I. Summary

SecReT6 ID	152
Strain	Pseudomonas aeruginosa UCBPP-PA14
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_008463
Location	3806993..3840213
Comment	Needed for full virulence in mouse lung and acute burn model; required for wild-type infection of Arabidopsis; A Rhs element and the cognate immunity protein are involved in the bacterial killing.
Function	anti-eukaryotic and anti-bacterial; virulence
T6SS Type	Type i; subtype i1
Experimental 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	PA14_42760 (aroC)	3802844..3803935 [-], 1092	116049630	chorismate synthase
2	PA14_42770	3804043..3805026 [+], 984	116049629	hypothetical protein
3	PA14_42780	3805104..3805883 [+], 780	116049628	hypothetical protein
4	PA14_42790	3805908..3806822 [-], 915	116049627	N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase
5	PA14_42820	3806993..3807589 [+], 597	116049626	isochorismatase family hydrolase
6	PA14_42830	3807762..3808082 [+], 321	116049625	hypothetical protein
7	PA14_42840	3808139..3808696 [+], 558	116049624	hypothetical protein
8	PA14_42850 (folE)	3808774..3809319 [+], 546	116049623	GTP cyclohydrolase I
9	PA14_42860	3809384..3809845 [-], 462	116049622	hypothetical protein
10	PA14_42870	3810092..3810472 [+], 381	116049621	hypothetical protein
11	PA14_42880 (stk1)	3810500..3811489 [-], 990	116049620	serine-threonine kinase Stk1	Stk1
12	PA14_42890 (stp1)	3811486..3812214 [-], 729	116049619	serine/threonine phosphoprotein phosphatase Stp1	Stp1
13	PA14_42900	3812214..3815741 [-], 3528	116049618	hypothetical protein	TssM
14	PA14_42910	3815757..3816626 [-], 870	116049617	hypothetical protein	TssL
15	PA14_42920	3816629..3817960 [-], 1332	116049616	hypothetical protein	TssK
16	PA14_42940	3817957..3818463 [-], 507	116049615	lipoprotein	TssJ
17	PA14_42950	3818469..3819662 [-], 1194	116049614	hypothetical protein	Fha
18	PA14_42960	3819680..3819820 [-], 141	116049613	hypothetical protein
19	PA14_42970	3819909..3821420 [-], 1512	116049612	transcriptional regulator	Sfa2
20	PA14_42980	3821431..3824064 [-], 2634	116049611	ClpA/B-type protease	TssH
21	PA14_42990	3824071..3825078 [-], 1008	116049610	hypothetical protein	TssG
22	PA14_43000	3825042..3826622 [-], 1581	116049609	hypothetical protein	TssF
23	PA14_43020	3827167..3827574 [-], 408	116049608	hypothetical protein	TssE
24	PA14_43030	3827587..3829062 [-], 1476	116049607	hypothetical protein	TssC
25	PA14_43040	3829090..3829596 [-], 507	116049606	hypothetical protein	TssB
26	PA14_43050	3829632..3831188 [-], 1557	116049605	hypothetical protein	TssA
27	PA14_43070 (hcpD)	3831886..3832404 [+], 519	116049604	secreted protein Hcp	TssD
28	PA14_43080	3832600..3834642 [+], 2043	116049603	hypothetical protein	TssI
29	PA14_43090	3834632..3835372 [+], 741	116049602	hypothetical protein
30	PA14_43100	3835369..3840213 [+], 4845	116049601	Rhs family protein	RhsP2 (e)
31	PA14_43110	3841020..3841622 [-], 603	116049600	glutathione S-transferase
32	PA14_43130	3841678..3842844 [-], 1167	116049599	aminotransferase
33	PA14_43140	3842926..3843402 [+], 477	116049598	MarR family transcriptional regulator
34	PA14_43150	3843452..3844087 [-], 636	116049597	hypothetical protein

 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

PSPTO_5435 , PA14_43100, PSPTO_5435, PA3487, PSPTO_5435, PSPTO_5435

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	PA14_44890(hcpA)	4000090..4000608 [+], 519	116049456	secreted protein Hcp	PSPTO_5435
2	PA14_43100	3835369..3840213 [+], 4845	116049601	Rhs family protein	PA14_43100
3	PA14_43070(hcpD)	3831886..3832404 [+], 519	116049604	secreted protein Hcp	PSPTO_5435
4	PA14_18970(pldA)	1635662..1638973 [-], 3312	116051504	phospholipase D	PA3487
5	PA14_69560(hcpB)	6206092..6206610 [-], 519	116053416	secreted protein Hcp	PSPTO_5435
6	PA14_03240(hcpC)	288454..288972 [-], 519	116053976	secreted protein Hcp	PSPTO_5435

Download FASTA format files

Proteins        Genes

Homology Immunity protein list

PA3488

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	PA14_18960	1634535..1635233 [-], 699	116051505	hypothetical protein	PA3488

Download FASTA format files

Proteins        Genes

Regulatory element identified

LasR

Regulator	Description	Reference
LasR (PA14_45960)	Activator	PMID: 19497948

MvfR

Regulator	Description	Reference
MvfR (PA14_51340)	Activator	PMID: 15686549

The information on regulator interaction.

#	homolog effector locus tag	Regulator way	Function	Regulate target	Description
1	PA14_52570 (RsmA)	Post-transcriptional	-	TssA1 (PA14_00990) transcript	RsmA binds the tssA1 mRNA in a region overlapping the ribosome binding site (RBS), which is thought to form a stem-loop structure.
2	PA14_52570 (RsmA)		-	TssA2 (PA14_43050) transcript	RsmA binds the tssA2 mRNA in a region overlapping the ribosome binding site (RBS), and contains the core GGA motif.
3	PA14_52570 (RsmA)		-	TssB3 (PA14_34070) transcript	RsmA binds the tssB3 mRNA in a region overlapping the ribosome binding site (RBS), and contains the core GGA motif.
4	PA14_20290 (AmrZ)	Transcriptional	+	TssA1 (PA14_00990) promotor	AmrZ binds to all three assessed T6SS promoter regions and activates expression of H1-T6SS (tssA1).
5	PA14_20290 (AmrZ)	Transcriptional	-	TssA2 (PA14_43050) promotor	AmrZ binds to all three assessed T6SS promoter regions and represses H2-T6SS (tssB2) transcription and H2-T6SS bacterial Killing.
6	PA14_20290 (AmrZ)	Transcriptional	+	TssB3 (PA14_34070) promotor	AmrZ binds to all three assessed T6SS promoter regions and activates expression of H3-T6SS (vgrG3).
7	PA14_48150 (QslA)	QS regulator	-	H2-T6SS (PA14_43050) promotor	The expression of H2-T6SS machinery genes was controlled at a transcriptional level by QslA.

(1) Hachani A et al. (2014). The VgrG proteins are "A la carte" delivery systems for bacterial type VI effectors. J Biol Chem. 289(25):17872-17884. [PudMed:24794869]

(2) Jones C et al. (2013). An rhs-encoding gene linked to the second type VI secretion cluster is a feature of the Pseudomonas aeruginosa strain PA14. J Bacteriol. 196(4):800-10. [PudMed:24317402]

(3) 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]

(4) Lesic B et al. (2009). Quorum sensing differentially regulates Pseudomonas aeruginosa type VI secretion locus I and homologous loci II and III, which are required for pathogenesis. Microbiology. 155(Pt 9):2845-55. [PudMed:19497948]

This literature contains experimental investigation

This literature contains bioinformatics investigation