SecReT6
SecReT6 ID929 experimental
StrainSerratia marcescens Db10
RepliconT6SS [Browse all T6SS(s) in this replicon]
AccessionHG326223
Location2365124..2402670
CommentKilling of E. coli, P. fluorescens, Enterobacter cloacae, another strain of S. marcescens and susceptible mutants of Db10
Functionanti-bacterial
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111211111
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1SMDB11_2239 (cnu)2360950..2361165 [+], 216560174082OriC-binding nucleoid-associated protein 
2SMDB11_2240 (uspC)2361363..2361782 [+], 420560174083universal stress protein 
3SMDB11_22412361868..2362899 [+], 1032560174084putative zinc-binding alcohol dehydrogenase 
4SMDB11_2242 (pcp)2362934..2363581 [-], 648560174085pyrrolidone-carboxylate peptidase 
5SMDB11_22432363679..2364611 [+], 933560174086LysR-family transcriptional regulator 
6SMDB11_22442365103..2367463 [+], 2361560174087type VI secretion system, effector protein VgrG-like  TssI
7SMDB11_22452367474..2367863 [+], 390560174088hypothetical protein 
8SMDB11_22462367965..2368465 [+], 501560174089hypothetical protein 
9SMDB11_22472368637..2371189 [+], 2553560174090pentapeptide repeat-containing protein 
10SMDB11_22482371186..2372253 [+], 1068560174091pentapeptide repeat-containing protein 
11SMDB11_22492372284..2372919 [+], 636560174092hypothetical protein 
12SMDB11_22502372936..2373328 [+], 393560174093hypothetical protein 
13SMDB11_22512373377..2373877 [+], 501560174094hypothetical protein 
14SMDB11_22522373907..2374437 [+], 531560174095type VI secretion system-associated protein,SciN-like  TssJ
15SMDB11_22532374478..2375824 [+], 1347560174096type VI secretion system-associated protein  TssK
16SMDB11_22542375828..2377048 [+], 1221560174097type VI secretion system-associated protein  TssL
17SMDB11_22552377048..2380683 [+], 3636560174098type VI secretion system-associated protein,IcmF-like  TssM
18SMDB11_22562380702..2381421 [+], 720560174099type VI secretion system-associated protein 
19SMDB11_22572381445..2382476 [+], 1032560174100type VI secretion system-associated protein  TssA
20SMDB11_22582382597..2383133 [+], 537560174101type VI secretion system-associated protein  TssB
21SMDB11_22592383137..2384642 [+], 1506560174102type VI secretion system-associated protein  TssC
22SMDB11_22602384710..2385093 [+], 384560174103hypothetical protein 
23SMDB11_22612385090..2385581 [+], 492560174104hypothetical protein 
24SMDB11_22622385581..2386036 [+], 456560174105hypothetical protein 
25SMDB11_22632386232..2386714 [+], 483560174106type VI secretion system, effector protein Hcp-like  TssD
26SMDB11_22642386769..2387245 [+], 477560174107hypothetical protein 
27SMDB11_22652387230..2387604 [+], 375560174108hypothetical protein 
28SMDB11_22662387650..2388009 [+], 360560174109hypothetical protein 
29SMDB11_22672388490..2390232 [+], 1743560174110type VI secretion system-associated protein,containing FHA domain 
30SMDB11_22682390232..2391005 [+], 774560174111type VI secretion system, serine/threonine protein phosphatase, PppA-like 
31SMDB11_22692391034..2392020 [+], 987560174112hypothetical protein 
32SMDB11_22702392036..2392857 [+], 822560174113type VI secretion system-associated protein,SciE-like 
33SMDB11_22712392860..2393435 [+], 576560174114type VI secretion system,lysozyme-relatedprotein  TssE
34SMDB11_22722393440..2395326 [+], 1887560174115type VI secretion system-associated protein  TssF
35SMDB11_22732395323..2396393 [+], 1071560174116type VI secretion system-associated protein  TssG
36SMDB11_22742396450..2399104 [+], 2655560174117type VI secretion system ATPase, ClpV1-like  TssH
37SMDB11_22752399154..2400599 [+], 1446560174118type VI secretion system, serine/threonine protein kinase 
38SMDB11_22762400742..2402670 [+], 1929560174119type VI secretion system, effector protein VgrG-like  TssI
39SMDB11_22772402725..2403165 [+], 441560174120hypothetical protein 
40SMDB11_22782403168..2407589 [+], 4422560174121Rhs-family 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
SMDB11_0927(Slp) , SMDB11_1083 (Tfe2), SMDB11_1112 (Ssp3), SMDB11_1610(Rhs2), SMDB11_1610 (Rhs2), SMDB11_2244 (VgrG), SMDB11_2261 (ssp1), SMDB11_2261 (Ssp1), SMDB11_2263 (Hcp), SMDB11_2264 (ssp2), SMDB11_2276 (VgrG), SMDB11_2278(Rhs1), SMDB11_2278 (Rhs1), SMDB11_3455 (Hcp), SMDB11_3456 (Hcp), SMDB11_3980 (Ssp4), SMDB11_4628 (Ssp5), SMDB11_4673 (Ssp6)   SMA3456 (Hcp protein)   SMA3455 (Hcp protein)   SMA4673 (Ssp6)   SMA4628 (Ssp5)   SMA3980 (Ssp4)   SMA2276 (VgrG)   SMA1112 (Ssp3)   SMA2244 (VgrG)   SMA2261 (Ssp1)   SMA2264 (Ssp2)   SMA2263 (Hcp protein)

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SMDB11_0927971234..972886 [+], 1653560172775putative phospholipase (Slp)SMDB11_0927(Slp)
2SMDB11_10831147856..1148536 [+], 681560172929putative chitin-binding protein (Tfe2)SMDB11_1083 (Tfe2)
3SMDB11_11121178412..1178963 [+], 552560172958hypothetical protein (Ssp3)SMDB11_1112 (Ssp3)
4SMDB11_16101689650..1693942 [+], 4293560173453Rhs-family protein (Rhs2)SMDB11_1610(Rhs2)
5SMDB11_16111693944..1694432 [+], 489560173454hypothetical protein (Rhs2)SMDB11_1610 (Rhs2)
6SMDB11_22442365103..2367463 [+], 2361560174087type VI secretion system, effector protein VgrG-like (VgrG)SMDB11_2244 (VgrG)
7SMDB11_22612385090..2385581 [+], 492560174104hypothetical protein (ssp1)SMDB11_2261 (ssp1)
8SMDB11_22612385090..2385581 [+], 492560174104hypothetical protein (Ssp1)SMDB11_2261 (Ssp1)
9SMDB11_22632386232..2386714 [+], 483560174106type VI secretion system, effector protein Hcp-like (Hcp)SMDB11_2263 (Hcp)
10SMDB11_22642386769..2387245 [+], 477560174107hypothetical protein (ssp2)SMDB11_2264 (ssp2)
11SMDB11_22762400742..2402670 [+], 1929560174119type VI secretion system, effector protein VgrG-like (VgrG)SMDB11_2276 (VgrG)
12SMDB11_22782403168..2407589 [+], 4422560174121Rhs-family protein (Rhs1)SMDB11_2278(Rhs1)
13SMDB11_2278A2407591..2408079 [+], 489560174122hypothetical protein (Rhs1)SMDB11_2278 (Rhs1)
14SMDB11_34553668310..3668792 [+], 483560175282type VI secretion system, effector protein Hcp-like (Hcp)SMDB11_3455 (Hcp)
15SMDB11_34563668840..3669322 [+], 483560175283type VI secretion system, effector protein Hcp-like (Hcp)SMDB11_3456 (Hcp)
16SMDB11_39804242848..4243843 [-], 996560175802hypothetical protein (Ssp4)SMDB11_3980 (Ssp4)
17SMDB11_46284979889..4980716 [+], 828560176449hypothetical protein (Ssp5)SMDB11_4628 (Ssp5)
18SMDB11_46735022150..5022797 [-], 648560176492hypothetical protein (Ssp6)SMDB11_4673 (Ssp6)
Data from experimental literature

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Proteins        Genes

Homology Immunity protein list
SMDB11_0927 (Slp), SMDB11_0927 (Slp), SMDB11_1610 (Rhs2), SMDB11_2278 (Rhs1)   SMA2260 (Rap1a)   SMA2266 (Rap2b)   SMA4630 (Sip5b)   SMA2262 (Rap1b)   SMA2265 (Rap2a)   SMA4629 (Sip5a)   SMA3979 (Sip4)   SMA1111 (Sip3)

Immunity protein identified
#Locus tag(Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SMDB11_0928972883..973656 [+], 774560172776ankyrin repeat-containing protein (Slp)SMDB11_0927 (Slp)
2SMDB11_0929973746..974489 [+], 744560172777ankyrin repeat-containing protein (Slp)SMDB11_0927 (Slp)
3SMDB11_16111693944..1694432 [+], 489560173454hypothetical protein (Rhs2)SMDB11_1610 (Rhs2)
4SMDB11_2278A2407591..2408079 [+], 489560174122hypothetical protein (Rhs1)SMDB11_2278 (Rhs1)
Data from experimental literature

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Proteins        Genes

Adaptors list
SMDB11_1609 (EagR2), SMDB11_2245 (EagR1)

Adaptor identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SMDB11_16091689187..1689618 [+], 432560173452hypothetical protein (EagR2)SMDB11_1609 (EagR2)
2SMDB11_22452367474..2367863 [+], 390560174088hypothetical protein (EagR1)SMDB11_2245 (EagR1)
Data from experimental literature

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Proteins        Genes
The information on regulator interaction.

#homolog effector locus tagRegulator wayFunctionRegulate targetDescription
1SMDB11_2275 (PpKA)TPP+SMDB11_2267 (FHA)Phosphorylation of Fha by PpkA promotes formation ofFha foci and assembly ofan active T6SS in Serratiamarcescens.
2SMDB11_2268 (PppA)TPP-SMDB11_2267 (FHA)PppA-mediated dephosphorylation of Fha is required for partial disassembly and re-assembly of the T6SS at a new location in the cell.
3SMDB11_2269 (RtkS)TPP+SMDB11_2275 (PpKA)RtkS is an upstream activator of PpkA which stabilises the kinase through a direct interaction.
4SMDB11_2256 (TagF)TPP-unknownTagF negatively regulates assembly ofa functional T6SS and that PpkA-mediated phosphorylation is required to overcome this repression.
(1) Srikannathasan V et al. (2013). Structural basis for type VI secreted peptidoglycan DL-endopeptidase function, specificity and neutralization in Serratia marcescens. Acta Crystallogr D Biol Crystallogr. 69(Pt 12):2468-82. [PudMed:24311588] experimental in_silico
(2) Heymann JB et al. (2013). Three-dimensional structure of the toxin-delivery particle antifeeding prophage of Serratia entomophila. J Biol Chem. 288(35):25276-84. [PudMed:23857636]
(3) Fritsch MJ et al. (2013). Proteomic identification of novel secreted anti-bacterial toxins of the Serratia marcescens Type VI secretion system. Mol Cell Proteomics. 12(10):2735-2749. [PudMed:23842002] experimental
(4) English G et al. (2012). New secreted toxins and immunity proteins encoded within the Type VI secretion system gene cluster of Serratia marcescens. Mol Microbiol. 86(4):921-36. [PudMed:22957938] experimental
(5) Rao VA et al. (2011). The structure of Serratia marcescens Lip, a membrane-bound component of the type VI secretion system. Acta Crystallogr D Biol Crystallogr. 67(Pt 12):1065-72. [PudMed:22120744]
(6) Murdoch SL et al. (2011). The opportunistic pathogen Serratia marcescens utilizes type VI secretion to target bacterial competitors. J Bacteriol. 193(21):6057-69. [PudMed:21890705] experimental
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation