I. Summary
SecReT6 ID79 insolico
StrainSalmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i3
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
1SPA24652564946..2565227 [-], 28256414580hypothetical protein 
2SPA24662565453..2565650 [-], 19856414581hypothetical protein 
3SPA24672565703..2566017 [+], 31556414582hypothetical protein 
4SPA24692568786..2569097 [-], 31256414583hypothetical protein 
5SPA24702569117..2571960 [-], 284456414584Rhs-family protein 
6SPA24712574363..2576609 [-], 224756414585hypothetical protein  TssI
7SPA24722576641..2577102 [-], 46256414586hypothetical protein 
8SPA24732577104..2577847 [-], 74456414587hypothetical protein 
9SPA24742577932..2578393 [-], 46256414588hypothetical protein 
10SPA24752578378..2578848 [-], 47156414589hypothetical protein 
11SPA24762578952..2579425 [-], 47456414590hypothetical protein 
12SPA24782579922..2580689 [-], 76856414591hypothetical protein 
13SPA24792580689..2584549 [-], 386156414592hypothetical protein  TssM
14SPA24802584583..2585014 [-], 43256414593shiga-like toxin A subunit 
15SPA24812585216..2585989 [-], 77456414594hypothetical protein 
16SPA24822585994..2587298 [-], 130556414595hypothetical protein  TssL
17SPA24832587295..2588638 [-], 134456414596hypothetical protein  TssK
18SPA24842588642..2589178 [-], 53756414597lipoprotein  TssJ
19SPA24852589246..2589731 [-], 48656414598hypothetical protein  TssD
20SPA24862589874..2590257 [-], 38456414599periplasmic protein  STM0278 (i)
21SPA24872590242..2590727 [-], 48656414600cytoplasmic protein  STM0277 (e)
22SPA24882590838..2590954 [-], 11756414601hypothetical protein 
23SPA24892591021..2591506 [-], 48656414602hypothetical protein  TssD
24SPA24902591758..2592090 [-], 33356414603cytoplasmic protein 
25SPA24912592217..2592342 [-], 12656414604hypothetical protein 
26SPA24922592670..2594178 [-], 150956414605hypothetical protein  TssC
27SPA24932594202..2594744 [-], 54356414606hypothetical protein  TssB
28SPA24942594806..2595096 [-], 29156414607hypothetical protein 
29SPA24952595099..2595197 [-], 9956414608hypothetical protein 
30SPA24962595182..2597845 [-], 266456414609ClpB-like protein  TssH
31SPA24972598133..2598204 [+], 7256414610hypothetical protein 
32SPA24992599102..2599926 [+], 82556414611hypothetical protein  TagJ
33SPA25002599923..2600417 [+], 49556414612hypothetical protein  TssE
34SPA25012600433..2602316 [+], 188456414613hypothetical protein  TssF
35SPA25022602313..2603308 [+], 99656414614hypothetical protein  TssG
36SPA25032603319..2604362 [+], 104456414615cytoplasmic protein  TssA
37SPA2505 (dnaQ)2604893..2605624 [-], 73256414616DNA polymerase III subunit epsilon 
38SPA2506 (rnhA)2605688..2606155 [+], 46856414617ribonuclease H 
39SPA2507 (yafS)2606152..2606874 [-], 72356414618hypothetical protein 
40SPA2508 (gloB)2606909..2607664 [+], 75656414619hydroxyacylglutathione hydrolase 
41SPA2509 (mltD)2607736..2609103 [+], 136856414620membrane-bound lytic murein transglycosylase D 
42SPA2510 (yafE)2609159..2609929 [-], 77156414621methyltransferase 
43SPA2511 (yafD)2610007..2610786 [-], 78056414622hypothetical protein 
44SPA25122610939..2612114 [-], 117656414623drug efflux protein 
45SPA2513 (yafC)2612219..2613133 [+], 91556414624transcriptional regulator 
46SPA2514 (dkgB)2613155..2613958 [-], 804564146252,5-diketo-D-gluconate reductase B 
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
STY2606 , SciK, STM0277, SciK, Hcp

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SPA0489560626..560994 [-], 36956412728hypothetical protein STY2606
2SPA24852589246..2589731 [-], 48656414598hypothetical protein SciK
3SPA24872590242..2590727 [-], 48656414600cytoplasmic protein STM0277
4SPA24892591021..2591506 [-], 48656414602hypothetical protein SciK
5SPA29993099798..3100283 [-], 48656415073hypothetical protein Hcp

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Proteins        Genes

Homology Immunity protein list
STY2607, STM0278

Immunity protein identified
#Locus tag(Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SPA0488560108..560626 [-], 51956412727lipoprotein STY2607
2SPA24862589874..2590257 [-], 38456414599periplasmic protein STM0278

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Proteins        Genes
(1) Blondel CJ et al. (2009). Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes. BMC Genomics. 10:354. [PudMed:19653904] in_silico
(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
in_silico This literature contains bioinformatics investigation