I. Summary

SecReT6 ID	713
Strain	Pseudomonas sp. UW4
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_019670
Location	3606319..3633249
Comment
Function	N/A
T6SS Type	Type i; subtype i2
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	2	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	PputUW4_03068 (puuB3)	3601411..3602706 [+], 1296	426409969	gamma-glutamylputrescine oxidase
2	PputUW4_03069	3602867..3603649 [-], 783	426409970	DeoR family transcriptional regulator
3	PputUW4_03070	3604075..3606258 [+], 2184	426409971	ornithine decarboxylase
4	PputUW4_03071	3606319..3607476 [-], 1158	426409972	type VI secretion system OmpA/MotB domain-containing protein	TssA
5	PputUW4_03072 (tssE)	3607502..3607942 [-], 441	426409973	type VI secretion system lysozyme-like protein	TssE
6	PputUW4_03073 (tssJ)	3607945..3608481 [-], 537	426409974	type VI secretion lipoprotein	TssJ
7	PputUW4_03074	3608462..3609559 [-], 1098	426409975	type VI secretion protein	TssG
8	PputUW4_03075	3609523..3611286 [-], 1764	426409976	type VI secretion protein	TssF
9	PputUW4_03076	3611314..3612900 [-], 1587	426409977	type VI secretion-associated protein	TssA
10	PputUW4_03077 (tssM)	3612897..3616277 [-], 3381	426409978	ImcF domain-containing protein	TssM
11	PputUW4_03078	3616287..3617513 [-], 1227	426409979	hypothetical protein
12	PputUW4_03079	3617517..3617774 [-], 258	426409980	PAAR repeat-containing protein	PAAR
13	PputUW4_03080	3617808..3618386 [-], 579	426409981	hypothetical protein
14	PputUW4_03081	3618361..3619338 [-], 978	426409982	hypothetical protein
15	PputUW4_03082	3619418..3620056 [-], 639	426409983	hypothetical protein
16	PputUW4_03083 (vgrG1)	3620053..3624066 [-], 4014	426409984	ImpA family type VI secretion-associated protein	TssI
17	PputUW4_03084 (clpV)	3624063..3626705 [-], 2643	426409985	ClpV1 family type VI secretion ATPase	TssH
18	PputUW4_03085 (hcp)	3626852..3627343 [-], 492	426409986	type VI secretion system effector	TssD
19	PputUW4_03086	3627359..3629086 [-], 1728	426409987	ompA/MotB domain-containing protein	TagL
20	PputUW4_03087 (tssL)	3629097..3629780 [-], 684	426409988	DotU family type IV/VI secretion system protein	TssL
21	PputUW4_03088	3629777..3631132 [-], 1356	426409989	type VI secretion protein	TssK
22	PputUW4_03089 (tssC)	3631174..3632712 [-], 1539	426409990	EvpB family type VI secretion protein	TssC
23	PputUW4_03090 (tssB)	3632746..3633249 [-], 504	426409991	type VI secretion protein	TssB
24	PputUW4_03091	3633722..3634540 [-], 819	426409992	hypothetical protein
25	PputUW4_03092	3634599..3636320 [-], 1722	426409993	SulP family sulfate transporter
26	PputUW4_03093	3636637..3637089 [+], 453	426409994	hypothetical protein

 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

EC042_4529

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	PputUW4_03085(hcp)	3626852..3627343 [-], 492	426409986	type VI secretion system effector	EC042_4529

Download FASTA format files

Proteins        Genes

N/A

(1) Duan J et al. (2013). The complete genome sequence of the plant growth-promoting bacterium Pseudomonas sp. UW4. PLoS One. 8(3):e58640. [PudMed:23516524]

This literature contains experimental investigation

This literature contains bioinformatics investigation