I. Summary

SecReT6 ID	295
Strain	Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_011094
Location	306670..334243
Comment
Function	N/A
T6SS Type	Type i; subtype i3
Bioinformatics 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	SeSA_A0290 (mltD)	301930..303150 [-], 1221	194734347	membrane-bound lytic murein transglycosylase D
2	SeSA_A0291 (gloB)	303369..304124 [-], 756	194736047	hydroxyacylglutathione hydrolase
3	SeSA_A0292	304159..304881 [+], 723	194735250	methyltransferase
4	SeSA_A0293 (rnhA)	304878..305345 [-], 468	194736767	ribonuclease H
5	SeSA_A0294 (dnaQ)	305400..306140 [+], 741	194736138	DNA polymerase III subunit epsilon
6	SeSA_A0296	306670..307713 [-], 1044	194736484	ImpA-related N- family protein	TssA
7	SeSA_A0297	307730..308725 [-], 996	194736246	type VI secretion protein, family protein	TssG
8	SeSA_A0298 (vasA)	308722..310605 [-], 1884	194736842	type VI secretion protein, family protein	TssF
9	SeSA_A0299	310621..311115 [-], 495	194737470	type VI secretion system lysozyme-related protein	TssE
10	SeSA_A0300	311112..311936 [-], 825	194738070	SciE protein	TagJ
11	SeSA_A0301	311923..312813 [-], 891	194734411	hypothetical protein
12	SeSA_A0302	312896..313033 [-], 138	194734926	hypothetical protein
13	SeSA_A0303 (clpV)	313193..315856 [+], 2664	194734614	type VI secretion ATPase, ClpV1 family protein	TssH
14	SeSA_A0304	315942..316232 [+], 291	194735383	hypothetical protein
15	SeSA_A0305	316294..316836 [+], 543	194734723	type VI secretion protein, family protein	TssB
16	SeSA_A0306	316860..318368 [+], 1509	194736373	type VI secretion protein, EvpB/family protein	TssC
17	SeSA_A0307	318720..319001 [+], 282	194735722	cytoplasmic protein
18	SeSA_A0308	319255..319740 [+], 486	194734344	hemolysin-coregulated protein	TssD
19	SeSA_A0309	320034..320519 [+], 486	194735014	cytoplasmic protein	STM0277 (e)
20	SeSA_A0310	320516..320887 [+], 372	194734402	periplasmic protein	STM0278 (i)
21	SeSA_A0311	321030..321515 [+], 486	194734020	hemolysin-coregulated protein	TssD
22	SeSA_A0312	321627..322118 [+], 492	194736056	type VI secretion lipoprotein, family protein	TssJ
23	SeSA_A0313	322122..323465 [+], 1344	194735441	type VI secretion protein, family protein	TssK
24	SeSA_A0314	323462..324766 [+], 1305	194736479	hypothetical protein	TssL
25	SeSA_A0315	324771..325544 [+], 774	194737075	hypothetical protein
26	SeSA_A0318 (icmF)	326189..330058 [+], 3870	194738351	type VI secretion protein IcmF	TssM
27	SeSA_A0319	330058..330840 [+], 783	194733908	cytoplasmic protein
28	SeSA_A0320	330837..331676 [+], 840	194737231	hypothetical protein
29	SeSA_A0321	331666..331926 [+], 261	194737681	hypothetical protein
30	SeSA_A0322	332051..334243 [+], 2193	194735863	Rhs-family protein	TssI
31	SeSA_A0323	334267..334713 [+], 447	194735948	hypothetical protein
32	SeSA_A0325	338692..338826 [+], 135	194737344	hypothetical protein

 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 , SciK, Hcp, STM0277, STY2606

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	SeSA_A0311	321030..321515 [+], 486	194734020	hemolysin-coregulated protein	SciK
2	SeSA_A0308	319255..319740 [+], 486	194734344	hemolysin-coregulated protein	SciK
3	SeSA_A3308	3190967..3191452 [-], 486	194734856	cytoplasmic protein	Hcp
4	SeSA_A0309	320034..320519 [+], 486	194735014	cytoplasmic protein	STM0277
5	SeSA_A2604	2489772..2489990 [+], 219	194735460	hypothetical protein	STY2606

Download FASTA format files

Proteins        Genes

Homology Immunity protein list

STM0278, STY2607

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	SeSA_A0310	320516..320887 [+], 372	194734402	periplasmic protein	STM0278
2	SeSA_A2605	2489990..2490508 [+], 519	194734732	periplasmic protein	STY2607

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Proteins        Genes

(1) Blondel CJ et al. (2009). Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes. BMC Genomics. 10:354. [PudMed:19653904]

This literature contains bioinformatics investigation