I. Summary
SecReT6 ID501 insolico
StrainPantoea sp. At-9b
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i3
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
1Pat9b_24992722690..2727213 [-], 4524317048708YD repeat-containing protein  PAAR
2Pat9b_25002727216..2727629 [-], 414317048709hypothetical protein 
3Pat9b_25012727626..2729548 [-], 1923317048710ImpA family type VI secretion-associated protein  TssI
4Pat9b_25022729569..2731011 [-], 1443317048711serine/threonine protein kinase 
5Pat9b_25032731041..2733647 [-], 2607317048712type VI secretion ATPase, ClpV1 family  TssH
6Pat9b_25042733701..2734750 [-], 1050317048713type VI secretion protein  TssG
7Pat9b_25052734747..2736621 [-], 1875317048714type VI secretion protein  TssF
8Pat9b_25062736624..2737184 [-], 561317048715type VI secretion system lysozyme-like protein  TssE
9Pat9b_25072737174..2738001 [-], 828317048716virulence protein SciE type  TagJ
10Pat9b_25082738018..2738977 [-], 960317048717hypothetical protein 
11Pat9b_25092738988..2739779 [-], 792317048718protein serine/threonine phosphatase 
12Pat9b_25102739776..2741581 [-], 1806317048719FHA domain-containing protein  Fha
13Pat9b_25112741661..2741774 [+], 114317048720hypothetical protein 
14Pat9b_25122742184..2742579 [-], 396317048721hypothetical protein 
15Pat9b_25132742635..2743189 [-], 555317048722hypothetical protein 
16Pat9b_25142743248..2743661 [-], 414317048723hypothetical protein 
17Pat9b_25152743658..2744650 [-], 993317048724hypothetical protein 
18Pat9b_25162744761..2745243 [-], 483317048725type VI secretion system effector  TssD
19Pat9b_25172745462..2746958 [-], 1497317048726type VI secretion protein  TssC
20Pat9b_25182746958..2747488 [-], 531317048727type VI secretion protein  TssB
21Pat9b_25192747561..2748571 [-], 1011317048728type VI secretion-associated protein  TssA
22Pat9b_25202748584..2749297 [-], 714317048729type VI secretion-associated protein 
23Pat9b_25212749312..2752938 [-], 3627317048730type VI secretion protein IcmF  TssM
24Pat9b_25222752942..2754180 [-], 1239317048731DotU family type IV/VI secretion system protein  TssL
25Pat9b_25232754200..2755540 [-], 1341317048732type VI secretion protein  TssK
26Pat9b_25242755550..2756041 [-], 492317048733type VI secretion lipoprotein  TssJ
27Pat9b_25252756068..2756643 [-], 576317048734hypothetical protein 
28Pat9b_25262757602..2758258 [-], 657317048735binding-protein-dependent transporter inner membrane component 
29Pat9b_25272758239..2759339 [-], 1101317048736ABC transporter-like protein 
30Pat9b_25282759533..2760171 [+], 639317048737TetR family transcriptional regulator 
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
1Pat9b_25162744761..2745243 [-], 483317048725type VI secretion system effector SMA2263

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Proteins        Genes
(1) De Maayer P et al. (2011). Comparative genomics of the Type VI secretion systems of Pantoea and Erwinia species reveals the presence of putative effector islands that may be translocated by the VgrG and Hcp proteins. BMC Genomics. 12:576. [PudMed:22115407] in_silico
in_silico This literature contains bioinformatics investigation