I. Summary
SecReT6 ID206 insolico
StrainPseudomonas mendocina ymp
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i1
insolico Bioinformatics 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
1Pmen_008579640..80740 [-], 1101146305126TRAP dicarboxylate transporter subunit DctP 
2Pmen_008680925..81467 [+], 543146305127tripartite ATP-independent periplasmic transporter DctQ 
3Pmen_008781460..82836 [+], 1377146305128TRAP dicarboxylate transporter subunit DctM 
4Pmen_008882941..83843 [+], 903146305129aldose 1-epimerase 
5Pmen_008984279..85841 [+], 1563146305130ImpA domain-containing protein  TssA
6Pmen_009085896..86402 [+], 507146305131hypothetical protein  TssB
7Pmen_009186428..87906 [+], 1479146305132hypothetical protein  TssC
8Pmen_009287913..88341 [+], 429146305133GPW/gp25 family protein  TssE
9Pmen_009388331..89776 [+], 1446146305134hypothetical protein  PAAR
10Pmen_009489769..90155 [+], 387146305135hypothetical protein 
11Pmen_009590186..91976 [+], 1791146305136hypothetical protein  TssF
12Pmen_009691940..92947 [+], 1008146305137hypothetical protein  TssG
13Pmen_009792959..95559 [+], 2601146305138ATPase  TssH
14Pmen_009895546..97078 [+], 1533146305139Fis family transcriptional regulator  Sfa2
15Pmen_009997126..97260 [+], 135146305140hypothetical protein 
16Pmen_010097281..98477 [+], 1197146305141FHA domain-containing protein  Fha
17Pmen_010198483..98965 [+], 483146305142hypothetical protein  TssJ
18Pmen_010298962..100293 [+], 1332146305143hypothetical protein  TssK
19Pmen_0103100296..101177 [+], 882146305144hypothetical protein  TssL
20Pmen_0104101174..104713 [+], 3540146305145ImcF domain-containing protein  TssM
21Pmen_0105104713..105441 [+], 729146305146protein phosphatase 2C domain-containing protein  Stp1
22Pmen_0106105438..106409 [+], 972146305147protein kinase  Stk1
23Pmen_0107106434..108515 [+], 2082146305148Rhs element Vgr protein  TssI
24Pmen_0108108566..111730 [+], 3165146305149glycoside hydrolase 
25Pmen_0109111727..112542 [+], 816146305150hypothetical protein 
26Pmen_0110112621..113043 [+], 423146305151hypothetical 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.

(1) Sarris PF et al. (2011). Pseudomonas entomophila and Pseudomonas mendocina: potential models for studying the bacterial type VI secretion system. Infect Genet Evol. 11(6):1352-60. [PudMed:21600307] in_silico
(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
in_silico This literature contains bioinformatics investigation