I. Summary

SecReT6 ID	65
Strain	Yersinia pseudotuberculosis IP32953
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_006155
Location	3813445..3838093
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	1	0	1	1	0	0
Component	TssG	TssJ	TssK	TssM
Number	0	0	1	0

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	YPTB3236 (insA)	3812320..3812595 [-], 276	51597543	insertion sequence protein
2	YPTB3237	3812691..3813458 [-], 768	51597544	hypothetical protein
3	YPTB3238	3813445..3815742 [-], 2298	51597545	hypothetical protein
4	YPTB3242 (insA)	3817314..3817589 [-], 276	51597546	insertion sequence protein
5	YPTB3243	3817986..3818486 [-], 501	51597547	hypothetical protein
6	YPTB3244	3818487..3820709 [-], 2223	51597548	hypothetical protein
7	YPTB3245	3820724..3823072 [-], 2349	51597549	hypothetical protein	TssI
8	YPTB3246 (clpB3)	3823069..3825717 [-], 2649	51597550	Clp ATPase	TssH
9	YPTB3247	3826135..3826626 [-], 492	51597551	hypothetical protein	TssD
10	YPTB3248	3826630..3828366 [-], 1737	51597552	PAL/OmpA family membrane protein	TagL
11	YPTB3249	3828366..3829052 [-], 687	51597553	hypothetical protein	TssL
12	YPTB3250	3829049..3830401 [-], 1353	51597554	hypothetical protein	TssK
13	YPTB3251	3830413..3831957 [-], 1545	51597555	hypothetical protein	TssC
14	YPTB3252	3832006..3832506 [-], 501	51597556	hypothetical protein	TssB
15	YPTB3255 (insA)	3834445..3834708 [-], 264	51597557	insertion element protein
16	YPTB3256	3834776..3835171 [-], 396	51597558	lipoprotein
17	YPTB3257	3835622..3836272 [-], 651	51597559	hypothetical protein
18	YPTB3258 (yspI)	3837443..3838093 [+], 651	51597560	N-acylhomoserine lactone synthase
19	YPTB3259 (yspR)	3838074..3838817 [-], 744	51597561	quorum-sensing transcriptional regulator
20	YPTB3260	3839379..3840737 [+], 1359	51597562	hypothetical protein
21	YPTB3261	3841125..3841958 [+], 834	51597563	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

EC042_4529

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	YPTB3247	3826135..3826626 [-], 492	51597551	hypothetical protein	EC042_4529

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