I. Summary

SecReT6 ID	142
Strain	Escherichia coli 536
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_008253
Location	2936796..2977226
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	2	2	1	1	1	2
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	ECP_2787	2932346..2932768 [+], 423	110642945	fucose operon FucU protein
2	ECP_2788	2932944..2933558 [+], 615	110642946	DNA-binding transcriptional activator
3	ECP_2789	2933602..2934702 [-], 1101	110642947	RNA 2'-O-ribose methyltransferase
4	ECP_2790	2934695..2935090 [-], 396	110642948	hypothetical protein
5	ECP_2791	2935109..2936026 [-], 918	110642949	DNA-binding transcriptional activator GcvA
6	ECP_2792	2936377..2936604 [-], 228	110642950	lipoprotein
7	ECP_2793	2936796..2938001 [+], 1206	110642951	cysteine sulfinate desulfinase
8	ECP_2794	2938001..2938444 [+], 444	110642952	hypothetical protein
9	ECP_2795	2938495..2939301 [-], 807	110642953	hypothetical protein
10	ECP_2796 (mltA)	2939378..2940475 [-], 1098	162138277	murein transglycosylase A
11	ECP_2800	2941612..2942112 [+], 501	110642955	hypothetical protein	TssB
12	ECP_2801	2942171..2943709 [+], 1539	110642956	hypothetical protein	TssC
13	ECP_2802	2943727..2945064 [+], 1338	110642957	hypothetical protein	TssK
14	ECP_2803	2945061..2945726 [+], 666	110642958	hypothetical protein	TssL
15	ECP_2804	2945739..2947391 [+], 1653	110642959	OmpA family membrane protein	TagL
16	ECP_2805	2947449..2947940 [+], 492	110642960	hemolysin-coregulated protein Hcp	TssD
17	ECP_2806	2948132..2950768 [+], 2637	110642961	CLPA/B-type chaperone protein	TssH
18	ECP_2807	2950780..2953269 [+], 2490	110642962	VGR-related protein	TssI
19	ECP_2808	2953335..2954153 [+], 819	110642963	transmembrane protein
20	ECP_2809	2954167..2954760 [+], 594	110642964	hypothetical protein
21	ECP_2810	2954805..2957324 [+], 2520	110642965	VGR-related protein	TssI
22	ECP_2811	2957317..2958105 [+], 789	110642966	hypothetical protein
23	ECP_2812	2958190..2959110 [+], 921	110642967	hypothetical protein
24	ECP_2813	2959367..2960581 [+], 1215	110642968	hypothetical protein
25	ECP_2814	2960533..2963964 [+], 3432	110642969	hypothetical protein	TssM
26	ECP_2815	2963930..2965567 [+], 1638	110642970	hypothetical protein	TssA
27	ECP_2816	2965573..2967003 [+], 1431	110642971	hypothetical protein	PAAR
28	ECP_2817	2966996..2967400 [+], 405	110642972	hypothetical protein
29	ECP_2818	2967475..2967792 [+], 318	110642973	hypothetical protein	TssF
30	ECP_2819	2967749..2969236 [+], 1488	110642974	hypothetical protein	TssF
31	ECP_2820	2969200..2970279 [+], 1080	110642975	hypothetical protein	TssG
32	ECP_2821	2970260..2970796 [+], 537	110642976	hypothetical protein	TssJ
33	ECP_2822	2970800..2971228 [+], 429	110642977	hypothetical protein	TssE
34	ECP_2823	2971228..2972604 [+], 1377	110642978	hypothetical protein	TssA
35	ECP_2824	2972904..2973851 [-], 948	110642979	2-hydroxyacid dehydrogenase
36	ECP_2825	2973923..2974519 [-], 597	110642980	posphosugar isomerase
37	ECP_2826	2974522..2975697 [-], 1176	110642981	aminotransferase
38	ECP_2827	2975697..2977226 [-], 1530	110642982	PTS system, maltose and glucose-specific IIABC component
39	ECP_2828	2977309..2978133 [-], 825	110642983	transcriptional antiterminator protein
40	ECP_2829	2978391..2979644 [-], 1254	110642984	amidase
41	ECP_2830	2979876..2981207 [+], 1332	110642985	N-acetylglutamate synthase

 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	ECP_2805	2947449..2947940 [+], 492	110642960	hemolysin-coregulated protein Hcp	EC042_4529

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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