I. Summary
SecReT6 ID36 insolico
StrainShigella flexneri 2a str. 301
Repliconchromosome [Browse all T6SS(s) in this replicon]
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
1SF0192 (dkgB)220422..221225 [+], 804241116372,5-diketo-D-gluconate reductase B 
2SF0193221264..222610 [-], 134724111638IS4 ORF 
3SF0194 (yafC)222660..223574 [-], 91524111639LysR family transcriptional regulator 
4SF0195 (yafD)223815..224615 [+], 80124111640hypothetical protein 
5SF0196 (yafE)224843..225463 [+], 62156479624biotin synthase 
6SF0197 (mltD)225511..226857 [-], 134756479625membrane-bound lytic murein transglycosylase D 
7SF0198 (gloB)226929..227684 [-], 75624111643hydroxyacylglutathione hydrolase 
8SF0199 (yafS)227715..228440 [+], 72624111644hypothetical protein 
9SF0201 (rnhA)228437..229015 [-], 579344915216RNase HI 
10SF0200 (dnaQ)228969..229700 [+], 73256479626DNA polymerase III subunit epsilon 
11SF0202 (safA)230040..231086 [-], 104724111647cytoplasmic protein  TssA
12SF0203 (safB)231354..231659 [-], 30624111648periplasmic chaperone of fimbral assembly machinery  TssG
13SF0204 (safC)231656..233539 [-], 188424111649outer membrane usher protein  TssF
14SF0205233555..234049 [-], 49556479627cytoplasmic protein  TssE
15SF0206 (sat1)234244..234876 [-], 63356479628cytoplasmic protein  TagJ
16SF0207 (sat2)234863..235240 [-], 37824111652cytoplasmic protein 
17SF0208235478..235777 [-], 30024111653cytoplasmic protein 
18SF0209235830..236240 [+], 41124111654IS2 repressor TnpA 
19SF0210236198..237103 [+], 90624111655IS2 transposase TnpB 
20SF0211237160..237447 [-], 28824111656hypothetical protein 
21SF0212237461..237982 [-], 52224111657IS911 ORF2 
22SF0213237951..238301 [-], 35124111658IS911 ORF2 
23SF0214238328..238666 [-], 33924111659IS911 ORF1 
24SF0215238841..239743 [+], 90324111660terminase large subunit 
25SF0216239744..241909 [+], 216656479629packaging glycoprotein 
26SF0217241923..242834 [+], 91224111662scaffolding protein 
27SF0218242834..244129 [+], 129624111663coat protein 
28SF0219244174..244404 [+], 23156479630bacteriophage protein 
29SF0220244382..244882 [+], 50124111665DNA stabilization protein 
30SF0221244882..246300 [+], 141924111666packaged DNA stabilization 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) 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