SecReT6
I. Summary
SecReT6 ID42 experimental
StrainPseudomonas syringae pv. tomato str. DC3000
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_004578
Location6149242..6189243
CommentGrowth suppression of yeast; Growth inhibition of E. coli
Functionanti-eukaryotic and anti-bacterial; effector translocation;virulence
T6SS TypeType i; subtype i1
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111211111
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSPTO_RS279756144860..6145018 [-], 1591790189661hypothetical protein 
2PSPTO_RS279806145158..6145379 [+], 222815831091hypothetical protein 
3PSPTO_RS279856145421..6146974 [-], 1554489504318IS66-like element ISPsy5 family transposase 
4PSPTO_RS27990 (tnpB)6146992..6147348 [-], 3571167802287IS66 family insertion sequence element accessory protein TnpB 
5PSPTO_RS279956147780..6148190 [-], 4111736666801hypothetical protein 
6PSPTO_RS280006148403..6149239 [-], 837919190759hypothetical protein 
7PSPTO_RS280056149242..6150270 [-], 1029815831435hypothetical protein 
8PSPTO_RS280106152531..6153547 [-], 1017499418011sel1 repeat family protein 
9PSPTO_RS280156153553..6155589 [-], 2037499418012type VI secretion system tip protein VgrG 
10PSPTO_RS280206155611..6156618 [-], 1008815831502serine/threonine protein kinase 
11PSPTO_RS280256156615..6157343 [-], 729499418014serine/threonine-protein phosphatase 
12PSPTO_RS28030 (tssM)6157343..6160870 [-], 3528815831506type VI secretion system membrane subunit TssM 
13PSPTO_RS280356160884..6161759 [-], 876499418016type IVB secretion system protein IcmH/DotU 
14PSPTO_RS28040 (tssK)6161765..6163096 [-], 1332499418017type VI secretion system baseplate subunit TssK 
15PSPTO_RS28045 (tssJ)6163099..6163599 [-], 501499418018type VI secretion system lipoprotein TssJ 
16PSPTO_RS28050 (tagH)6163605..6164801 [-], 1197499418019type VI secretion system-associated FHA domain protein TagH 
17PSPTO_RS280556164819..6164959 [-], 141516298730hypothetical protein 
18PSPTO_RS280606165047..6166564 [-], 1518499418021sigma-54-dependent Fis family transcriptional regulator 
19PSPTO_RS28065 (tssH)6166575..6169223 [-], 2649499418022type VI secretion system ATPase TssH 
20PSPTO_RS28070 (tssG)6169237..6170244 [-], 1008499418023type VI secretion system baseplate subunit TssG 
21PSPTO_RS28075 (tssF)6170208..6171995 [-], 1788815831503type VI secretion system baseplate subunit TssF 
22PSPTO_RS300806171985..6172587 [-], 6031919624329hypothetical protein 
23PSPTO_RS280856172574..6172951 [-], 378815831504hypothetical protein 
24PSPTO_RS280906173232..6174209 [-], 978494457842IS5-like element ISPssy family transposase 
25PSPTO_RS280956174382..6174792 [-], 411499418025hypothetical protein 
26PSPTO_RS281006174792..6175730 [-], 939499418026hypothetical protein 
27PSPTO_RS281056175762..6176286 [-], 525489508827PAAR domain-containing protein 
28PSPTO_RS28110 (tssE)6176297..6176704 [-], 408499418027type VI secretion system baseplate subunit TssE 
29PSPTO_RS28115 (tssC)6176718..6178196 [-], 1479499418028type VI secretion system contractile sheath large subunit 
30PSPTO_RS28120 (tssB)6178225..6178731 [-], 507499418029type VI secretion system contractile sheath small subunit 
31PSPTO_RS28125 (tssA)6178764..6180320 [-], 1557499418030type VI secretion system protein TssA 
32PSPTO_RS281306181106..6181624 [+], 519499418031Hcp family type VI secretion system effector 
33PSPTO_RS281356181756..6183798 [+], 2043499418032type VI secretion system tip protein VgrG 
34PSPTO_RS281406183788..6184525 [+], 738815830831DUF4123 domain-containing protein 
35PSPTO_RS281456184525..6188772 [+], 4248pseudogeneRHS repeat protein 
36PSPTO_RS281506189252..6189704 [+], 4531736666797hypothetical protein 
37PSPTO_RS281556189745..6190467 [+], 723pseudogeneRHS domain-containing protein 
38PSPTO_RS281606190597..6191574 [-], 978494457842IS5-like element ISPssy family transposase 
39PSPTO_RS281656191746..6192036 [+], 291639513835hypothetical protein 
40PSPTO_RS281706192157..6192696 [+], 540pseudogeneRHS domain-containing protein 
41PSPTO_RS281756193248..6193586 [+], 339919190734hypothetical protein 
42PSPTO_RS281806193769..6194122 [+], 354pseudogeneRHS repeat 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
PSPTO_5435

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog

Download FASTA format files
Proteins        Genes
N/A
(1) Haapalainen M et al. (2012). Hcp2, a Secreted Protein of the Phytopathogen Pseudomonas syringae pv. Tomato DC3000, Is Required for Fitness for Competition against Bacteria and Yeasts. J Bacteriol. 194(18):4810-22. [PudMed:22753062] experimental
(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
(3) 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
(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