I. Summary

SecReT6 ID	482
Strain	Pseudomonas fluorescens SBW25
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_012660
Location	6570496..6590839
Comment
Function	N/A
T6SS Type	Type i; subtype i3
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	1	1	1	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	PFLU6010	6566154..6569129 [-], 2976	229593375	putative serine/threonine protein kinase	PpkA
2	PFLU6011	6569126..6569845 [-], 720	229593376	putative phosphatase	PppA
3	PFLU6012	6569846..6570499 [-], 654	229593377	hypothetical protein	TagF
4	PFLU6013	6570496..6573996 [-], 3501	229593378	hypothetical protein	TssM
5	PFLU6014	6573993..6575282 [-], 1290	229593379	hypothetical protein	TssL
6	PFLU6015	6575289..6576623 [-], 1335	229593380	hypothetical protein	TssK
7	PFLU6016	6576642..6577151 [-], 510	229593381	putative lipoprotein	TssJ
8	PFLU6017	6577209..6578546 [-], 1338	229593382	hypothetical protein	Fha
9	PFLU6018	6578939..6579958 [+], 1020	229593383	hypothetical protein	TssA
10	PFLU6019	6580013..6580519 [+], 507	229593384	hypothetical protein	TssB
11	PFLU6020	6580522..6582021 [+], 1500	229593385	hypothetical protein	TssC
12	PFLU6021	6582126..6582614 [+], 489	229593386	hypothetical protein	TssD
13	PFLU6022	6582708..6583223 [+], 516	229593387	hypothetical protein	TssE
14	PFLU6023	6583220..6585079 [+], 1860	229593388	hypothetical protein	TssF
15	PFLU6024	6585043..6586086 [+], 1044	229593389	hypothetical protein	TssG
16	PFLU6025 (clpB2)	6586079..6588742 [+], 2664	229593390	chaperone	TssH
17	PFLU6026	6588899..6590839 [+], 1941	229593391	hypothetical protein	TssI
18	PFLU6027	6590855..6591289 [+], 435	229593392	hypothetical protein
19	PFLU6028	6591302..6595732 [+], 4431	229593393	hypothetical protein	PAAR

 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.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

Homology Effector list

PA0085 , PA0091

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	PFLU6021	6582126..6582614 [+], 489	229593386	hypothetical protein	PA0085
2	PFLU6026	6588899..6590839 [+], 1941	229593391	hypothetical protein	PA0091

Download FASTA format files

Proteins        Genes

N/A

Regulatory element identified

GacS

Regulator	Description	Reference
GacS (PFLU3777)	Activator	PMID: 23864577

(1) Cheng X, et al. (2013). The Gac regulon of Pseudomonas fluorescens SBW25. Environ Microbiol Rep. 5(4):608-19. [PudMed:23864577]

(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]

This literature contains experimental investigation

This literature contains bioinformatics investigation