I. Summary

SecReT6 ID	823
Strain	Salmonella enterica subsp. enterica Serovar Cubana str. CFSAN002050
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_021818
Location	1317008..1356990
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	2	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	CFSAN002050_07840 (mltD)	1312267..1313634 [-], 1368	525856663	membrane protein
2	CFSAN002050_07845	1313706..1314461 [-], 756	525856664	hydroxyacylglutathione hydrolase
3	CFSAN002050_07850	1314496..1315218 [+], 723	525856665	hypothetical protein
4	CFSAN002050_07855	1315215..1315682 [-], 468	525856666	ribonuclease H
5	CFSAN002050_07860	1315737..1316477 [+], 741	525856667	DNA polymerase III subunit epsilon
6	CFSAN002050_07870	1316810..1316917 [+], 108	525859642	hypothetical protein
7	CFSAN002050_07875	1317008..1318063 [-], 1056	525856668	hypothetical protein	TssA
8	CFSAN002050_07880	1318074..1319069 [-], 996	525856669	SPI-6 associated protein	TssG
9	CFSAN002050_07885	1319066..1320949 [-], 1884	525859643	type VI secretion protein	TssF
10	CFSAN002050_07890	1320965..1321459 [-], 495	525856670	cytoplasmic protein	TssE
11	CFSAN002050_07895	1321456..1322280 [-], 825	525856671	hypothetical protein	TagJ
12	CFSAN002050_07900	1322267..1323169 [-], 903	525856672	hypothetical protein
13	CFSAN002050_07905	1323537..1326176 [+], 2640	525856673	protein disaggregation chaperone	TssH
14	CFSAN002050_07910	1326276..1326818 [+], 543	525856674	type VI secretion protein	TssB
15	CFSAN002050_07915	1326842..1328350 [+], 1509	525856675	EvpB family type VI secretion protein	TssC
16	CFSAN002050_07920	1329236..1329721 [+], 486	525856676	Hcp1 family type VI secretion system effector	TssD
17	CFSAN002050_07925	1330025..1330510 [+], 486	525856677	hypothetical protein	STM0277 (e)
18	CFSAN002050_07930	1330495..1330878 [+], 384	525856678	hypothetical protein	STM0278 (i)
19	CFSAN002050_07935	1331021..1331506 [+], 486	525856679	Hcp1 family type VI secretion system effector	TssD
20	CFSAN002050_07940	1331573..1332109 [+], 537	525856680	outer membrane lipoprotein	TssJ
21	CFSAN002050_07945	1332113..1333456 [+], 1344	525856681	type VI secretion protein	TssK
22	CFSAN002050_07950	1333453..1334757 [+], 1305	525856682	membrane protein	TssL
23	CFSAN002050_07955	1334762..1335535 [+], 774	525859644	membrane protein
24	CFSAN002050_07960	1335726..1336169 [+], 444	525856683	Shiga toxin A subunit
25	CFSAN002050_07965	1336203..1340072 [+], 3870	525856684	membrane protein	TssM
26	CFSAN002050_07970	1340072..1340839 [+], 768	525856685	hypothetical protein
27	CFSAN002050_07975	1340882..1341352 [+], 471	525859645	hypothetical protein
28	CFSAN002050_07980	1341985..1342716 [+], 732	525859646	hypothetical protein
29	CFSAN002050_07985	1342806..1343147 [+], 342	525859647	hypothetical protein
30	CFSAN002050_07990	1344179..1346398 [+], 2220	525856686	type VI secretion protein Vgr	TssI
31	CFSAN002050_07995	1346429..1346860 [+], 432	525859648	hypothetical protein
32	CFSAN002050_08000	1346891..1351390 [+], 4500	525859649	sugar-binding protein	PAAR
33	CFSAN002050_08005	1351380..1351814 [+], 435	525859650	hypothetical protein
34	CFSAN002050_08010	1352348..1352494 [+], 147	525859651	hypothetical protein
35	CFSAN002050_08015	1352585..1352971 [+], 387	525859652	hypothetical protein
36	CFSAN002050_08020	1353278..1353400 [+], 123	525859653	hypothetical protein
37	CFSAN002050_08025	1353427..1353813 [+], 387	525859654	hypothetical protein
38	CFSAN002050_08030	1353840..1354358 [+], 519	525859655	SPI-6 associated protein
39	CFSAN002050_08035	1354756..1356990 [+], 2235	525856687	type VI secretion protein Vgr	TssI
40	CFSAN002050_08040	1357050..1357508 [+], 459	525859656	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

EvpC , STM0277, EvpC, ROD_34191, STY2606

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	CFSAN002050_07920	1329236..1329721 [+], 486	525856676	Hcp1 family type VI secretion system effector	EvpC
2	CFSAN002050_07925	1330025..1330510 [+], 486	525856677	hypothetical protein	STM0277
3	CFSAN002050_07935	1331021..1331506 [+], 486	525856679	Hcp1 family type VI secretion system effector	EvpC
4	CFSAN002050_22600	4346566..4347051 [-], 486	525858886	hypothetical protein	ROD_34191
5	CFSAN002050_18805	3538967..3539185 [+], 219	525860088	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	CFSAN002050_07930	1330495..1330878 [+], 384	525856678	hypothetical protein	STM0278
2	CFSAN002050_18810	3539185..3539703 [+], 519	525858366	hypothetical protein	STY2607

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Proteins        Genes

N/A