I. Summary

SecReT6 ID	18
Strain	Yersinia pestis CO92
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_003143
Location	1067376..1092013
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	YPO_RS05750	1064254..1064562 [-], 309	pseudogene	site-specific integrase
2	YPO_RS05755	1064586..1065221 [-], 636	488138797	DUF2345 domain-containing protein
3	YPO_RS05760	1065829..1066526 [-], 698	1194687962	IS1 family transposase
4	YPO_RS05765	1066622..1067389 [-], 768	488138800	hypothetical protein
5	YPO_RS05770	1067376..1069673 [-], 2298	488138801	M23 family metallopeptidase
6	YPO_RS05775	1069689..1070324 [-], 636	488138802	DUF2345 domain-containing protein
7	YPO_RS05780	1070947..1071520 [-], 574	pseudogene	IS1 family transposase
8	YPO_RS05785	1071549..1071743 [-], 195	488144902	hypothetical protein
9	YPO_RS05790	1071907..1072254 [-], 348	514845521	hypothetical protein
10	YPO_RS05795	1072398..1074620 [-], 2223	488138803	hydroxyethylthiazole kinase
11	YPO_RS05800	1074635..1076983 [-], 2349	488138804	type VI secretion system tip protein VgrG
12	YPO_RS05805 (tssH)	1076980..1079628 [-], 2649	488138805	type VI secretion system ATPase TssH
13	YPO_RS05810	1080046..1080537 [-], 492	488138806	Hcp family type VI secretion system effector
14	YPO_RS05815	1080541..1082277 [-], 1737	488156841	OmpA family protein
15	YPO_RS05820	1082277..1082963 [-], 687	488138807	type VI secretion system protein TssL, short form
16	YPO_RS05825 (tssK)	1082960..1084312 [-], 1353	488140456	type VI secretion system baseplate subunit TssK
17	YPO_RS05830 (tssC)	1084324..1085868 [-], 1545	488144688	type VI secretion system contractile sheath large subunit
18	YPO_RS05835 (tssB)	1085911..1086411 [-], 501	488140454	type VI secretion system contractile sheath small subunit
19	YPO_RS05840	1088261..1088619 [-], 359	pseudogene	IS1 family transposase
20	YPO_RS05845	1088687..1089082 [-], 396	488144692	lipoprotein
21	YPO_RS05850	1089533..1090183 [-], 651	488144694	CPBP family intramembrane metalloprotease
22	YPO_RS05855	1091363..1092013 [+], 651	488144695	acyl-homoserine-lactone synthase
23	YPO_RS05860	1091994..1092737 [-], 744	488140447	LuxR family transcriptional regulator
24	YPO_RS05865	1093299..1094675 [+], 1377	488140446	peptidase
25	YPO_RS05870	1095052..1095885 [+], 834	488140444	intradiol ring-cleavage dioxygenase
26	YPO_RS05875	1096033..1096227 [-], 195	488157453	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

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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

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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