SecReT6
I. Summary
SecReT6 ID41 insolico
StrainPseudomonas syringae pv. tomato str. DC3000
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_004578
Location2796816..2829435
Comment
FunctionN/A
T6SS TypeType i; subtype i1
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111101111
ComponentTssGTssJTssKTssM
Number1111
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSPTO_25282792008..2792637 [-], 63028869721membrane protein 
2PSPTO_25292793112..2793453 [-], 34228869722FKBP-type peptidyl-prolyl cis-trans isomerase 
3PSPTO_25302793450..2793578 [-], 12928869723hypothetical protein 
4PSPTO_25312793591..2793875 [-], 28528869724hypothetical protein 
5PSPTO_25322794541..2796109 [+], 156928869725membrane protein, TerC family 
6PSPTO_25332796179..2796754 [-], 57628869726GNAT family acetyltransferase 
7PSPTO_25342796816..2797496 [-], 68128869727hypothetical protein 
8PSPTO_25352797493..2800933 [-], 344128869728hypothetical protein 
9PSPTO_25362800881..2801324 [-], 44428869729hypothetical protein 
10PSPTO_25372801296..2801763 [-], 46828869730hypothetical protein 
11PSPTO_25382801756..2803798 [-], 204328869731Rhs element Vgr protein  TssI
12PSPTO_2539 (hcp-1)2803874..2804389 [-], 51628869732secreted protein Hcp  TssD
13PSPTO_25412806011..2806988 [-], 97828869733ISPssy, transposase 
14PSPTO_25432807665..2808165 [+], 50128869734hypothetical protein  TssB
15PSPTO_25442808195..2809670 [+], 147628869735hypothetical protein  TssC
16PSPTO_25452809686..2810093 [+], 40828869736hypothetical protein  TssE
17PSPTO_25462810191..2811978 [+], 178828869737hypothetical protein  TssF
18PSPTO_25472811942..2812949 [+], 100828869738hypothetical protein  TssG
19PSPTO_25482812959..2815562 [+], 260428869739clpB protein  TssH
20PSPTO_25492815564..2817093 [+], 153028869740sigma-54 dependent transcriptional regulator  Sfa2
21PSPTO_25502817143..2817283 [+], 14128869741hypothetical protein 
22PSPTO_25512817337..2817828 [+], 49228869742hypothetical protein  TssJ
23PSPTO_25522817858..2819156 [+], 129928869743hypothetical protein  TssK
24PSPTO_25532819156..2820028 [+], 87328869744hypothetical protein  TssL
25PSPTO_25542820042..2823548 [+], 350728869745hypothetical protein  TssM
26PSPTO_2555 (phnC)2823826..2824659 [+], 83428869746phosphonates ABC transporter ATP-binding protein 
27PSPTO_2556 (phnD)2824697..2825707 [+], 101128869747phosphonates ABC transporter periplasmic phosphonates-binding protein 
28PSPTO_2557 (phnE)2825735..2826523 [+], 78928869748phosphonates ABC transporter permease 
29PSPTO_2558 (phnF)2826562..2827281 [+], 72028869749transcriptional regulator PhnF 
30PSPTO_2559 (phnG)2827296..2827760 [+], 46528869750phosphonate metabolism protein PhnG 
31PSPTO_2560 (phnH)2827760..2828356 [+], 59728869751PhnH protein 
32PSPTO_2561 (phnI)2828356..2829435 [+], 108028869752phosphonate metabolism protein PhnI 
33PSPTO_2562 (phnJ)2829432..2830319 [+], 88828869753phosphonate metabolism protein PhnJ 
34PSPTO_25632830316..2831137 [+], 82228869754phosphonate C-P lyase system protein PhnK 
35PSPTO_25642831170..2831886 [+], 71728869755phosphonate ABC transporter ATPase 
36PSPTO_25652831880..2833025 [+], 114628869756phosphonate metabolism protein PhnM 
37PSPTO_2566 (phnN)2833025..2833591 [+], 56728869757ATP-binding protein PhnN 
38PSPTO_25672833582..2834331 [+], 75028869758phosphonate metabolism protein, PhnP 
 
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.
 






N/A
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