I. Summary

SecReT6 ID	148
Strain	Burkholderia ambifaria AMMD
Replicon	chromosome I [Browse all T6SS(s) in this replicon]
Accession	NC_008390
Location	418105..449402
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	1	0	1	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	Bamb_0369	415101..415484 [+], 384	115350424	hypothetical protein
2	Bamb_0370	416125..416580 [+], 456	115350425	hypothetical protein
3	Bamb_0372	418105..418500 [+], 396	115350426	hypothetical protein
4	Bamb_0373	419903..420196 [+], 294	115350427	hypothetical protein
5	Bamb_0374	420594..420902 [+], 309	115350428	hypothetical protein
6	Bamb_0375	420910..421167 [+], 258	115350429	hypothetical protein
7	Bamb_0376	421479..421844 [+], 366	115350430	hypothetical protein
8	Bamb_0377	421936..422718 [-], 783	115350431	hypothetical protein	TssL
9	Bamb_0378	422715..424061 [-], 1347	115350432	hypothetical protein	TssK
10	Bamb_0379	424166..424774 [-], 609	115350433	hypothetical protein	TssJ
11	Bamb_0380	425150..425788 [+], 639	115350434	hypothetical protein
12	Bamb_0381	425833..426348 [+], 516	115350435	hypothetical protein	TssB
13	Bamb_0382	426364..427854 [+], 1491	115350436	hypothetical protein	TssC
14	Bamb_0383	427925..428428 [+], 504	115350437	hypothetical protein	TssD
15	Bamb_0384	428491..428976 [+], 486	115350438	hypothetical protein	TssE
16	Bamb_0385	429054..430889 [+], 1836	115350439	hypothetical protein	TssF
17	Bamb_0386	430853..431953 [+], 1101	115350440	hypothetical protein	TssG
18	Bamb_0387	431997..434666 [+], 2670	115350441	ATPase	TssH
19	Bamb_0388	434706..435827 [+], 1122	115350442	ImpA domain-containing protein	TssA
20	Bamb_0389	435878..436756 [+], 879	115350443	hypothetical protein
21	Bamb_0390	437020..437535 [-], 516	115350444	hypothetical protein
22	Bamb_0391	437736..438686 [-], 951	115350445	OmpA/MotB domain-containing protein	TagL
23	Bamb_0392	438691..439680 [-], 990	115350446	hypothetical protein
24	Bamb_0393	439677..443618 [-], 3942	115350447	ImcF domain-containing protein	TssM
25	Bamb_0394	443920..444648 [-], 729	115350448	peptidase M15B and M15C, D,D-carboxypeptidase VanY/endolysins
26	Bamb_0395	444887..445858 [+], 972	115350449	hypothetical protein
27	Bamb_0396	446072..447100 [+], 1029	115350450	Mg2+ transporter protein, CorA family protein
28	Bamb_0397	447234..449402 [-], 2169	115350451	peptidase M1, membrane alanine aminopeptidase
29	Bamb_0398	449552..449764 [-], 213	115350452	hypothetical protein
30	Bamb_0399	450047..450541 [+], 495	115350453	hypothetical protein
31	Bamb_0400	450691..451023 [+], 333	115350454	hypothetical protein
32	Bamb_0401	451163..452296 [+], 1134	115350455	methyltransferase small
33	Bamb_0402	452365..453276 [+], 912	115350456	hypothetical protein
34	Bamb_0403	453344..453955 [-], 612	115350457	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):

Homology Effector list

BCAL0343 , BTH_I3225

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	Bamb_0383	427925..428428 [+], 504	115350437	hypothetical protein	BCAL0343
2	Bamb_5209	2244169..2246937 [-], 2769	115359953	Rhs element Vgr protein	BTH_I3225

Download FASTA format files

Proteins        Genes

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