SecReT6
I. Summary
SecReT6 ID86 experimental
StrainPseudomonas syringae pv. syringae B728a
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_007005
Location5866174..5915475
Comment
Functioneffector translocation;adherence
T6SS TypeType i; subtype i4b
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111211111
ComponentTssGTssJTssKTssM
Number1112
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1Psyr_49475863519..5863959 [+], 44166048171hypothetical protein 
2Psyr_49485864093..5866042 [-], 195066048172ATP-dependent DNA helicase RecQ 
3Psyr_49495866174..5866995 [+], 82266048173hypothetical protein 
4Psyr_49505867626..5869797 [-], 217266048174peptidase M48, Ste24p 
5Psyr_49515869794..5870114 [-], 32166048175hypothetical protein 
6Psyr_49525870498..5871247 [+], 75066048176hypothetical protein 
7Psyr_49535871317..5871850 [+], 53466048177hypothetical protein  TssB
8Psyr_49545871865..5873367 [+], 150366048178hypothetical protein  TssC
9Psyr_49555873395..5873877 [+], 48366048179hypothetical protein  TssE
10Psyr_49565873877..5875709 [+], 183366048180hypothetical protein  TssF
11Psyr_49575875673..5876743 [+], 107166048181hypothetical protein  TssG
12Psyr_49585876740..5879343 [+], 260466048182ATPase AAA  TssH
13Psyr_49595879369..5880124 [+], 75666048183hypothetical protein  TssJ
14Psyr_49605880121..5881464 [+], 134466048184hypothetical protein  TssK
15Psyr_49615881461..5882174 [+], 71466048185hypothetical protein  TssL
16Psyr_49625882205..5886137 [+], 393366048186hypothetical protein  TssM
17Psyr_49635886169..5887092 [+], 92466048187hypothetical protein 
18Psyr_49645887089..5889581 [+], 249366048188OmpA/MotB protein  TssM
19Psyr_49655889737..5890255 [+], 51966048189hypothetical protein  TssD
20Psyr_49665890348..5891442 [+], 109566048190ImpA-like protein  TssA
21Psyr_49675891620..5892045 [+], 42666048191hypothetical protein 
22Psyr_49685892198..5892530 [+], 33366048192hypothetical protein 
23Psyr_49695892565..5892873 [+], 30966048193hypothetical protein  PAAR
24Psyr_49705892924..5894978 [+], 205566048194phospholipase D/transphosphatidylase 
25Psyr_49715895050..5896006 [+], 95766048195Sel1 repeat-containing protein 
26Psyr_49725896106..5897137 [+], 103266048196Sel1 repeat-containing protein 
27Psyr_49735897201..5898283 [+], 108366048197hypothetical protein 
28Psyr_49745898317..5901193 [+], 287766048198Rhs element Vgr protein  TssI
29Psyr_49755901334..5902053 [+], 72066048199hypothetical protein 
30Psyr_49765902118..5902672 [-], 55566048200hypothetical protein 
31Psyr_49775903248..5904258 [-], 101166048201ADP-ribosylglycohydrolase 
32Psyr_49785904412..5904711 [-], 30066048202hypothetical protein 
33Psyr_49795904880..5905437 [-], 55866048203hypothetical protein 
34Psyr_49805905568..5905888 [-], 32166048204hypothetical protein 
35Psyr_49815906424..5907503 [+], 108066048205hypothetical protein 
36Psyr_49825907500..5908228 [+], 72966048206hypothetical protein 
37Psyr_49835908301..5910145 [+], 184566048207Rhs element Vgr protein  TssI
38Psyr_49845910157..5910738 [+], 58266048208hypothetical protein 
39Psyr_49855910773..5911240 [+], 46866048209hypothetical protein 
40Psyr_49865911246..5915475 [+], 423066048210YD repeat-containing protein  PAAR
41Psyr_49875915482..5916090 [+], 60966048211hypothetical protein 
42Psyr_49885916253..5917695 [+], 144366048212YD repeat-containing protein 
43Psyr_49895917683..5918153 [+], 47166048213hypothetical 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.
 







Homology Effector list
Psyr_4965

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1Psyr_49655889737..5890255 [+], 51966048189hypothetical protein Psyr_4965
Data from experimental literature

Download FASTA format files
Proteins        Genes
N/A
Regulatory element identified
RetS
RegulatorDescriptionReference
RetS (Psyr_4408)RepressorPMID: 20472799

LadS
RegulatorDescriptionReference
LadS (Psyr_4339)ActivatorPMID: 20472799

GacS
RegulatorDescriptionReference
GacS (Psyr_3698)ActivatorPMID: 20472799

(1) 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
(2) Sarris PF et al. (2010). In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 11(6):795-804. [PudMed:21091602] in_silico
(3) Records AR et al. (2010). Sensor kinases RetS and LadS regulate Pseudomonas syringae type VI secretion and virulence factors. J Bacteriol. 192(14):3584-96. [PudMed:20472799] experimental
(4) 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
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation