I. Summary

SecReT6 ID	854
Strain	Salmonella enterica subsp. enterica serovar Thompson str. RM6836
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_022525
Location	318749..347212
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	IA1_01390 (mltD)	314008..315375 [-], 1368	549478357	membrane protein
2	IA1_01395	315447..316202 [-], 756	549478358	hydroxyacylglutathione hydrolase
3	IA1_01400	316237..316959 [+], 723	549478359	hypothetical protein
4	IA1_01405	316956..317423 [-], 468	549478360	ribonuclease H
5	IA1_01410	317478..318218 [+], 741	549478361	DNA polymerase III subunit epsilon
6	IA1_01420	318749..319804 [-], 1056	549478362	hypothetical protein	TssA
7	IA1_01425	319815..320810 [-], 996	549478363	SPI-6 associated protein	TssG
8	IA1_01430	320807..322690 [-], 1884	549481708	type VI secretion protein	TssF
9	IA1_01435	322706..323200 [-], 495	549478364	cytoplasmic protein	TssE
10	IA1_01440	323197..324021 [-], 825	549478365	hypothetical protein	TagJ
11	IA1_01445	324008..324910 [-], 903	549478366	hypothetical protein
12	IA1_01450	325278..327917 [+], 2640	549478367	protein disaggregation chaperone	TssH
13	IA1_01455	328017..328559 [+], 543	549478368	type VI secretion protein	TssB
14	IA1_01460	328583..330091 [+], 1509	549478369	EvpB family type VI secretion protein	TssC
15	IA1_01465	330977..331462 [+], 486	549478370	Hcp1 family type VI secretion system effector	TssD
16	IA1_01470	331765..332250 [+], 486	549478371	hypothetical protein	STM0277 (e)
17	IA1_01475	332235..332618 [+], 384	549478372	hypothetical protein	STM0278 (i)
18	IA1_01480	332761..333246 [+], 486	549478373	Hcp1 family type VI secretion system effector	TssD
19	IA1_01485	333313..333849 [+], 537	549478374	outer membrane lipoprotein	TssJ
20	IA1_01490	333853..335196 [+], 1344	549478375	type VI secretion protein	TssK
21	IA1_01495	335193..336497 [+], 1305	549478376	membrane protein	TssL
22	IA1_01500	336502..337275 [+], 774	549481709	membrane protein
23	IA1_01505	337466..337909 [+], 444	549478377	Shiga toxin A subunit
24	IA1_01510	337943..341812 [+], 3870	549478378	membrane protein	TssM
25	IA1_01515	341812..342579 [+], 768	549478379	hypothetical protein
26	IA1_01520	342622..343092 [+], 471	549481710	hypothetical protein
27	IA1_01525	343695..344081 [+], 387	549481711	hypothetical protein
28	IA1_01530	344108..344626 [+], 519	549481712	SPI-6 associated protein
29	IA1_01535	345023..347212 [+], 2190	549478380	type VI secretion protein Vgr	TssI
30	IA1_01540	347236..347682 [+], 447	549478381	hypothetical protein
31	IA1_01545	347701..351789 [+], 4089	549481713	type IV secretion protein Rhs	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

EvpC , STM0277, EvpC, ROD_34191, STY2606

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	IA1_01465	330977..331462 [+], 486	549478370	Hcp1 family type VI secretion system effector	EvpC
2	IA1_01470	331765..332250 [+], 486	549478371	hypothetical protein	STM0277
3	IA1_01480	332761..333246 [+], 486	549478373	Hcp1 family type VI secretion system effector	EvpC
4	IA1_15120	3153269..3153754 [-], 486	549480519	hypothetical protein	ROD_34191
5	IA1_11850	2447125..2447493 [+], 369	549482102	hypothetical protein	STY2606

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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	IA1_01475	332235..332618 [+], 384	549478372	hypothetical protein	STM0278
2	IA1_11855	2447493..2448011 [+], 519	549480008	hypothetical protein	STY2607

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Proteins        Genes

N/A