I. Summary

SecReT6 ID	551
Strain	Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_016856
Location	305365..332747
Comment	Required for full virulence in mice; gastrointestinal colonization and systemic spread of Salmonella enterica serovar Typhimurium in the chicken
Function	anti-eukaryotic; virulence
T6SS Type	Type i; subtype i3
Experimental investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	2	1	1	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

14

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	STM14_0305 (dniR)	300623..301990 [-], 1368	378448569	membrane-bound lytic murein transglycosylase D
2	STM14_0306 (gloB)	302062..302817 [-], 756	378448570	hydroxyacylglutathione hydrolase
3	STM14_0307 (yafS)	302852..303574 [+], 723	378448571	putative SAM-dependent methyltransferase
4	STM14_0308 (rnhA)	303571..304038 [-], 468	378448572	ribonuclease H
5	STM14_0309 (dnaQ)	304102..304833 [+], 732	378448573	DNA polymerase III subunit epsilon
6	STM14_0310	304859..304966 [-], 108	378448574	hypothetical protein
7	STM14_0312	305167..305274 [+], 108	378448575	hypothetical protein
8	STM14_0313	305365..306420 [-], 1056	378448576	putative cytoplasmic protein	TssA
9	STM14_0314	306431..307426 [-], 996	378448577	putative cytoplasmic protein	TssG
10	STM14_0315	307423..309306 [-], 1884	378448578	putative cytoplasmic protein	TssF
11	STM14_0316	309322..309816 [-], 495	378448579	putative cytoplasmic protein	TssE
12	STM14_0317	309813..310637 [-], 825	378448580	putative cytoplasmic protein	TagJ
13	STM14_0318	310624..311526 [-], 903	378448581	putative cytoplasmic protein
14	STM14_0319	311894..314533 [+], 2640	378448582	putative chaperone ATPase	TssH
15	STM14_0320	314633..315175 [+], 543	378448583	putative cytoplasmic protein	TssB
16	STM14_0321	315199..316692 [+], 1494	378448584	putative cytoplasmic protein	TssC
17	STM14_0322	316755..316865 [+], 111	378448585	invasol SirA
18	STM14_0323	316878..317324 [+], 447	378448586	putative cytoplasmic protein
19	STM14_0324	317578..318063 [+], 486	378448587	putative cytoplasmic protein	TssD
20	STM14_0325	318368..318853 [+], 486	378448588	putative cytoplasmic protein	STM0277 (e)
21	STM14_0326	318838..319221 [+], 384	378448589	hypothetical protein	STM0278 (i)
22	STM14_0327	319364..319849 [+], 486	378448590	putative cytoplasmic protein	TssD
23	STM14_0328	319916..320452 [+], 537	378448591	putative outer membrane lipoprotein	TssJ
24	STM14_0329	320456..321799 [+], 1344	378448592	putative cytoplasmic protein	TssK
25	STM14_0330	321796..323100 [+], 1305	378448593	hypothetical protein	TssL
26	STM14_0331	323105..323878 [+], 774	378448594	putative inner membrane protein
27	STM14_0332	324081..324512 [+], 432	378448595	putative Shiga-like toxin A subunit
28	STM14_0333	324546..328415 [+], 3870	378448596	putative inner membrane protein	TssM
29	STM14_0334	328415..329203 [+], 789	378448597	putative cytoplasmic protein
30	STM14_0335	329200..329616 [+], 417	378448598	hypothetical protein
31	STM14_0336	329640..330161 [+], 522	378448599	putative cytoplasmic protein
32	STM14_0337	330303..330512 [+], 210	378448600	hypothetical protein
33	STM14_0338	330558..332747 [+], 2190	378448601	putative cytoplasmic protein	TssI
34	STM14_0339	332771..333217 [+], 447	378448602	putative cytoplasmic protein
35	STM14_0340	333236..337330 [+], 4095	378448603	putative RHS-like protein	PAAR

 Genes in the 5-kb flanking regions if available, or non-core components encoded by the T6SS gene cluster if any. In the 'Note' column,if available, '(e)' denotes effector while '(i)' for immunity protein

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Proteins        Genes

V. Investigation of the genomic context of the T6SS gene cluster.

1. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the mobile genetic elements database, ACLAME.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

Homology Effector list

SciK , STM0277, SciK, STY2606, Hcp

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	STM14_0324	317578..318063 [+], 486	378448587	putative cytoplasmic protein	SciK
2	STM14_0325	318368..318853 [+], 486	378448588	putative cytoplasmic protein	STM0277
3	STM14_0327	319364..319849 [+], 486	378448590	putative cytoplasmic protein	SciK
4	STM14_2924	2538467..2538835 [+], 369	378451100	putative cytoplasmic protein	STY2606
5	STM14_3785	3309225..3309710 [-], 486	378451925	putative cytoplasmic protein	Hcp

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Proteins        Genes

Homology Immunity protein list

STM0278, STY2607

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	STM14_0326	318838..319221 [+], 384	378448589	hypothetical protein	STM0278
2	STM14_2925	2538835..2539353 [+], 519	378451101	hypothetical protein	STY2607

Download FASTA format files

Proteins        Genes

(1) Pezoa D et al. (2013). The Type VI Secretion System Encoded in SPI-6 Plays a Role in Gastrointestinal Colonization and Systemic Spread of Salmonella enterica serovar Typhimurium in the Chicken. PLoS One. 8(5):e63917. [PudMed:23691117]

(2) Liu J et al. (2012). The type VI secretion system gene cluster of Salmonella typhimurium: required for full virulence in mice. J Basic Microbiol. 53(7):600-7. [PudMed:22961625]

This literature contains experimental investigation