I. Summary

SecReT6 ID	835
Strain	Salmonella enterica subsp. enterica serovar Newport str. USMARC-S3124.1
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_021902
Location	1293261..1321926
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	SN31241_12510	1288519..1289739 [-], 1221	528817965	Membrane-bound lytic murein transglycosylase D
2	SN31241_12520	1289958..1290713 [-], 756	528817966	Hydroxyacylglutathione hydrolase
3	SN31241_12530	1290802..1291470 [+], 669	528817967	protein yafS
4	SN31241_12540	1291467..1291934 [-], 468	528817968	Ribonuclease H
5	SN31241_12550	1291989..1292729 [+], 741	528817969	DNA polymerase III subunit epsilon
6	SN31241_12560	1293261..1294316 [-], 1056	528817970	ImpA N	TssA
7	SN31241_12570	1294327..1295322 [-], 996	528817971	Type VI secretion protein	TssG
8	SN31241_12580	1295319..1297202 [-], 1884	528817972	Type VI secretion protein	TssF
9	SN31241_12590	1297218..1297712 [-], 495	528817973	Type VI secretion system lysozyme-like protein	TssE
10	SN31241_12600	1297709..1298533 [-], 825	528817974	SciE protein	TagJ
11	SN31241_12610	1298520..1299410 [-], 891	528817975	cytoplasmic protein
12	SN31241_12620	1299790..1302429 [+], 2640	528817976	Chaperone protein ClpB	TssH
13	SN31241_12630	1302529..1303071 [+], 543	528817977	Type VI secretion protein	TssB
14	SN31241_12640	1303095..1304603 [+], 1509	528817978	Type VI secretion protein, EvpB	TssC
15	SN31241_12650	1305029..1305454 [+], 426	528817979	hypothetical protein	STY0301 (i)
16	SN31241_12660	1305691..1306176 [+], 486	528817980	Hemolysin-coregulated protein	TssD
17	SN31241_12670	1306524..1306964 [+], 441	528817981	cytoplasmic protein	STM0277 (e)
18	SN31241_12680	1307000..1307332 [+], 333	528817982	periplasmic protein	STM0278 (i)
19	SN31241_12690	1307475..1307960 [+], 486	528817983	Hemolysin-coregulated protein	TssD
20	SN31241_12700	1308072..1308563 [+], 492	528817984	Type VI secretion lipoprotein	TssJ
21	SN31241_12710	1308567..1309910 [+], 1344	528817985	Type VI secretion protein	TssK
22	SN31241_12720	1309907..1311211 [+], 1305	528817986	SciP protein	TssL
23	SN31241_12730	1311216..1311989 [+], 774	528817987	inner membrane protein
24	SN31241_12740	1312266..1312622 [+], 357	528817988	SciR protein
25	SN31241_12750	1312656..1316525 [+], 3870	528817989	Type VI secretion protein IcmF	TssM
26	SN31241_12760	1316540..1317292 [+], 753	528817990	cytoplasmic protein
27	SN31241_12770	1317850..1318251 [+], 402	528817991	hypothetical protein
28	SN31241_12780	1318260..1318382 [+], 123	528817992	cytoplasmic protein
29	SN31241_12790	1318379..1318795 [+], 417	528817993	secreted protein
30	SN31241_12800	1319218..1319340 [+], 123	528817994	cytoplasmic protein
31	SN31241_12810	1319482..1319691 [+], 210	528817995	hypothetical protein
32	SN31241_12820	1319737..1321926 [+], 2190	528817996	Rhs element Vgr	TssI
33	SN31241_12830	1321950..1322396 [+], 447	528817997	hypothetical protein
34	SN31241_12840	1322415..1326494 [+], 4080	528817998	hypothetical 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

EvpC , STM0277, EvpC, STY2606, ROD_34191

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	SN31241_12660	1305691..1306176 [+], 486	528817980	Hemolysin-coregulated protein	EvpC
2	SN31241_12670	1306524..1306964 [+], 441	528817981	cytoplasmic protein	STM0277
3	SN31241_12690	1307475..1307960 [+], 486	528817983	Hemolysin-coregulated protein	EvpC
4	SN31241_34830	3511450..3511851 [+], 402	528820196	hypothetical protein	STY2606
5	SN31241_42570	4305918..4306403 [-], 486	528820969	hypothetical protein	ROD_34191

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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	SN31241_12650	1305029..1305454 [+], 426	528817979	hypothetical protein	STY0301
2	SN31241_12680	1307000..1307332 [+], 333	528817982	periplasmic protein	STM0278
3	SN31241_34840	3511851..3512369 [+], 519	528820197	lipoprotein	STY2607

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Proteins        Genes

N/A