SecReT6
I. Summary
SecReT6 ID85 insolico
StrainSalmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_006905
Location295006..331820
Comment
FunctionN/A
T6SS TypeType i; subtype i3
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number011111111
ComponentTssGTssJTssKTssM
Number1111
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1SC0251 (dkgB)290977..291780 [+], 804621788212,5-diketo-D-gluconate reductase B 
2SC0252 (yafC)291802..292716 [-], 91562178822LysR family transcriptional regulator 
3SC0253 (ydhP)292821..293996 [+], 117662178823drug efflux protein 
4SC0254 (yafD)294128..294928 [+], 80162178824hypothetical protein 
5SC0255 (yafE)295006..295776 [+], 77162178825methyltransferase in menaquinone/biotin biosynthesis 
6SC0256 (mltD)295832..297199 [-], 136862178826membrane-bound lytic murein transglycosylase D 
7SC0257 (gloB)297271..298026 [-], 75662178827hydroxyacylglutathione hydrolase 
8SC0258 (yafS)298061..298783 [+], 72362178828hypothetical protein 
9SC0259 (rnhA)298780..299247 [-], 468162139612ribonuclease H 
10SC0260 (dnaQ)299302..300042 [+], 74162178830DNA polymerase III subunit epsilon 
11SC0261300574..301629 [-], 105662178831hypothetical protein  TssA
12SC0262301640..302635 [-], 99662178832hypothetical protein  TssG
13SC0263302632..304515 [-], 188462178833hypothetical protein  TssF
14SC0264304531..305025 [-], 49562178834hypothetical protein  TssE
15SC0265305022..305771 [-], 75062178835hypothetical protein  TagJ
16SC0266305833..306735 [-], 90362178836hypothetical protein 
17SC0268309841..310383 [+], 54362178838hypothetical protein  TssB
18SC0269 (sirA)310407..311915 [+], 150962178839hypothetical protein  TssC
19SC0270311982..312368 [+], 38762178840hypothetical protein 
20SC0271312381..312827 [+], 44762178841hypothetical protein 
21SC0272313079..313564 [+], 48662178842hypothetical protein  TssD
22SC0273313631..314167 [+], 53762178843outer membrane lipoprotein  TssJ
23SC0274314171..315514 [+], 134462178844hypothetical protein  TssK
24SC0275315511..316815 [+], 130562178845hypothetical protein  TssL
25SC0276316820..317593 [+], 77462178846inner membrane protein 
26SC0277317783..318226 [+], 44462178847shiga-like toxin A subunit 
27SC0278318260..322129 [+], 387062178848inner membrane protein  TssM
28SC0279322129..322917 [+], 78962178849hypothetical protein 
29SC0280322914..323330 [+], 41762178850hypothetical protein 
30SC0281323354..323875 [+], 52262178851hypothetical protein 
31SC0282324271..326505 [+], 223562178852Rhs-family protein  TssI
32SC0283326517..327023 [+], 50762178853hypothetical protein 
33SC0284 (rhs)327039..331820 [+], 478262178854Rhs-family protein  PAAR
34SC0285331839..332147 [+], 30962178855hypothetical protein 
35SC0286 (yjiW)332206..332463 [-], 25862178856hypothetical protein 
36SC0287333900..334367 [+], 46862178857hypothetical protein 
37SC0288334610..334963 [+], 35462178858hypothetical protein 
38SC0289335030..335344 [-], 31562178859hypothetical protein 
39SC0290335477..335617 [-], 14162178860hypothetical protein 
40SC0291335820..336101 [+], 28262178861integrase core subunit 
 
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
SciK , STY2606, Hcp

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SC0272313079..313564 [+], 48662178842hypothetical protein SciK
2SC23772501325..2501693 [+], 36962180947hypothetical protein STY2606
3SC30713250460..3250945 [-], 48662181641hypothetical protein Hcp

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Proteins        Genes

Homology Immunity protein list
STY2607

Immunity protein identified
#Locus tag(Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1SC23782501693..2502211 [+], 51962180948hypothetical protein STY2607

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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