I. Summary

SecReT6 ID	39
Strain	Bradyrhizobium japonicum USDA 110
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_004463
Location	3957252..3989885
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	2
Component	TssG	TssJ	TssK	TssM
Number	1	0	1	1

13

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	bll3578	3953016..3953339 [-], 324	27378689	two-component response regulator
2	bll3579	3953476..3954267 [-], 792	27378690	hypothetical protein
3	bsr3580	3954717..3954941 [+], 225	27378691	hypothetical protein
4	blr3581	3955014..3955916 [+], 903	27378692	hypothetical protein
5	bll3582	3956041..3956988 [-], 948	27378693	hypothetical protein
6	bll3583	3957252..3958016 [-], 765	27378694	hypothetical protein
7	blr3584	3958210..3959556 [+], 1347	27378695	transposase
8	blr3585	3959846..3960496 [+], 651	27378696	hypothetical protein
9	bll3586	3960586..3962187 [-], 1602	27378697	hypothetical protein
10	bll3587 (clpB)	3962178..3964817 [-], 2640	27378698	ATP-dependent Clp protease ATP-binding subunit	TssH
11	bll3588	3964915..3965979 [-], 1065	27378699	hypothetical protein	TssG
12	bll3589	3965943..3966599 [-], 657	27378700	hypothetical protein	TssF
13	bll3590	3966580..3967911 [-], 1332	27378701	hypothetical protein	TssF
14	bll3591	3967913..3968461 [-], 549	27378702	hypothetical protein	TssE
15	bll3592	3968644..3969129 [-], 486	27378703	hypothetical protein	TssD
16	bll3593	3969180..3970691 [-], 1512	27378704	hypothetical protein	TssC
17	bll3594	3970699..3971250 [-], 552	27378705	hypothetical protein	TssB
18	bll3595	3971366..3972706 [-], 1341	27378706	hypothetical protein	TssA
19	blr3596	3973027..3974895 [+], 1869	27378707	hypothetical protein	TssI
20	blr3597	3974901..3975464 [+], 564	27378708	hypothetical protein
21	blr3598	3975474..3976856 [+], 1383	27378709	hypothetical protein	Fha
22	blr3599	3976893..3978242 [+], 1350	27378710	hypothetical protein	TssK
23	blr3600	3978239..3979765 [+], 1527	27378711	hypothetical protein	TssL
24	blr3601	3979809..3983345 [+], 3537	27378712	hypothetical protein	TssM
25	blr3602	3983342..3984043 [+], 702	27378713	hypothetical protein
26	blr3603	3984050..3984826 [+], 777	27378714	serine/threonine phosphatase
27	blr3604	3984823..3986631 [+], 1809	27378715	serine/threonine kinase
28	bll3605	3986641..3987753 [-], 1113	27378716	hypothetical protein
29	bsl3606	3987723..3988013 [-], 291	27378717	hypothetical protein
30	blr3607	3988164..3989885 [+], 1722	27378718	hypothetical protein
31	blr3608	3989925..3991724 [+], 1800	27378719	hypothetical protein
32	blr3609	3991744..3992391 [+], 648	27378720	hypothetical protein
33	bll3610	3992419..3993411 [-], 993	27378721	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

Download FASTA format files

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]

This literature contains bioinformatics investigation