I. Summary
SecReT6 ID260 experimental
StrainYersinia pseudotuberculosis YPIII
Repliconchromosome [Browse all T6SS(s) in this replicon]
CommentAn function in H(+) extrusion under acid conditions for acid resistance
Functioneffector translocation
T6SS TypeType i; subtype i3
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1YPK_35473902173..3905079 [+], 2907170025762ATP-dependent helicase HepA 
2YPK_35483905041..3905187 [-], 147170025763hypothetical protein 
3YPK_35493905334..3905687 [-], 354170025764hypothetical protein 
4YPK_35503905709..3909203 [-], 3495170025765type VI secretion protein IcmF  TssM
5YPK_35513909212..3910822 [-], 1611170025766hypothetical protein  TssL
6YPK_35523910819..3912174 [-], 1356170025767type VI secretion protein  TssK
7YPK_35533912294..3912785 [-], 492170025768putative lipoprotein  TssJ
8YPK_35543912778..3913143 [-], 366170025769hypothetical protein  PAAR
9YPK_35553913149..3913766 [-], 618170025770hypothetical protein 
10YPK_35563913759..3914862 [-], 1104170025771pentapeptide repeat-containing protein 
11YPK_35573914888..3917107 [-], 2220170025772pentapeptide repeat-containing protein 
12YPK_35583917120..3919468 [-], 2349170025773ImpA family type VI secretion-associated protein  TssI
13YPK_35593919572..3922160 [-], 2589170025774type VI secretion ATPase  TssH
14YPK_35603922178..3923161 [-], 984170025775type VI secretion protein  TssG
15YPK_35613923154..3924998 [-], 1845170025776type VI secretion protein  TssF
16YPK_35623925031..3925474 [-], 444170025777type VI secretion system lysozyme-like protein  TssE
17YPK_35633925548..3926066 [-], 519170025778hypothetical protein  TssD
18YPK_35643926229..3927740 [-], 1512170025779EvpB family type VI secretion protein  TssC
19YPK_35653927740..3928300 [-], 561170025780type VI secretion protein  TssB
20YPK_35663928311..3929297 [-], 987170025781ImpA domain-containing protein  TssA
21YPK_35673929654..3930397 [+], 744170025782hypothetical protein 
22YPK_35683931620..3932240 [+], 621170025783pseudouridine synthase 
23YPK_3569 (djlA)3932557..3933390 [-], 834170025784Dna-J like membrane chaperone protein 
flank 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.

2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.

3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.

Homology Effector list
Ypk_3549 , YPK_3558, YPK_3563

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1YPK_35493905334..3905687 [-], 354170025764hypothetical protein Ypk_3549
2YPK_35583917120..3919468 [-], 2349170025773ImpA family type VI secretion-associated protein YPK_3558
3YPK_35633925548..3926066 [-], 519170025778hypothetical protein YPK_3563
Data from experimental literature

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Proteins        Genes
Regulatory element identified
YpsI (YPK_1656)ActivatorPMID: 21298257

OmpR (YPK_0172)ActivatorPMID: 23094603

YtbI (YPK_0792)ActivatorPMID: 21298257

The information on regulator interaction.

#homolog effector locus tagRegulator wayFunctionRegulate targetDescription
1YPK_4079 (OxyR)Transcription regulator+T6SS-4 promoter regionOxyR specifically recognizes an operator within the T6SS-4 promoter,and specifically activates the expression of T6SS-4.
2ypk_3425 (RpoS)Transcription regulator+unknownRpoS positively regulates T6SS4 expre-ssion by directly binding to the T6SS4 promoter.
3YPK_3449 (RelA)(p)ppGpp+YPK_1551 (RovM)The (p)ppGpp synthase RelA functions upstream of RovM and RovA to regulate T6SS4 expression.
4YPK_3449 (RelA)YPK_1876 (RovA).
5YPK_1876 (RovA)(p)ppGpp+T6SS-4 promoter regionRovA positively regulates T6SS4 expression by recognizing two conserved AT-rich RovA-binding sites in the T6SS4 promoter.
6YPK_1876 (RovA)T6SS-4 promoter region.
7YPK_1551 (RovM)(p)ppGpp+T6SS-4 promoter regionRovM upregulates T6SS4 by binding directly to the T6SS4 promoter, even also suppressing the expression of RovA.
(1) Wang T et al. (2015). Type VI Secretion System Transports Zn2+ to Combat Multiple Stresses and Host Immunity. PLoS Pathog. 11(7):e1005020. [PudMed:26134274] experimental
(2) Zhang W et al. (2012). A type VI secretion system regulated by OmpR in Yersinia pseudotuberculosis functions to maintain intracellular pH homeostasis. Environ Microbiol. 15(2):557-69. [PudMed:23094603] experimental
(3) Zhang W et al. (2011). Modulation of a thermoregulated type VI secretion system by AHL-dependent quorum sensing in Yersinia pseudotuberculosis. Arch Microbiol. 193(5):351-63. [PudMed:21298257]
experimental This literature contains experimental investigation