I. Summary

SecReT6 ID	384
Strain	Pantoea ananatis LMG 20103
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_013956
Location	2617516..2646006
Comment
Function	N/A
T6SS Type	Type i; subtype i3
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	1	1	1	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

13

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	PANA_2349	2615631..2616071 [-], 441	291617902	hypothetical Protein
2	PANA_2350	2616084..2616719 [-], 636	291617903	hypothetical Protein
3	PANA_2351	2617023..2617616 [-], 594	291617904	hypothetical Protein
4	PANA_2352	2617516..2620086 [-], 2571	291617905	hypothetical Protein	TssI
5	PANA_2353 (pknA)	2620092..2621603 [-], 1512	291617906	PknA
6	PANA_2354 (clpV)	2621585..2624194 [-], 2610	291617907	ClpV	TssH
7	PANA_2355	2624248..2625297 [-], 1050	291617908	hypothetical Protein	TssG
8	PANA_2356	2625294..2627171 [-], 1878	291617909	hypothetical Protein	TssF
9	PANA_2357	2627174..2627749 [-], 576	291617910	hypothetical Protein	TssE
10	PANA_2358	2627739..2628566 [-], 828	291617911	hypothetical Protein	TagJ
11	PANA_2359	2628583..2629638 [-], 1056	291617912	hypothetical Protein
12	PANA_2360 (pppA)	2629607..2630398 [-], 792	291617913	PppA
13	PANA_2361	2630395..2632293 [-], 1899	291617914	hypothetical Protein	Fha
14	PANA_2362	2632908..2633309 [-], 402	291617915	hypothetical Protein
15	PANA_2363	2633322..2634197 [-], 876	291617916	hypothetical Protein
16	PANA_2364	2634321..2634803 [-], 483	291617917	hypothetical Protein	TssD
17	PANA_2365	2635382..2636881 [-], 1500	291617918	hypothetical Protein	TssC
18	PANA_2366	2636881..2637423 [-], 543	291617919	hypothetical Protein	TssB
19	PANA_2367	2637492..2638589 [-], 1098	291617920	hypothetical Protein	TssA
20	PANA_2368	2638525..2639238 [-], 714	291617921	hypothetical Protein
21	PANA_2369	2639253..2642879 [-], 3627	291617922	hypothetical Protein	TssM
22	PANA_2370 (ytxE)	2642883..2644124 [-], 1242	291617923	hypothetical protein	TssL
23	PANA_2371	2644141..2645487 [-], 1347	291617924	hypothetical Protein	TssK
24	PANA_2372	2645503..2646006 [-], 504	291617925	hypothetical Protein	TssJ
25	PANA_2373	2646030..2646668 [-], 639	291617926	hypothetical Protein
26	PANA_2374 (yeeO)	2647741..2649180 [-], 1440	291617927	hypothetical protein
27	PANA_2375 (amn)	2649551..2651005 [+], 1455	291617928	Amn

 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.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

Homology Effector list

ECL_03140 , ECL_01567, SMA2263, SMA3456, SMA2263

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	PANA_1076(rhsD)	1226493..1230686 [-], 4194	291616629	RhsD	ECL_03140
2	PANA_2348(rhsD)	2611524..2615627 [-], 4104	291617901	RhsD	ECL_01567
3	PANA_2364	2634321..2634803 [-], 483	291617917	hypothetical Protein	SMA2263
4	PANA_2446	2727939..2728421 [-], 483	291617999	hypothetical Protein	SMA3456
5	PANA_2447	2728452..2728934 [-], 483	291618000	hypothetical Protein	SMA2263

Download FASTA format files

Proteins        Genes

N/A

(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]

This literature contains bioinformatics investigation