SecReT6
I. Summary
SecReT6 ID42 experimental
StrainPseudomonas syringae pv. tomato str. DC3000
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_004578
Location6149242..6189243
CommentGrowth suppression of yeast; Growth inhibition of E. coli
Functionanti-eukaryotic and anti-bacterial; effector translocation;virulence
T6SS TypeType i; subtype i1
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111211111
ComponentTssGTssJTssKTssM
Number1111
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSPTO_54116145421..6146974 [-], 155428872519ISPsy5, transposase 
2PSPTO_54126146992..6147351 [-], 36028872520ISPsy5, Orf1 
3PSPTO_54136149242..6151620 [-], 237928872521EF hand domain-containing protein 
4PSPTO_54146152531..6153547 [-], 101728872522lipoprotein 
5PSPTO_54156153553..6155589 [-], 203728872523Rhs element Vgr protein  TssI
6PSPTO_54166155611..6156606 [-], 99628872524serine/threonine protein kinase  Stk1
7PSPTO_54176156615..6157343 [-], 72928872525serine/threonine phosphoprotein phosphatase  Stp1
8PSPTO_54186157343..6160921 [-], 357928872526hypothetical protein  TssM
9PSPTO_54196160884..6161759 [-], 87628872527hypothetical protein  TssL
10PSPTO_54206161765..6163096 [-], 133228872528hypothetical protein  TssK
11PSPTO_54216163099..6163599 [-], 50128872529lipoprotein  TssJ
12PSPTO_54226163605..6164801 [-], 119728872530FHA domain-containing protein  Fha
13PSPTO_54236164819..6164983 [-], 16528872531hypothetical protein 
14PSPTO_54246165047..6166564 [-], 151828872532sigma-54 dependent transcriptional regulator  Sfa2
15PSPTO_54256166575..6169223 [-], 264928872533clpB protein  TssH
16PSPTO_54266169237..6170244 [-], 100828872534hypothetical protein  TssG
17PSPTO_54276170208..6171761 [-], 155428872535hypothetical protein  TssF
18PSPTO_54286173232..6174209 [-], 97828872536ISPssy, transposase 
19PSPTO_56466174382..6174792 [-], 411300781820hypothetical protein 
20PSPTO_56456174792..6175730 [-], 939300781821hypothetical protein 
21PSPTO_54306175762..6176286 [-], 52528872538hypothetical protein  PAAR
22PSPTO_54316176297..6176704 [-], 40828872539hypothetical protein  TssE
23PSPTO_54326176718..6178196 [-], 147928872540hypothetical protein  TssC
24PSPTO_54336178225..6178731 [-], 50728872541hypothetical protein  TssB
25PSPTO_54346178764..6180320 [-], 155728872542hypothetical protein  TssA
26PSPTO_5435 (hcp-2)6181106..6181624 [+], 51928872543secreted protein Hcp  TssD
27PSPTO_54366181756..6183798 [+], 204328872544Rhs element Vgr protein  TssI
28PSPTO_54376183842..6184525 [+], 68428872545hypothetical protein 
29PSPTO_54386184525..6189243 [+], 471928872546Rhs family protein 
30PSPTO_54406190597..6191574 [-], 97828872547ISPssy, transposase 
31PSPTO_54426193709..6194068 [-], 36028872548hypothetical 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
PSPTO_5435

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1PSPTO_5435(hcp-2)6181106..6181624 [+], 51928872543secreted protein Hcp PSPTO_5435
Data from experimental literature

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Proteins        Genes
N/A
(1) Haapalainen M et al. (2012). Hcp2, a Secreted Protein of the Phytopathogen Pseudomonas syringae pv. Tomato DC3000, Is Required for Fitness for Competition against Bacteria and Yeasts. J Bacteriol. 194(18):4810-22. [PudMed:22753062] experimental
(2) Barret M et al. (2011). Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology. 157(Pt 6):1726-39. [PudMed:21474537] in_silico
(3) Sarris PF et al. (2010). In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 11(6):795-804. [PudMed:21091602] in_silico
(4) Boyer F et al. (2009). Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources. BMC Genomics. 10:104. [PudMed:19284603] in_silico
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation