I. Summary
SecReT6 ID431 insolico
StrainPseudomonas brassicacearum subsp. brassicacearum NFM421
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i4a
insolico Bioinformatics 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
1PSEBR_a33094089946..4091226 [-], 1281330810167serine transporter 
2PSEBR_a33104091941..4092894 [+], 954330810168glyoxylate reductase 
3PSEBR_a33114092891..4093973 [-], 1083330810169hypothetical protein  TssA
4PSEBR_a33124093970..4097794 [-], 3825330810170hypothetical protein  TssM
5PSEBR_a33134097791..4098552 [-], 762330810171hypothetical protein  TssL
6PSEBR_a33144098571..4099863 [-], 1293330810172hypothetical protein  TssK
7PSEBR_a33154099967..4100416 [-], 450330810173lipoprotein 
8PSEBR_a33164100641..4101201 [+], 561330810174hypothetical protein  TssB
9PSEBR_a33174101232..4102713 [+], 1482330810175hypothetical protein  TssC
10PSEBR_a33184102906..4103403 [+], 498330810176hemolysin co-regulated type VI secretion system effector  TssD
11PSEBR_a33194103417..4103860 [+], 444330810177hypothetical protein  TssE
12PSEBR_a33204103844..4105634 [+], 1791330810178hypothetical protein  TssF
13PSEBR_a33214105598..4106623 [+], 1026330810179hypothetical protein  TssG
14PSEBR_a33224106625..4109168 [+], 2544330810180chaperone  TssH
15PSEBR_a33234109197..4109937 [+], 741330810181hypothetical protein 
16PSEBR_a33244110075..4112084 [+], 2010330810182type VI secretion system, Vgr family  TssI
17PSEBR_a33254112098..4112640 [+], 543330810183hypothetical protein 
18PSEBR_a33264112683..4113078 [-], 396330810184hypothetical protein 
19PSEBR_a33274113264..4114331 [+], 1068330810185phosphotransferase 
20PSEBR_a33284114356..4115123 [+], 768330810186short-chain dehydrogenase, NADB_Rossmann family 
21PSEBR_a33294115358..4116473 [+], 1116330810187NADB Rossmann 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
1PSEBR_a28923570658..3572883 [-], 2226330809735hypothetical protein PA0095
2PSEBR_a37404590786..4591304 [+], 519330810634type VI secretion system effector, Hcp1 family PSPTO_5435

Download FASTA format files
Proteins        Genes
Regulatory element identified
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