SecReT6
I. Summary
SecReT6 ID125 insolico
StrainPseudomonas entomophila L48
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_008027
Location532095..567218
Comment
FunctionN/A
T6SS TypeType i; subtype i1
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111111
ComponentTssGTssJTssKTssM
Number1111
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSEEN0512 (rpsK)527224..527613 [+], 39010477977830S ribosomal protein S11 
2PSEEN0513 (rpsD)527629..528249 [+], 62110477977930S ribosomal protein S4 
3PSEEN0514 (rpoA)528272..529273 [+], 1002104779780DNA-directed RNA polymerase subunit alpha 
4PSEEN0515 (rplQ)529316..529702 [+], 38710477978150S ribosomal protein L17 
5PSEEN0517 (katA)529875..531314 [+], 1440104779782catalase 
6PSEEN0518 (bfrA)531477..531941 [+], 465104779783bacterioferritin 
7PSEEN0519 (uvrA)532095..534929 [-], 2835104779784excinuclease ABC subunit A 
8PSEEN0520535059..536453 [+], 1395104779785major facilitator transporter 
9PSEEN0521 (ssb)536463..537005 [+], 543104779786single-stranded DNA-binding protein 
10PSEEN0522537545..539101 [+], 1557104779787hypothetical protein  TssA
11PSEEN0523539135..539635 [+], 501104779788hypothetical protein  TssB
12PSEEN0524539663..541135 [+], 1473104779789hypothetical protein  TssC
13PSEEN0525541145..541561 [+], 417104779790hypothetical protein  TssE
14PSEEN0526541647..543434 [+], 1788104779791hypothetical protein  TssF
15PSEEN0527543398..544405 [+], 1008104779792hypothetical protein  TssG
16PSEEN0528544418..547036 [+], 2619104779793ClpA/B-type protease  TssH
17PSEEN0529547047..548567 [+], 1521104779794sigma-54 dependent transcriptional regulator  Sfa2
18PSEEN0530548651..548791 [+], 141104779795hypothetical protein 
19PSEEN0531548810..549991 [+], 1182104779796hypothetical protein  Fha
20PSEEN0532549997..550503 [+], 507104779797hypothetical protein  TssJ
21PSEEN0533550500..551831 [+], 1332104779798hypothetical protein  TssK
22PSEEN0534551834..552703 [+], 870104779799hypothetical protein  TssL
23PSEEN0535552718..556245 [+], 3528104779800hypothetical protein  TssM
24PSEEN0536 (stp1)556245..556973 [+], 729104779801Serine/threonine phosphoprotein phosphatase Stp1  Stp1
25PSEEN0537 (stk1)556970..558028 [+], 1059104779802Serine-threonine kinase Stk1  Stk1
26PSEEN0539558507..559025 [+], 519104779803hemolysin co-regulated protein 1B  TssD
27PSEEN0540559133..562153 [+], 3021104779804hypothetical protein  TssI
28PSEEN0541562150..566832 [+], 4683104779805hypothetical protein 
29PSEEN0542566835..567218 [+], 384104779806hypothetical protein 
30PSEEN0543567371..567952 [+], 582104779807hypothetical protein 
31PSEEN0544568256..568594 [+], 339104779808hypothetical protein 
32PSEEN0545569056..569538 [+], 483104779809hypothetical protein 
33PSEEN0546569657..570001 [+], 345104779810hypothetical protein 
34PSEEN0548570527..570955 [+], 429104779811hypothetical protein 
35PSEEN0550571206..571580 [+], 375104779812hypothetical protein 
36PSEEN0551571669..571938 [+], 270104779813hypothetical 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

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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
PSPTO_5435 , PSPTO_5435, PSPTO_5435, PSPTO_5435, PSPTO_5435

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1PSEEN0539558507..559025 [+], 519104779803hemolysin co-regulated protein 1B PSPTO_5435
2PSEEN0861896182..896700 [+], 519104780089hemolysin co-regulated protein 1A PSPTO_5435
3PSEEN35953879802..3880302 [-], 501104782618hemolysin co-regulated protein 2A PSPTO_5435
4PSEEN45984913559..4914077 [-], 519104783561hemolysin co-regulated protein 1C PSPTO_5435
5PSEEN52765594067..5594585 [-], 519104784184hemolysin co-regulated protein 1A PSPTO_5435

Download FASTA format files
Proteins        Genes
N/A
(1) Sarris PF et al. (2011). Pseudomonas entomophila and Pseudomonas mendocina: potential models for studying the bacterial type VI secretion system. Infect Genet Evol. 11(6):1352-60. [PudMed:21600307] in_silico
(2) 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
(3) 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