I. Summary

SecReT6 ID	37
Strain	Escherichia coli CFT073
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_004431
Location	3217751..3253963
Comment	PAI-metV2 genomic island mutant (c3398-c3410 deleted) was severely attenuated in its ability to colonize the bladders of mice.
Function	anti-eukaryotic; virulence
T6SS Type	Type i; subtype i2
Experimental 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	0	1	1	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	c3374 (fucU)	3213754..3214176 [+], 423	26249209	fucose operon fucU protein
2	c3375 (fucR)	3214225..3214965 [+], 741	26249210	DNA-binding transcriptional activator FucR
3	c3376 (ygdE)	3215009..3216109 [-], 1101	26249211	RNA 2'-O-ribose methyltransferase
4	c3377 (ygdD)	3216102..3216404 [-], 303	26249212	hypothetical protein
5	c3378 (gcvA)	3216516..3217433 [-], 918	26249213	DNA-binding transcriptional activator GcvA
6	c3379	3217751..3218044 [+], 294	26249214	hypothetical protein
7	c3380 (ygdI)	3217784..3218014 [-], 231	26249215	lipoprotein ygdI
8	c3381	3218167..3219408 [+], 1242	26249216	cysteine sulfinate desulfinase
9	c3382 (ygdK)	3219408..3219851 [+], 444	26249217	hypothetical protein
10	c3383 (ygdL)	3219902..3220708 [-], 807	26249218	hypothetical protein
11	c3384 (mltA)	3220785..3221882 [-], 1098	161486137	murein transglycosylase A
12	c3385	3223002..3223523 [+], 522	26249220	hypothetical protein	TssB
13	c3386	3223576..3225120 [+], 1545	26249221	hypothetical protein	TssC
14	c3387	3225140..3226477 [+], 1338	26249222	hypothetical protein	TssK
15	c3388	3226474..3227139 [+], 666	26249223	hypothetical protein	TssL
16	c3389	3227152..3228804 [+], 1653	26249224	hypothetical protein	TagL
17	c3390	3228841..3229443 [-], 603	26249225	hypothetical protein
18	c3391	3228862..3229353 [+], 492	26249226	secreted protein Hcp	TssD
19	c3392	3229545..3232181 [+], 2637	26249227	ClpB protein	TssH
20	c3393	3232181..3234655 [+], 2475	26249228	hypothetical protein	TssI
21	c3394	3234670..3235494 [+], 825	26249229	hypothetical protein
22	c3395	3235491..3237467 [+], 1977	26249230	hypothetical protein
23	c3396	3237477..3237749 [+], 273	26249231	hypothetical protein	PAAR
24	c3397	3237749..3239182 [+], 1434	26249232	hypothetical protein
25	c3398	3239189..3242527 [+], 3339	26249233	hypothetical protein	TssM
26	c3399	3242493..3244130 [+], 1638	26249234	hypothetical protein	TssA
27	c3400	3244161..3246965 [+], 2805	26249235	hypothetical protein	TssF
28	c3401	3246946..3247482 [+], 537	26249236	hypothetical protein	TssJ
29	c3402	3247486..3247914 [+], 429	26249237	hypothetical protein	TssE
30	c3403	3247914..3249290 [+], 1377	26249238	hypothetical protein	TssA
31	c3404	3248464..3248616 [-], 153	26249239	hypothetical protein
32	c3405	3249590..3250546 [-], 957	26249240	2-hydroxyacid dehydrogenase
33	c3406	3250609..3251205 [-], 597	26249241	phosphosugar isomerase
34	c3407	3251208..3252383 [-], 1176	26249242	Beta-cystathionase
35	c3408	3252383..3253963 [-], 1581	26249243	PTS system, maltose and glucose-specific IIABC component
36	c3409	3253995..3254876 [-], 882	26249244	antiterminator
37	c3410	3254915..3255067 [+], 153	26249245	hypothetical protein
38	c3411	3255077..3256420 [-], 1344	26249246	N-acetylmuramoyl-L-alanine amidase
39	c3412 (argA)	3256562..3257893 [+], 1332	161486136	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

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

EC042_4529

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	c3391	3228862..3229353 [+], 492	26249226	secreted protein Hcp	EC042_4529

Download FASTA format files

Proteins        Genes

N/A

(1) Lloyd AL et al. (2009). Genomic islands of uropathogenic Escherichia coli contribute to virulence. J Bacteriol. 191(11):3469-81. [PudMed:19329634]

(2) 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]

(3) Leiman PG et al. (2009). Type VI secretion apparatus and phage tail-associated protein complexes share a common evolutionary origin. Proc Natl Acad Sci U S A. 106(11):4154-9. [PudMed:19251641]

This literature contains experimental investigation

This literature contains bioinformatics investigation