SecReT6
I. Summary
SecReT6 ID45 insolico
StrainSalmonella enterica subsp. enterica serovar Typhi str. Ty2
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_004631
Location2645055..2683159
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
1t25632640957..2641262 [+], 30629142940hypothetical protein 
2t25642641332..2641775 [-], 44429142941hypothetical protein 
3t25652641777..2642037 [-], 26129142942hypothetical protein 
4t25662642116..2644647 [-], 253229142943Rhs-family protein 
5t25672644743..2645036 [-], 29429142944hypothetical protein 
6t25682645055..2645732 [-], 67829142945hypothetical protein 
7t25692645735..2649799 [-], 406529142946Rhs-family protein  PAAR
8t25702649818..2650264 [-], 44729142947hypothetical protein 
9t25712650288..2652477 [-], 219029142948Rhs-family protein  TssI
10t25722652840..2652947 [-], 10829142949hypothetical protein 
11t25732652955..2653392 [-], 43829142950hypothetical protein 
12t25742653419..2653835 [-], 41729142951hypothetical protein 
13t25752653963..2654424 [-], 46229142952hypothetical protein 
14t25762654409..2654879 [-], 47129142953hypothetical protein 
15t25772654922..2655689 [-], 76829142954hypothetical protein 
16t25792659787..2660281 [-], 49529142955hypothetical protein 
17t25802660313..2661062 [-], 75029142956hypothetical protein 
18t25812661067..2662368 [-], 130229142957hypothetical protein  TssL
19t25822662365..2663708 [-], 134429142958hypothetical protein  TssK
20t25832663712..2664248 [-], 53729142959lipoprotein  TssJ
21t25842664315..2664800 [-], 48629142960hypothetical protein  TssD
22t25852665037..2665462 [-], 42629142961hypothetical protein  STY0301 (i)
23t25862665434..2665835 [-], 40229142962hypothetical protein  STY0300 (e)
24t25882667420..2667962 [-], 54329142963hypothetical protein  TssB
25t25892668026..2668316 [-], 29129142964hypothetical protein 
26t25902668319..2668417 [-], 9929142965hypothetical protein 
27t25912668402..2671065 [-], 266429142966ClpB-like protein  TssH
28t25932671433..2672335 [+], 90329142968hypothetical protein 
29t25942672322..2673146 [+], 82529142969hypothetical protein  TagJ
30t25952673143..2673637 [+], 49529142970hypothetical protein  TssE
31t25972673653..2675536 [+], 188429142971hypothetical protein  TssF
32t25962675533..2676528 [+], 99629142972hypothetical protein  TssG
33t25982676539..2676961 [+], 42329142973hypothetical protein  TssA
34t25992676961..2677593 [+], 63329142974hypothetical protein  TssA
35t2601 (dnaQ)2678123..2678854 [-], 73229142975DNA polymerase III subunit epsilon 
36t2602 (rnhA)2678918..2679385 [+], 46829142976ribonuclease H 
37t26032679382..2680104 [-], 72329142977hypothetical protein 
38t2604 (gloB)2680139..2680894 [+], 75629142978hydroxyacylglutathione hydrolase 
39t2605 (mltD)2680966..2682333 [+], 136829142979membrane-bound lytic murein transglycosylase D 
40t2606 (yafE)2682389..2683159 [-], 77129142980methyltransferase 
41t2607 (yafD)2683237..2684016 [-], 78029142981hypothetical protein 
42t26082684169..2685344 [-], 117629142982drug efflux protein 
43t2609 (yafC)2685449..2686363 [+], 91529142983transcriptional regulator 
44t2610 (dkgB)2686384..2687187 [-], 804291429842,5-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, STY0300, Hcp

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1t0489562410..562778 [-], 36929141004hypothetical protein STY2606
2t25842664315..2664800 [-], 48629142960hypothetical protein SciK
3t25862665434..2665835 [-], 40229142962hypothetical protein STY0300
4t30523132317..3132802 [-], 48629143396hypothetical protein Hcp

Download FASTA format files
Proteins        Genes

Homology Immunity protein list
STY2607, STY0301

Immunity protein identified
#Locus tag(Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1t0488561892..562410 [-], 51929141003lipoprotein STY2607
2t25852665037..2665462 [-], 42629142961hypothetical protein STY0301

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