I. Summary

SecReT6 ID	374
Strain	Citrobacter rodentium ICC168
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_013716
Location	2914927..2946102
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	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	0

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	ROD_27611	2910115..2910441 [+], 327	283786427	hypothetical protein
2	ROD_27621	2910455..2911294 [+], 840	283786428	hypothetical protein
3	ROD_27631	2911789..2914698 [-], 2910	283786429	outer membrane autotransporter
4	ROD_27641 (cts1D)	2914927..2915430 [-], 504	283786430	T6SS lysozyme-related protein Cts1D	TssE
5	ROD_27651 (cts1E)	2915417..2916214 [-], 798	283786431	ImpE family T6SS protein Cts1E	TagJ
6	ROD_27661 (cts1F)	2916232..2917095 [-], 864	283786432	T6SS protein Cts1F	Fha
7	ROD_27671 (cts1G)	2917403..2919745 [-], 2343	283786433	VgrG family T6SS protein Cts1G	TssI
8	ROD_27681 (cts1T)	2919750..2920403 [-], 654	283786434	T6SS protein Cts1T
9	ROD_27711 (cts1U)	2924258..2925613 [-], 1356	283786435	T6SS protein Cts1U	TssL
10	ROD_27721 (cts1M)	2925613..2926959 [-], 1347	283786436	T6SS protein Cts1M	TssK
11	ROD_27731 (cts1N)	2926963..2927490 [-], 528	283786437	T6SS protein Cts1N	TssJ
12	ROD_27741 (cts1H)	2927581..2928066 [-], 486	283786438	Hcp family T6SS protein Cts1H	TssD
13	ROD_27751 (cts1B)	2928226..2929725 [-], 1500	283786439	T6SS protein Cts1B	TssC
14	ROD_27761 (cts1S)	2929747..2930265 [-], 519	283786440	T6SS protein Cts1S	TssB
15	ROD_27771	2930356..2930904 [-], 549	283786441	fimbrial adhesin
16	ROD_27781	2930895..2933438 [-], 2544	283786442	fimbrial usher protein
17	ROD_27791	2933529..2934284 [-], 756	283786443	fimbrial chaperone protein
18	ROD_27801	2934370..2934909 [-], 540	283786444	fimbrial subunit
19	ROD_27811 (cts1V)	2934994..2937696 [-], 2703	283786445	T6SS protein Cts1V	TssH
20	ROD_27821 (cts1C)	2937987..2939867 [+], 1881	283786446	T6SS protein Cts1C	TssF
21	ROD_27831 (cts1R)	2939864..2940895 [+], 1032	283786447	T6SS protein Cts1R	TssG
22	ROD_27841 (cts1A)	2940892..2941962 [+], 1071	283786448	T6SS protein Cts1A	TssA
23	ROD_27851	2941966..2942952 [+], 987	283786449	hypothetical protein
24	ROD_27861	2942978..2944324 [+], 1347	283786450	hypothetical protein
25	ROD_27871 (cts1O)	2944318..2946102 [+], 1785	283786451	T6SS protein Cts1O	TagL
26	ROD_27881 (cts1W)	2946128..2946616 [+], 489	283786452	T6SS protein Cts1W
27	ROD_27891	2946669..2947391 [-], 723	283786453	ATP-binding protein of ABC transporter
28	ROD_27901	2947378..2948142 [-], 765	283786454	membrane component of ABC transporter
29	ROD_27911	2948206..2948973 [-], 768	283786455	ABC transporter substrate-binding protein
30	ROD_27921 (lpxP)	2949778..2950698 [+], 921	283786456	palmitoleoyl acyltransferase

 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

ROD_27741

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	ROD_27741(cts1H)	2927581..2928066 [-], 486	283786438	Hcp family T6SS protein Cts1H	ROD_27741

Download FASTA format files

Proteins        Genes

N/A

(1) Gueguen E et al. (2014). Transcriptional Frameshifting Rescues Citrobacter rodentium Type VI Secretion by the Production of Two Length Variants from the Prematurely Interrupted tssM Gene. PLoS Genet. 10(12):e1004869. [PudMed:25474156]

(2) Gueguen E et al. (2012). Promoter swapping unveils the role of the Citrobacter rodentium CTS1 Type VI secretion system in inter-bacterial competition. Appl Environ Microbiol. 79(1):32-8. [PudMed:23064344]

This literature contains experimental investigation