SecReT6
I. Summary
SecReT6 ID161 experimental
StrainAzoarcus sp. BH72
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_008702
Location4242264..4289066
CommentThe T6SS mutant appeared to be a better rice root colonizer as compared with the wild type.
Functioneffector translocation
T6SS TypeType i; subtype i3
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number121111111
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1azo38664238668..4239555 [-], 888119900155hypothetical protein 
2azo3867 (acoA2)4239989..4240999 [+], 1011119900156acetoin dehydrogenase subunit alpha 
3azo3868 (acoB2)4241016..4242053 [+], 1038119900157acetoin dehydrogenase subunit beta 
4azo38694242264..4242509 [+], 246119900158hypothetical protein 
5azo38704242513..4243226 [+], 714119900159hypothetical protein 
6azo38714243226..4243996 [+], 771119900160putative lipoate protein ligase 
7azo38724244062..4244643 [+], 582119900161hypothetical protein 
8azo38734244733..4246307 [+], 1575119900162putative glucase dehydrogenase subunit alpha 
9azo38744246369..4246983 [+], 615119900163hypothetical protein 
10azo38754247215..4249182 [+], 1968119900164sigma-54-dependent transcriptional regulator  Sfa3
11azo38764249321..4251393 [+], 2073119900165hypothetical protein  TssI
12azo38774251398..4252432 [+], 1035119900166hypothetical protein 
13azo38784252437..4253474 [+], 1038119900167hypothetical protein 
14azo38794253497..4254504 [+], 1008119900168hypothetical protein 
15azo38804254527..4255069 [+], 543119900169hypothetical protein 
16azo38814255159..4255536 [+], 378119900170hypothetical protein  PAAR
17azo38824255546..4255974 [+], 429119900171hypothetical protein 
18azo38834255979..4257190 [+], 1212119900172hypothetical protein 
19azo38844257210..4259045 [+], 1836119900173regulatory protein  Fha
20azo38854259097..4259867 [+], 771119900174putative phosphoprotein phosphatase 
21azo38864259941..4260594 [+], 654119900175hypothetical protein 
22azo38874260635..4261894 [+], 1260119900176hypothetical protein 
23azo38884261940..4263946 [-], 2007119900177putative serine/threonine kinase 
24azo38894264005..4264706 [-], 702119900178hypothetical protein 
25azo3890 (imcF)4264709..4268281 [-], 3573119900179ImcF-like protein  TssM
26azo3891 (ompA2)4268313..4269617 [-], 1305119900180hypothetical protein  TssL
27azo3892 (impJ)4269682..4271016 [-], 1335119900181hypothetical protein  TssK
28azo38934271065..4271583 [-], 519119900182hypothetical protein  TssJ
29azo3894 (sciA)4271852..4272913 [+], 1062119900183putative cytoplasmic protein  TssA
30azo3895 (sciH)4272962..4273471 [+], 510119900184hypothetical protein  TssB
31azo3896 (sciI)4273523..4275019 [+], 1497119900185hypothetical protein  TssC
32azo3897 (sciM)4275148..4275636 [+], 489119900186hypothetical protein  TssD
33azo3898 (sciK)4275831..4276337 [+], 507119900187hypothetical protein  TssD
34azo3899 (sciE)4276353..4277174 [+], 822119900188hypothetical protein  TagJ
35azo3900 (sciD)4277167..4277676 [+], 510119900189hypothetical protein  TssE
36azo3901 (sciC)4277775..4279646 [+], 1872119900190hypothetical protein  TssF
37azo3902 (sciB)4279622..4280665 [+], 1044119900191hypothetical protein  TssG
38azo3903 (clpB2)4280714..4283434 [+], 2721119900192putative ATP-dependent Clp protease, ATP-binding subunit ClpB  TssH
39azo39044283535..4283924 [+], 390119900193hypothetical protein 
40azo39054283936..4285093 [+], 1158119900194putative lipase family protein 
41azo39064285131..4286267 [+], 1137119900195hypothetical protein 
42azo39074286286..4287635 [+], 1350119900196hypothetical protein 
43azo39084287636..4289066 [-], 1431119900197putative serine/threonine protein kinase 
44azo3909 (mnsA)4289077..4289949 [-], 873119900198sensor protein 
45azo39104290002..4290928 [-], 927119900199hypothetical protein 
46azo3911 (fabF2)4291053..4292258 [+], 12061199002003-oxoacyl-ACP synthase 
47azo39124292263..4293090 [+], 828119900201hypothetical protein 
48azo39134293087..4293596 [+], 510119900202hypothetical 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
PA0085

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1azo3897(sciM)4275148..4275636 [+], 489119900186hypothetical protein PA0085
Data from experimental literature

Download FASTA format files
Proteins        Genes
N/A
Regulatory element identified
azo3888
RegulatorDescriptionReference
azo3888ActivatorPMID: 22616609

(1) Shidore T et al. (2012). Transcriptomic analysis of responses to exudates reveal genes required for rhizosphere competence of the endophyte Azoarcus sp. strain BH72. Environ Microbiol. 14(10):2775-87. [PudMed:22616609] experimental 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
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation

Genomics & Bioinformatics Group in MML, SJTU