SecReT6
I. Summary
SecReT6 ID432 insolico
StrainPseudomonas brassicacearum subsp. brassicacearum NFM421
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_015379
Location6692399..6714079
Comment
FunctionN/A
T6SS TypeType i; subtype i3
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111111
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSEBR_RS296756687922..6691008 [-], 30871938359762protein kinase 
2PSEBR_RS296806691017..6691748 [-], 732489299430serine/threonine-protein phosphatase  PppA
3PSEBR_RS29685 (tagF)6691749..6692402 [-], 654503459908type VI secretion system-associated protein TagF  TagF
4PSEBR_RS29690 (tssM)6692399..6695899 [-], 3501503459909type VI secretion system membrane subunit TssM  TssM
5PSEBR_RS296956695896..6697206 [-], 1311503459910DotU family type VI secretion system protein  TssL
6PSEBR_RS29700 (tssK)6697213..6698547 [-], 1335489299437type VI secretion system baseplate subunit TssK  TssK
7PSEBR_RS29705 (tssJ)6698563..6699069 [-], 507489299439type VI secretion system lipoprotein TssJ  TssJ
8PSEBR_RS29710 (tagH)6699138..6700679 [-], 1542503459911type VI secretion system-associated FHA domain protein TagH  Fha
9PSEBR_RS29715 (tssA)6701094..6702131 [+], 1038489299443type VI secretion system protein TssA  TssA
10PSEBR_RS29720 (tssB)6702213..6702719 [+], 507489299444type VI secretion system contractile sheath small subunit  TssB
11PSEBR_RS29725 (tssC)6702722..6704218 [+], 1497489299446type VI secretion system contractile sheath large subunit 
12PSEBR_RS297306704439..6704927 [+], 489489299448type VI secretion system tube protein Hcp  TssD
13PSEBR_RS297356705009..6705464 [+], 456503459913hypothetical protein 
14PSEBR_RS297406705461..6705910 [+], 450489299451hypothetical protein 
15PSEBR_RS29745 (tssE)6705904..6706416 [+], 513489299455type VI secretion system baseplate subunit TssE  TssE
16PSEBR_RS29750 (tssF)6706413..6708272 [+], 1860489299457type VI secretion system baseplate subunit TssF  TssF
17PSEBR_RS29755 (tssG)6708236..6709288 [+], 1053489299459type VI secretion system baseplate subunit TssG 
18PSEBR_RS29760 (tssH)6709281..6711971 [+], 2691489299461type VI secretion system ATPase TssH  TssH
19PSEBR_RS297656712142..6714079 [+], 1938489299462type VI secretion system tip protein VgrG  TssI
20PSEBR_RS297706714098..6714532 [+], 435489299464DcrB-related protein 
21PSEBR_RS297756714545..6718984 [+], 4440503459915RHS domain-containing protein  PAAR
 
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
PA0085 , PA0091

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog

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Proteins        Genes
N/A
Regulatory element identified
GacS/GacA
RegulatorDescriptionReference
GacS/GacAActivatorPMID: 22247157

(1) Lalaouna D et al. (2012). Phenotypic switching in Pseudomonas brassicacearum involves GacS- and GacA-dependent Rsm small RNAs. Appl Environ Microbiol. 78(6):1658-65. [PudMed:22247157] experimental
(2) Ortet P et al. (2011). Complete genome sequence of a beneficial plant root-associated bacterium, Pseudomonas brassicacearum. J Bacteriol. 193(12):3146. [PudMed:21515771] in_silico
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation