I. Summary

SecReT6 ID	83
Strain	Xanthomonas oryzae pv. oryzae KACC 10331
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_006834
Location	3702677..3772000
Comment
Function	N/A
T6SS Type	Type i; subtype i4b
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	1	2	8	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	2	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	XOO3459	3698383..3698691 [-], 309	58583082	hypothetical protein
2	XOO3460	3698698..3699039 [-], 342	58583083	hypothetical protein
3	XOO3461 (hsdR)	3699193..3702765 [+], 3573	58583084	type I restriction enzyme EcoKI subunit R
4	XOO3462	3702677..3703903 [+], 1227	58583085	abortive infection bacteriophage resistance protein
5	XOO3463 (hsdM-2)	3703950..3705494 [+], 1545	58583086	type I restriction-modification system, M subunit
6	XOO3464	3705472..3706866 [+], 1395	58583087	Type I restriction enzyme StySPI specificity protein
7	XOO3465	3706900..3707208 [-], 309	58583088	hypothetical protein
8	YXOOp02	3707215..3707478 [-], 264	121632114	hypothetical protein
9	XOO3466	3708207..3708962 [+], 756	58583089	hypothetical protein	TssI
10	XOO3467	3709256..3710278 [-], 1023	58583090	hypothetical protein
11	XOO3468	3710288..3713155 [-], 2868	58583091	hypothetical protein
12	XOO3472	3716033..3718045 [-], 2013	58583095	hypothetical protein
13	XOO4882	3719245..3720123 [-], 879	121632115	hypothetical protein
14	XOO3473	3720130..3721191 [-], 1062	122879263	hypothetical protein
15	XOO3474	3721305..3722894 [-], 1590	58583097	hypothetical protein	TssI
16	YXOOp03	3722987..3723340 [-], 354	121632116	hypothetical protein
17	XOO3475 (clpB)	3723371..3726100 [-], 2730	58583098	chaperone ClpB	TssH
18	XOO3476	3726186..3727277 [-], 1092	58583099	hypothetical protein	TssG
19	XOO3477	3727241..3729076 [-], 1836	58583100	hypothetical protein	TssF
20	XOO3478	3729079..3729567 [-], 489	58583101	hypothetical protein	TssE
21	XOO3479 (hcp)	3729715..3730212 [-], 498	58583102	hypothetical protein	TssD
22	XOO3480	3730354..3731850 [-], 1497	58583103	hypothetical protein	TssC
23	XOO3481	3731854..3732354 [-], 501	58583104	hypothetical protein	TssB
24	XOO3482	3732401..3733015 [-], 615	58583105	hypothetical protein
25	XOO3483	3733231..3733884 [+], 654	58583106	transmembrane protein	TssJ
26	XOO3484	3734036..3735370 [+], 1335	122879264	hypothetical protein	TssK
27	XOO3485	3735367..3736158 [+], 792	58583108	hypothetical protein	TssL
28	XOO3486	3736169..3738706 [+], 2538	58583109	hypothetical protein	TssI
29	XOO3487	3738731..3741625 [+], 2895	58583110	EF hand domain-containing protein
30	XOO3488	3742460..3743893 [+], 1434	58583111	hypothetical protein	TssI
31	XOO3489	3743897..3746152 [+], 2256	58583112	hypothetical protein
32	XOO3490	3746714..3748975 [+], 2262	58583113	hypothetical protein	TssI
33	XOO3491	3751166..3752389 [+], 1224	58583114	ISxac1 transposase
34	XOO3492	3752416..3752955 [+], 540	58583115	hypothetical protein
35	XOO4885	3753076..3753369 [+], 294	121632117	hypothetical protein
36	YXOOp04	3754099..3754446 [+], 348	121632118	hypothetical protein
37	XOO3493	3754541..3755431 [+], 891	58583116	hypothetical protein	TssK
38	XOO3494	3755428..3756219 [+], 792	58583117	hypothetical protein	TssL
39	XOO3495	3756230..3757396 [+], 1167	58583118	hypothetical protein	TssI
40	XOO3498	3758605..3758994 [-], 390	58583121	VGR-related protein
41	XOO3499	3758975..3761257 [-], 2283	58583122	hypothetical protein
42	XOO3500	3761206..3761802 [-], 597	58583123	hypothetical protein
43	XOO3501	3761795..3762670 [-], 876	58583124	hypothetical protein
44	XOO3503	3763083..3764609 [-], 1527	58583126	VGR-related protein	TssI
45	XOO3504	3764610..3765293 [-], 684	58583127	hypothetical protein	TssI
46	XOO3505	3765389..3766435 [+], 1047	58583128	sulfatase modifying factor 1 (C-alpha-formyglycine-generating enzyme 1)
47	XOO3506	3766489..3769554 [-], 3066	58583129	DNA repair ATPase
48	XOO3507	3769541..3770086 [-], 546	58583130	hypothetical protein
49	XOO3508	3770168..3772000 [-], 1833	58583131	hypothetical protein
50	XOO4887	3771997..3772254 [-], 258	121632119	hypothetical protein
51	XOO3509	3772500..3772964 [-], 465	122879265	hypothetical protein
52	XOO4888	3773281..3773538 [-], 258	121632120	hypothetical protein
53	YXOOp05	3773582..3773764 [-], 183	121632121	hypothetical protein
54	XOO3510	3773785..3774249 [-], 465	58583133	hypothetical protein
55	XOO3511	3774246..3775199 [-], 954	58583134	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):

N/A

N/A

(1) 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]

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