SecReT6
I. Summary
SecReT6 ID147 insolico
StrainRhizobium leguminosarum bv. viciae 3841
Repliconplasmid pRL12 [Browse all T6SS(s) in this replicon]
AccessionNC_008378
Location491368..527630
Comment
FunctionN/A
T6SS TypeType i; subtype i5
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number011111211
ComponentTssGTssJTssKTssM
Number1011
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1pRL120452487612..488223 [-], 612116249117putative transmembrane protein 
2pRL120453488239..490116 [-], 1878116249118putative transcriptional regulatory protein 
3pRL120454490221..490511 [-], 291116249119putative transmembrane protein 
4pRL120455490583..491272 [-], 690116249120putative isochorismatase family protein 
5pRL120456491368..492300 [-], 933116249121putative dioxygenase 
6pRL120457492421..493320 [+], 900116249122LysR family transcriptional regulator 
7pRL120458493557..493889 [-], 333116249123hypothetical protein 
8pRL120459493892..494557 [-], 666116249124hypothetical protein 
9pRL120460494565..494912 [-], 348116249125hypothetical protein 
10pRL120461495175..496314 [+], 1140116249126putative capsule polysaccharide export protein 
11pRL120462 (impN)496311..497225 [-], 915116249127putative serine/threonine-protein kinase involved in nitrogen fixation 
12pRL120463 (impM)497215..498588 [-], 1374116249128putative protein involved in nitrogen fixation 
13pRL120464 (impL)498599..502075 [-], 3477116249129ImcF family transmembrane protein involved in nitrogen fixation  TssM
14pRL120465 (impK)502072..503604 [-], 1533116249130putative outer membrane porin involved in nitrogen fixation  TssL
15pRL120466 (impJ)503601..504941 [-], 1341116249131hypothetical protein  TssK
16pRL120467 (impI)504931..506130 [-], 1200116249132FHA domain-containing protein  Fha
17pRL120468 (impH)506142..507143 [-], 1002116249133hypothetical protein  TssG
18pRL120469 (impG)507164..508945 [-], 1782116249134hypothetical protein  TssF
19pRL120470 (impF)508938..509447 [-], 510116249135hypothetical protein  TssE
20pRL120471 (impE)509440..510270 [-], 831116249136putative virulence-island/protein involved in nitrogen fixation  TagJ
21pRL120472 (impD)510267..511655 [-], 1389116249137hypothetical protein  TssC
22pRL120473 (impC)511731..513212 [-], 1482116249138putative virulence-island/protein involved in nitrogen fixation  TssC
23pRL120474 (impB)513343..513888 [-], 546116249139hypothetical protein  TssB
24pRL120475 (impA)513925..514917 [-], 993116249140hypothetical protein  TssA
25pRL120477517603..518079 [+], 477116249141hypothetical protein  TssD
26pRL120478518229..519305 [+], 1077116249142putative transmembrane protein 
27pRL120479519351..520244 [+], 894116249143hypothetical protein 
28pRL120480520276..522540 [+], 2265116249144putative fimbrial operon related protein  TssI
29pRL120481522554..523663 [+], 1110116249145hypothetical protein 
30pRL120482523660..525162 [+], 1503116249146hypothetical protein 
31pRL120483525159..526274 [+], 1116116249147hypothetical protein 
32pRL120484526530..527630 [+], 1101116249148hypothetical protein 
33pRL120485527666..528412 [+], 747116249149hypothetical protein 
34pRL120486528409..529587 [+], 1179116249150hypothetical protein 
35pRL120487529643..531088 [-], 1446116249151putative salicylaldehyde dehydrogenase 
36pRL120488531112..531915 [-], 8041162491523-alpha-hydroxysteroid dehydrogenase 
 
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
Atu4345 , RbsB

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1pRL120477517603..518079 [+], 477116249141hypothetical protein Atu4345
2RL2721(rbsB)2879719..2880648 [+], 930116252468D-ribose-binding protein component of ABC transporter RbsB

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Proteins        Genes
N/A
(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