SecReT6
I. Summary
SecReT6 ID431 insolico
StrainPseudomonas brassicacearum subsp. brassicacearum NFM421
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_015379
Location4092891..4112084
Comment
FunctionN/A
T6SS TypeType i; subtype i4a
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111111
ComponentTssGTssJTssKTssM
Number1011
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSEBR_RS175904089946..4091226 [-], 1281489295271HAAAP family serine/threonine permease 
2PSEBR_RS175954091941..4092894 [+], 9544892952722-hydroxyacid dehydrogenase 
3PSEBR_RS17600 (tssA)4092891..4093973 [-], 1083503458914type VI secretion system protein TssA 
4PSEBR_RS176054093970..4097794 [-], 3825489295276type VI secretion system protein ImpL 
5PSEBR_RS176104097791..4098552 [-], 762489295278DotU family type IV/VI secretion system protein 
6PSEBR_RS17615 (tssK)4098571..4099902 [-], 1332489295280type VI secretion system baseplate subunit TssK 
7PSEBR_RS176204099967..4100416 [-], 450503458916hypothetical protein 
8PSEBR_RS17625 (tssB)4100641..4101201 [+], 561489295285type VI secretion system contractile sheath small subunit 
9PSEBR_RS17630 (tssC)4101232..4102713 [+], 1482489295287type VI secretion system contractile sheath large subunit 
10PSEBR_RS176354102906..4103403 [+], 498489295289type VI secretion system tube protein Hcp 
11PSEBR_RS17640 (tssE)4103417..4103860 [+], 444489295291type VI secretion system baseplate subunit TssE 
12PSEBR_RS17645 (tssF)4103844..4105634 [+], 1791489295293type VI secretion system baseplate subunit TssF 
13PSEBR_RS17650 (tssG)4105598..4106623 [+], 1026503458917type VI secretion system baseplate subunit TssG 
14PSEBR_RS17655 (tssH)4106625..4109168 [+], 2544503458918type VI secretion system ATPase TssH 
15PSEBR_RS176604109197..4109937 [+], 741489295298hypothetical protein 
16PSEBR_RS17665 (tssI)4110075..4112084 [+], 2010503458919type VI secretion system tip protein VgrG 
17PSEBR_RS176704112098..4112640 [+], 543489295303toxin-antitoxin system YwqK family antitoxin 
18PSEBR_RS176754112683..4113078 [-], 396489295305DUF4280 domain-containing protein 
19PSEBR_RS176804113264..4114331 [+], 1068489295307phosphotransferase family protein 
20PSEBR_RS176854114356..4115123 [+], 768489272836SDR family oxidoreductase 
21PSEBR_RS176904115358..4116473 [+], 1116489295309Gfo/Idh/MocA family oxidoreductase 
 
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
PA0095 , PSPTO_5435

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