I. Summary
SecReT6 ID297 insolico
StrainSalmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601
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
1SSPA23072569899..2572145 [-], 2247197363515hypothetical protein  TssI
2SSPA23082572177..2572638 [-], 462197363516hypothetical protein 
3SSPA23092572640..2573383 [-], 744197363517hypothetical protein 
4SSPA23102573468..2573929 [-], 462197363518hypothetical protein 
5SSPA23112573914..2574384 [-], 471197363519hypothetical protein 
6SSPA23122574488..2574961 [-], 474197363520hypothetical protein 
7SSPA23132575458..2576225 [-], 768197363521hypothetical protein 
8SSPA23142576225..2580085 [-], 3861197363522inner membrane protein  TssM
9SSPA23152580119..2580550 [-], 432197363523shiga-like toxin A subunit 
10SSPA23162580752..2581525 [-], 774197363524hypothetical protein 
11SSPA23172581530..2582834 [-], 1305197363525hypothetical protein  TssL
12SSPA23182582831..2584174 [-], 1344197363526hypothetical protein  TssK
13SSPA23192584178..2584714 [-], 537197363527lipoprotein  TssJ
14SSPA23202584782..2585267 [-], 486197363528hypothetical protein  TssD
15SSPA23212585410..2585793 [-], 384197363529periplasmic protein  STM0278 (i)
16SSPA23222585778..2586263 [-], 486197363530cytoplasmic protein  STM0277 (e)
17SSPA23232586374..2586490 [-], 117197363531hypothetical protein 
18SSPA23242586557..2587042 [-], 486197363532hypothetical protein  TssD
19SSPA23252587294..2587626 [-], 333197363533cytoplasmic protein 
20SSPA23262588206..2589714 [-], 1509197363534hypothetical protein  TssC
21SSPA23272589738..2590280 [-], 543197363535hypothetical protein  TssB
22SSPA23282590342..2590632 [-], 291197363536hypothetical protein 
23SSPA23292590635..2590733 [-], 99197363537hypothetical protein 
24SSPA23302590718..2593381 [-], 2664197363538ClpB-like protein  TssH
25SSPA23312594638..2595462 [+], 825197363539hypothetical protein  TagJ
26SSPA23322595459..2595953 [+], 495197363540hypothetical protein  TssE
27SSPA23332595969..2597852 [+], 1884197363541hypothetical protein  TssF
28SSPA23342597849..2598844 [+], 996197363542hypothetical protein  TssG
29SSPA23352598855..2599898 [+], 1044197363543cytoplasmic protein  TssA
30SSPA23362600429..2601160 [-], 732197363544DNA polymerase III subunit epsilon 
31SSPA2337 (rnhA)2601224..2601691 [+], 468197363545ribonuclease H 
32SSPA23382601688..2602410 [-], 723197363546hypothetical protein 
33SSPA23392602445..2603200 [+], 756197363547hydroxyacylglutathione hydrolase 
34SSPA2340 (mltD)2603272..2604639 [+], 1368197363548membrane-bound lytic murein transglycosylase D 
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
1SSPA0453560660..561028 [-], 369197361662hypothetical protein STY2606
2SSPA23202584782..2585267 [-], 486197363528hypothetical protein SciK
3SSPA23222585778..2586263 [-], 486197363530cytoplasmic protein STM0277
4SSPA23242586557..2587042 [-], 486197363532hypothetical protein SciK
5SSPA27973095472..3095957 [-], 486197364002hypothetical 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
1SSPA0452560142..560660 [-], 519197361661lipoprotein STY2607
2SSPA23212585410..2585793 [-], 384197363529periplasmic 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
in_silico This literature contains bioinformatics investigation