SecReT6
I. Summary
SecReT6 ID24 insolico
StrainSalmonella enterica subsp. enterica serovar Typhi str. CT18
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_003198
Location296922..336058
Comment
FunctionN/A
T6SS TypeType i; subtype i3
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111121011
ComponentTssGTssJTssKTssM
Number1110
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1STY0276 (dkgB)292894..293697 [+], 804167592412,5-diketo-D-gluconate reductase B 
2STY0277 (yafC)293718..294632 [-], 91516759242transcriptional regulator 
3STY0278294737..295912 [+], 117616759243drug efflux protein 
4STY0279 (yafD)296065..296844 [+], 78016759244hypothetical protein 
5STY0280 (yafE)296922..297692 [+], 77116759245methyltransferase 
6STY0281 (mltD)297748..299115 [-], 136816759246membrane-bound lytic murein transglycosylase D 
7STY0282 (gloB)299187..299942 [-], 75616759247hydroxyacylglutathione hydrolase 
8STY0283299977..300699 [+], 72316759248hypothetical protein 
9STY0284 (rnhA)300696..301163 [-], 46816759249ribonuclease H 
10STY0285 (dnaQ)301227..301958 [+], 73216759250DNA polymerase III subunit epsilon 
11STY0286302488..303120 [-], 63316759251hypothetical protein  TssA
12STY0287303120..303542 [-], 42316759252hypothetical protein  TssA
13STY0288303553..304548 [-], 99616759253hypothetical protein  TssG
14STY0289304545..306428 [-], 188416759254hypothetical protein  TssF
15STY0290306444..306938 [-], 49516759255hypothetical protein  TssE
16STY0291306935..307759 [-], 82516759256hypothetical protein  TagJ
17STY0292307746..308648 [-], 90316759257hypothetical protein 
18STY0294309016..311679 [+], 266416759259ClpB-like protein  TssH
19STY0295311664..311762 [+], 9916759260hypothetical protein 
20STY0296311765..312055 [+], 29116759261hypothetical protein 
21STY0297312119..312661 [+], 54316759262hypothetical protein  TssB
22STY0300314246..314647 [+], 40216759263hypothetical protein  STY0300 (e)
23STY0301314619..315044 [+], 42616759264hypothetical protein  STY0301 (i)
24STY0302315281..315766 [+], 48616759265hypothetical protein  TssD
25STY0303315833..316369 [+], 53716759266lipoprotein  TssJ
26STY0304316373..317716 [+], 134416759267hypothetical protein  TssK
27STY0305317713..319014 [+], 130216759268hypothetical protein  TssL
28STY0306319019..319768 [+], 75016759269hypothetical protein 
29STY0307319800..320294 [+], 49516759270hypothetical protein 
30STY0310324392..325159 [+], 76816759271hypothetical protein 
31STY0311325202..325672 [+], 47116759272hypothetical protein 
32STY0312325657..326130 [+], 47416759273hypothetical protein 
33STY0313326234..326704 [+], 47116759274hypothetical protein 
34STY0314326689..327150 [+], 46216759275hypothetical protein 
35STY0316327278..327694 [+], 41716759276hypothetical protein 
36STY0317327721..328158 [+], 43816759277hypothetical protein 
37STY0318328166..328273 [+], 10816759278hypothetical protein 
38STY0319328636..330825 [+], 219016759279Rhs-family protein  TssI
39STY0320330849..331295 [+], 44716759280hypothetical protein 
40STY0321331314..335378 [+], 406516759281Rhs-family protein  PAAR
41STY0322335381..336058 [+], 67816759282hypothetical protein 
42STY0323336077..336370 [+], 29416759283hypothetical protein 
43STY0324336466..338997 [+], 253216759284Rhs-family protein 
44STY0326339076..339336 [+], 26116759285hypothetical protein 
45STY0327339338..339781 [+], 44416759286hypothetical protein 
46STY0328339851..340156 [-], 30616759287hypothetical 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

Download FASTA format files
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
STY0300 , SciK, STY2606, Hcp

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1STY0300314246..314647 [+], 40216759263hypothetical protein STY0300
2STY0302315281..315766 [+], 48616759265hypothetical protein SciK
3STY26062441934..2442302 [+], 36916761300hypothetical protein STY2606
4STY33003146822..3147307 [-], 48616761909hypothetical protein Hcp

Download FASTA format files
Proteins        Genes

Homology Immunity protein list
STY0301, STY2607

Immunity protein identified
#Locus tag(Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1STY0301314619..315044 [+], 42616759264hypothetical protein STY0301
2STY26072442302..2442820 [+], 51916761301lipoprotein STY2607

Download FASTA format files
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

Genomics & Bioinformatics Group in MML, SJTU