I. Summary

SecReT6 ID	767
Strain	Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NT_187073
Location	10058..39605
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

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	SENTW_0221 (dniR)	5319..6686 [-], 1368	409248681	transcriptional regulator for nitrite reductase (cytochrome c552)
2	SENTW_0222 (gloB)	6758..7513 [-], 756	409248682	probable hydroxyacylglutathione hydrolase
3	SENTW_0223 (yafS)	7548..8270 [+], 723	409248683	Uncharacterized protein yafS
4	SENTW_0224 (rnhA)	8267..8734 [-], 468	409248684	RNase HI, degrades RNA of DNA-RNA hybrids
5	SENTW_0225 (dnaQ)	8789..9529 [+], 741	409248685	DNA polymerase III epsilon subunit
6	SENTW_0226 (safA)	10058..11113 [-], 1056	409248686	putative cytoplasmic protein	TssA
7	SENTW_0227 (sciB)	11124..12119 [-], 996	409248687	hypothetical protein	TssG
8	SENTW_0228 (safC)	12116..13999 [-], 1884	409248688	hypothetical protein	TssF
9	SENTW_0229 (sciD)	14015..14509 [-], 495	409248689	hypothetical protein	TssE
10	SENTW_0230 (sat1)	14506..15345 [-], 840	409248690	hypothetical protein	TagJ
11	SENTW_0231 (sat2)	15317..16219 [-], 903	409248691	putative cytoplasmic protein
12	SENTW_0232 (clpB)	16587..19226 [+], 2640	409248692	Chaperone protein clpB	TssH
13	SENTW_0233	19326..19868 [+], 543	409248693	hypothetical protein	TssB
14	SENTW_0234 (sirA)	19892..21400 [+], 1509	409248694	hypothetical protein	TssC
15	SENTW_0235	21453..21854 [+], 402	409248695	hypothetical protein	STY0300 (e)
16	SENTW_0236	21826..22251 [+], 426	409248696	hypothetical protein	STY0301 (i)
17	SENTW_0237	22188..22295 [-], 108	409248697	hypothetical protein
18	SENTW_0238 (sciK1)	22488..22973 [+], 486	409248698	Protein hcp1	TssD
19	SENTW_0239	23277..23762 [+], 486	409248699	putative cytoplasmic protein	STM0277 (e)
20	SENTW_0240	23747..24130 [+], 384	409248700	putative periplasmic protein	STM0278 (i)
21	SENTW_0241 (sciK3)	24273..24758 [+], 486	409248701	Protein hcp1	TssD
22	SENTW_0242	24825..25361 [+], 537	409248702	hypothetical protein	TssJ
23	SENTW_0243 (sciO)	25365..26708 [+], 1344	409248703	hypothetical protein	TssK
24	SENTW_0244 (ytxE)	26705..28009 [+], 1305	409248704	Uncharacterized 24.6 kDa protein in ccpA 3'region ORF2	TssL
25	SENTW_0245 (sciQ)	28014..28787 [+], 774	409248705	hypothetical protein
26	SENTW_0246 (sciR)	28978..29421 [+], 444	409248706	putative shiga-like toxin A subunit
27	SENTW_0247 (sciS)	29455..33324 [+], 3870	409248707	hypothetical protein	TssM
28	SENTW_0248 (sciT)	33324..34091 [+], 768	409248708	hypothetical protein
29	SENTW_0249	34589..35062 [+], 474	409248709	probable secreted protein
30	SENTW_0250	35620..36081 [+], 462	409248710	probable secreted protein
31	SENTW_0251	36090..36197 [+], 108	409248711	hypothetical protein
32	SENTW_0252	36166..36909 [+], 744	409248712	hypothetical protein
33	SENTW_0253 (rhsG)	37404..39605 [+], 2202	409248713	Rhs-family protein	TssI
34	SENTW_0254	39629..40075 [+], 447	409248714	hypothetical protein
35	SENTW_0255 (rhsD1)	40094..44182 [+], 4089	409248715	Protein rhsA	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

STY0300 , SciK, STM0277, SciK

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	SENTW_0235	21453..21854 [+], 402	409248695	hypothetical protein	STY0300
2	SENTW_0238(sciK1)	22488..22973 [+], 486	409248698	Protein hcp1	SciK
3	SENTW_0239	23277..23762 [+], 486	409248699	putative cytoplasmic protein	STM0277
4	SENTW_0241(sciK3)	24273..24758 [+], 486	409248701	Protein hcp1	SciK

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Proteins        Genes

Homology Immunity protein list

STY0301, STM0278, STY2607

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	SENTW_0236	21826..22251 [+], 426	409248696	hypothetical protein	STY0301
2	SENTW_0240	23747..24130 [+], 384	409248700	putative periplasmic protein	STM0278
3	SENTW_2500	958..1476 [+], 519	409250981	putative lipoprotein	STY2607

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Proteins        Genes

(1) Brankatschk K et al. (2012). Comparative genomic analysis of Salmonella enterica subsp. enterica serovar Weltevreden foodborne strains with other serovars. Int J Food Microbiol. 155(3):247-56. [PudMed:22341936]

This literature contains bioinformatics investigation