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

II. T6SS components
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PP_40634586129..4587811 [-], 168326990764AMP-binding protein 
2PP_4064 (ivd)4588022..4589296 [+], 127526990765acyl-CoA dehydrogenase 
3PP_40654589316..4590923 [+], 160826990766propionyl-CoA carboxylase 
4PP_40664590927..4591742 [+], 81626990767gamma-carboxygeranoyl-CoA hydratase 
5PP_40674591739..4593691 [+], 195326990768acetyl-CoA carboxylase, biotin carboxylase 
6PP_40684593990..4594694 [-], 70526990769Cro/CI family transcriptional regulator 
7PP_40694594782..4595081 [+], 30026990770hypothetical protein 
8PP_40704595530..4596045 [+], 51626990771hypothetical protein 
9PP_40714596179..4599805 [-], 362726990772hypothetical protein  TssM
10PP_40724599802..4601268 [-], 146726990773hypothetical protein 
11PP_40734601256..4601888 [-], 63326990774hypothetical protein 
12PP_40744602163..4602666 [+], 50426990775hypothetical protein  TssB
13PP_40764604168..4604578 [+], 41126990776hypothetical protein  TssE
14PP_40774604582..4606348 [+], 176726990777hypothetical protein  TssF
15PP_40784606312..4607328 [+], 101726990778hypothetical protein  TssG
16PP_40794607325..4608122 [+], 79826990779hypothetical protein  TssJ
17PP_40804608172..4609509 [+], 133826990780hypothetical protein  TssK
18PP_40814609454..4610386 [+], 93326990781hypothetical protein  TssL
19PP_4082 (hcp-2)4610520..4611035 [+], 51626990782hcp protein  TssD
20PP_40844613142..4613573 [+], 43226990783hypothetical protein 
21PP_40854613627..4618219 [+], 459326990784RHS family protein  PAAR
22PP_40864619477..4620040 [-], 56426990785hypothetical protein 
23PP_40874620241..4620393 [+], 15326990786hypothetical 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

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1PP_4082(hcp-2)4610520..4611035 [+], 51626990782hcp protein ECA4275

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Proteins        Genes
Regulatory element identified
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