I. Summary
SecReT6 ID90 insolico
StrainShigella sonnei Ss046
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
1SSON_0221 (dkgB)245604..246407 [+], 804743108222,5-diketo-D-gluconate reductase B 
2SSON_0222 (yafC)246404..247318 [-], 91574310823LysR family transcriptional regulator 
3SSON_0223 (yafD)247559..248359 [+], 80174310824hypothetical protein 
4SSON_0224 (yafE)248363..248986 [+], 62474310825biotin synthesis protein 
5SSON_0225 (mltD)249035..250393 [-], 135974310826membrane-bound lytic murein transglycosylase D 
6SSON_0226 (gloB)250465..251220 [-], 75674310827hydroxyacylglutathione hydrolase 
7SSON_0227 (yafS)251236..251976 [+], 74174310828hypothetical protein 
8SSON_0228 (rnhA)251973..252440 [-], 46874310829ribonuclease H 
9SSON_0229 (dnaQ)252505..253236 [+], 73274310830DNA polymerase III subunit epsilon 
10SSON_0231 (yafT)253775..254560 [+], 78674310831aminopeptidase 
11SSON_0232 (yafU)255186..255524 [-], 33974310832hypothetical protein 
12SSON_0233256165..256647 [-], 48374310833Hcp-like protein  TssD
13SSON_0234256671..258023 [-], 135374310834hypothetical protein  TssA
14SSON_0235258034..258720 [-], 68774310835hypothetical protein  TssM
15SSON_0236258757..259932 [-], 117674310836hypothetical protein  TssM
16SSON_0237259945..260850 [-], 906161986585insertion element IS2 transposase InsD 
17SSON_0238260808..261173 [-], 36674310838insertion sequence 2 OrfA protein 
18SSON_0239261215..262894 [-], 168074310839hypothetical protein  TssM
19SSON_0240262913..264325 [-], 141374310840hypothetical protein  TssA
20SSON_0241264330..265022 [-], 69374310841hypothetical protein 
21SSON_0242265070..267529 [-], 246074310842ATP-dependent Clp proteinase ATP-binding chain  TssH
22SSON_0243267548..267847 [-], 30074310843hypothetical protein 
23SSON_0244267856..268617 [-], 76274310844hypothetical protein  TssL
24SSON_0245268622..269410 [-], 78974310845cytoplasmic protein  TssK
25SSON_0246269403..269912 [-], 51074310846hypothetical protein  TssK
26SSON_0247269954..270478 [-], 52574310847lipoprotein  TssJ
27SSON_0248270475..271755 [-], 128174310848hypothetical protein  Fha
28SSON_0249271780..272862 [-], 108374310849hypothetical protein  TssG
29SSON_0250272826..274676 [-], 185174310850hypothetical protein  TssF
30SSON_0251275100..275648 [-], 54974310851hypothetical protein  TssC
31SSON_0252275685..276575 [-], 89174310852cytoplasmic protein  TssC
32SSON_0253276626..276850 [-], 22574310853hypothetical protein 
33SSON_0254276885..277385 [-], 50174310854hypothetical protein  TssB
34SSON_0255278082..278600 [+], 51974310855hemolysin co-regulated protein  TssD
35SSON_0256 (vgrG)278810..280951 [+], 214274310856Rhs element protein  TssI
36SSON_0257281027..285235 [+], 420974310857rhs core protein with extension  PAAR
37SSON_0258285247..285696 [+], 45074310858hypothetical protein 
38SSON_0259 (ybfL)286237..287094 [+], 85874310859receptor protein 
39SSON_0260 (yhhI)288388..289524 [+], 113774310860receptor 
40SSON_0261 (yafV)289566..290336 [-], 77174310861hypothetical 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.

Homology Effector list

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SSON_0255278082..278600 [+], 51974310855hemolysin co-regulated protein ECA4275

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Proteins        Genes
(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