I. Summary
SecReT6 ID40 experimental
StrainPectobacterium atrosepticum SCRI1043
Repliconchromosome [Browse all T6SS(s) in this replicon]
CommentVirulence in potato (stem and tuber infection models)
Functionanti-eukaryotic; effector translocation;virulence
T6SS TypeType i; subtype i1
experimental Experimental 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
1ECA34163824586..3827465 [-], 288050122340DnaG primase-like protein 
2ECA34173827578..3827973 [+], 39650122341phage regulatory protein 
3ECA34183828045..3828374 [+], 33050122342hypothetical protein 
4ECA34193828371..3828715 [+], 34550122343hypothetical protein 
5ECA34203828784..3829221 [-], 43850122344hypothetical protein 
6ECA34213829218..3834074 [-], 485750122345Rhs protein 
7ECA34223834095..3835012 [-], 91850122346hypothetical protein 
8ECA34233835009..3835965 [-], 95750122347hypothetical protein 
9ECA34243836134..3836901 [-], 76850122348lipoprotein 
10ECA34253836898..3837677 [-], 78050122349lipoprotein 
11ECA34263837677..3839050 [-], 137450122350phospholipase  PAAR
12ECA34273839060..3841096 [-], 203750122351hypothetical protein  TssI
13ECA34283841279..3841797 [-], 51950122352hypothetical protein  TssD
14ECA34303842363..3843718 [-], 135650122353lipoprotein 
15ECA34313843747..3845183 [-], 143750122354hypothetical protein  TssA
16ECA34323845233..3848730 [-], 349850122355virulence-associated protein  TssM
17ECA34333848755..3850173 [-], 141950122356hypothetical protein  TssA
18ECA34343850185..3850745 [-], 56150122357hypothetical protein 
19ECA34353850745..3852298 [-], 155450122358sigma-54 dependent transcriptional regulator 
20ECA34363852301..3854898 [-], 259850122359chaperone  TssH
21ECA34373854912..3855688 [-], 77750122360hypothetical protein  TssL
22ECA34383855704..3857041 [-], 133850122361hypothetical protein  TssK
23ECA34393857044..3857565 [-], 52250122362lipoprotein  TssJ
24ECA34403857565..3858785 [-], 122150122363hypothetical protein  Fha
25ECA34413858788..3859786 [-], 99950122364hypothetical protein  TssG
26ECA34423859750..3861516 [-], 176750122365hypothetical protein  TssF
27ECA34433861519..3861950 [-], 43250122366hypothetical protein  TssE
28ECA34443861956..3863434 [-], 147950122367hypothetical protein  TssC
29ECA34453863466..3863969 [-], 50450122368hypothetical protein  TssB
30ECA3446 (oprJ)3865039..3866442 [-], 140450122369multidrug resistance outer membrane protein 
31ECA3447 (mexB)3866439..3869582 [-], 314450122370multidrug resistance protein 
32ECA3448 (mexC)3869665..3870837 [-], 117350122371multidrug resistance protein 
33ECA3449 (nfxB)3871027..3871593 [+], 56750122372transcriptional regulator 
34ECA34503872000..3872587 [-], 58850122373hypothetical protein 
35ECA34513872983..3873474 [+], 49250122374hypothetical protein 
36ECA3452 (fic)3873467..3874063 [+], 59750122375cell filamentation protein 
37ECA34533874071..3874256 [+], 18650122376phage capsid protein (partial) 
38ECA34543874253..3874501 [+], 24950122377bacteriophage regulatory 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

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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
ECA0456 , ABG57133, ECA2866, ECA3427, Dda3937_02773, ECA3427, ECA3428, ABG57133, ECA4275, ECA3427, Dda3937_02773

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1ECA0456520562..521041 [-], 48050119407hypothetical protein ECA0456
2ECA21042390748..2392775 [+], 202850121032VgrG protein ABG57133
3ECA28663204842..3205360 [+], 51950121790hypothetical protein ECA2866
4ECA2867(vgrG)3205452..3207311 [+], 186050121791RHS accessory genetic element ECA3427
5ECA2869(rhs)3207776..3212035 [+], 426050121793RHS protein Dda3937_02773
6ECA34273839060..3841096 [-], 203750122351hypothetical protein ECA3427
7ECA34283841279..3841797 [-], 51950122352hypothetical protein ECA3428
8ECA41424624416..4626443 [+], 202850123062RHS accessory genetic element ABG57133
9ECA42754790053..4790571 [+], 51950123195hypothetical protein ECA4275
10ECA42764790693..4792522 [+], 183050123196Rhs-family protein ECA3427
11ECA42784792990..4797273 [+], 428450123198Rhs-family protein Dda3937_02773
Data from experimental literature

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Proteins        Genes
Regulatory element identified
ExpI (ECA0105)Indirect activatorPMID: 18566662

VasH (ECA3435)ActivatorPMID: 21378190

(1) Bernard CS et al. (2011). Regulation of type VI secretion gene clusters by sigma54 and cognate enhancer binding proteins. J Bacteriol. 193(9):2158-67. [PudMed:21378190] experimental
(2) Boyer F et al. (2009). Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources. BMC Genomics. 10:104. [PudMed:19284603] in_silico
(3) Mattinen L et al. (2008). Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum. Microbiology. 154(Pt 8):2387-96. [PudMed:18667571]
(4) Liu H et al. (2008). Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum. PLoS Pathog. 4(6):e1000093. [PudMed:18566662] experimental
(5) Mattinen L et al. (2007). Host-extract induced changes in the secretome of the plant pathogenic bacterium Pectobacterium atrosepticum. Proteomics. 7(19):3527-37. [PudMed:17726675] experimental
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation