451143..4461529 0.004 View NZ_CP122316 Escherichia coli strain HT-946 Genomic island TA276676 2902434..2911482 0 View NZ_CP122318 Escherichia coli strain HT873X1 Genomic island TA276738 2934233..2943281 0 View NZ_CP122319 Escherichia coli strain BW25113 Genomic island TA276758 2371809..2380857 0 View NZ_LM995446 Escherichia coli strain K-12 substr. RV308 Genomic island TA285453 4516382..4525430 0 View NZ_LR881938 Escherichia coli str. K-12 substr. MG1655 strain K-12 Genomic island TA289532 4555908..4564956 0 View NC_007779 Escherichia coli str. K-12 substr. W3110 Genomic island TA021461 4577094..4586142 0 View NC_012759 Escherichia coli BW2952 Genomic island TA006351 4508921..4517969 0 View NC_017638 Escherichia coli DH1 Genomic island TA027427 4552192..4561240 0 View NZ_CP009273 Escherichia coli BW25113 Genomic island TA048706 4562231..4571279 0 View NZ_CP025520 Escherichia coli strain DH5alpha Genomic island TA090501 3428612..3437660 0 View NZ_HG738867 Escherichia coli str. K-12 substr. MC4100 strain K-12 Genomic island TA285035 4458009..4467057 0	inside	Genomic island	-	-	4572414..4581462	9048

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 SymE-like (20-71)

Sequences

Toxin

Protein

• Length: 114 a.a.
• Molecular weight: 12203.02 Da
• Isoelectric Point: 8.5012

>T6352 NP_418767.4 NC_000913:c4579840-4579499 [Escherichia coli str. K-12 substr. MG1655]
MTDTHSIAQPFEAEVSPANNRHVTVGYASRYPDYSRIPAITLKGQWLEAAGFATGTAVDVKVMEGCIVLTAQPPAAEESE
LMQSLRQVCKLSARKQKQVQAFIGVIAGKQKVA

Nucleotide

• Length: 342 bp

>T6352 NC_000913:c4579840-4579499 [Escherichia coli str. K-12 substr. MG1655]
ATGACTGACACGCATTCTATTGCACAACCGTTCGAAGCAGAAGTCTCCCCGGCAAATAACCGTCATGTCACCGTCGGTTA
TGCGAGTCGCTACCCGGATTACAGCCGTATTCCCGCCATCACCCTGAAAGGTCAGTGGCTGGAAGCCGCCGGTTTTGCCA
CTGGCACGGCGGTAGATGTCAAAGTGATGGAAGGCTGTATTGTCCTCACCGCCCAACCACCCGCCGCCGAGGAGAGCGAA
CTGATGCAGTCGCTACGCCAGGTGTGCAAACTGTCGGCGCGTAAACAAAAGCAGGTGCAGGCGTTTATTGGAGTGATTGC
CGGTAAACAGAAAGTCGCGTAA

Antitoxin

Nucleotide

• Length: 77 bp

>AT6352 NC_000913:4579835-4579911 [Escherichia coli str. K-12 substr. MG1655]
AGTCATAACTGCTATTCTCCAGGAATAGTGATTGTGATTAGCGATGCGGGTGTGTTGGCGCACATCCGCACCGCGCT

Similar Proteins

Only experimentally validated proteins are listed.

Toxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
T6351	Escherichia coli BW2952	100	100	1
T10103	Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344	49.123	62.637	0.308

Multiple sequence alignment

Structures

Toxin

• AlphaFold DB: P39394

Antitoxin

References

(1) Mary K Thompson et al. (2022) Escherichia coli SymE is a DNA-binding protein that can condense the nucleoid. Molecular Microbiology 117(4):851-870. [PubMed:34964191]

(2) Mitsuoki Kawano et al. (2007) An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxin. Molecular Microbiology 64(3):738-54. [PubMed:17462020]


 experimental literature