I. Summary
SecReT6 ID541 insolico
StrainPseudomonas fluorescens F113
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i1
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
Click the above image to have a larger view
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSF113_58126704352..6705017 [+], 666378953693hypothetical protein 
2PSF113_5813 (tnpR)6705413..6705991 [+], 579378953694protein TnpR 
3PSF113_58146706697..6706960 [+], 264378953695hypothetical protein 
4PSF113_5815 (stk1)6707172..6708104 [-], 933378953696hypothetical protein  Stk1
5PSF113_5816 (stp1)6708101..6708823 [-], 723378953697protein Stp1  Stp1
6PSF113_5817 (icmF2)6708823..6712266 [-], 3444378953698protein IcmF2  TssM
7PSF113_5818 (impK3)6712280..6713143 [-], 864378953699protein ImpK  TssL
8PSF113_5819 (impJ3)6713149..6714480 [-], 1332378953700protein ImpJ  TssK
9PSF113_5820 (vasD2)6714477..6714980 [-], 504378953701protein VasD  TssJ
10PSF113_5821 (impI3)6714986..6715837 [-], 852378953702protein ImpI  Fha
11PSF113_5822 (sfa2)6716055..6717572 [-], 1518378953703protein Sfa2  Sfa2
12PSF113_5823 (clpB4)6717583..6720168 [-], 2586378953704chaperone ClpB  TssH
13PSF113_5824 (impH3)6720180..6721184 [-], 1005378953705protein ImpH  TssG
14PSF113_5825 (impG3)6721148..6722935 [-], 1788378953706protein ImpG  TssF
15PSF113_5826 (tssE2)6722942..6723352 [-], 411378953707protein TssE2  TssE
16PSF113_5827 (impC3)6723361..6724836 [-], 1476378953708protein ImpC  TssC
17PSF113_5828 (impB3)6724862..6725365 [-], 504378953709protein ImpB  TssB
18PSF113_5829 (impA3)6725398..6726954 [-], 1557378953710protein ImpA  TssA
19PSF113_5830 (vgrG2a)6727385..6729448 [+], 2064378953711protein VgrG2a  TssI
20PSF113_58316729445..6730299 [+], 855378953712hypothetical protein 
21PSF113_58326730296..6731066 [+], 771378953713putative lipoprotein 
22PSF113_58336731079..6733262 [+], 2184378953714lipase family protein 
23PSF113_58346733967..6734230 [+], 264378953715hypothetical 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

Download FASTA format files
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.

(1) Redondo-Nieto M et al. (2013). Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics. 14:54. [PudMed:23350846] in_silico
(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
in_silico This literature contains bioinformatics investigation