SecReT6
I. Summary
SecReT6 ID15 insolico
StrainPseudomonas putida KT2440
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_002947
Location4590927..4618219
Comment
FunctionN/A
T6SS TypeType i; subtype i1
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number011001011
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PP_RS211004586132..4587814 [-], 1683499257316AMP-binding protein 
2PP_RS211054588136..4589299 [+], 1164489344165isovaleryl-CoA dehydrogenase 
3PP_RS211104589319..4590926 [+], 1608499257318propionyl-CoA carboxylase 
4PP_RS211154590930..4591745 [+], 816489344168gamma-carboxygeranoyl-CoA hydratase 
5PP_RS211204591742..4593694 [+], 1953499257319acetyl/propionyl/methylcrotonyl-CoA carboxylase subunit alpha 
6PP_RS211254593993..4594697 [-], 705499257320helix-turn-helix domain-containing protein 
7PP_RS211304594785..4595084 [+], 300499257321hypothetical protein 
8PP_RS211354595533..4596048 [+], 516499257322DUF4880 domain-containing protein 
9PP_RS21140 (tssM)4596182..4599808 [-], 3627499257323type VI secretion system membrane subunit TssM 
10PP_RS21145 (tssA)4599805..4601271 [-], 1467499257324type VI secretion system protein TssA 
11PP_RS21150 (tagO)4601259..4601891 [-], 633499257325type VI secretion system-associated protein TagO 
12PP_RS21155 (tssB)4602166..4602669 [+], 504499257326type VI secretion system contractile sheath small subunit 
13PP_RS21160 (tssC)4602687..4604174 [+], 1488pseudogenetype VI secretion system contractile sheath large subunit 
14PP_RS21165 (tssE)4604171..4604581 [+], 411499257327type VI secretion system baseplate subunit TssE 
15PP_RS21170 (tssF)4604585..4606351 [+], 1767499257328type VI secretion system baseplate subunit TssF 
16PP_RS21175 (tssG)4606315..4607331 [+], 1017499257329type VI secretion system baseplate subunit TssG 
17PP_RS21180 (tssJ)4607328..4608125 [+], 798499257330type VI secretion system lipoprotein TssJ 
18PP_RS21185 (tssK)4608175..4609512 [+], 1338489344200type VI secretion system baseplate subunit TssK 
19PP_RS21190 (icmH)4609514..4610389 [+], 876916468577type IVB secretion system protein IcmH/DotU 
20PP_RS211954610523..4611038 [+], 516499257332Hcp family type VI secretion system effector 
21PP_RS21200 (tssI)4611113..4613097 [+], 1985pseudogenetype VI secretion system tip protein VgrG 
22PP_RS212054613145..4613576 [+], 432499257333DUF1795 domain-containing protein 
23PP_RS212104613630..4618222 [+], 4593499257334RHS domain-containing protein 
24PP_RS212154618246..4618731 [+], 4861002826573SMI1/KNR4 family protein 
25PP_RS283604619179..4619610 [+], 4321818426227hypothetical protein 
26PP_RS212254619633..4619913 [+], 281pseudogenetransposase 
27PP_RS212304620991..4621407 [+], 4171002826574putative phosphotriesterase 
 
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
ECA4275

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog

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Proteins        Genes
N/A
Regulatory element identified
TurA
RegulatorDescriptionReference
TurA (PP_1366)Indirect repressorPMID: 19788653

(1) Barret M et al. (2011). Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology. 157(Pt 6):1726-39. [PudMed:21474537] 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