I. Summary

SecReT6 ID	17
Strain	Yersinia pestis CO92
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_003143
Location	526127..562682
Comment	Phagocytosis-promoting activity in macrophage-like J774.A1 cells
Function	anti-eukaryotic; virulence
T6SS Type	Type i; subtype i3
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	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

13

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	YPO0489	521134..521598 [+], 465	218927687	hypothetical protein
2	YPO0490 (apaH)	521688..522557 [-], 870	218927688	diadenosine tetraphosphatase
3	YPO0491 (apaG)	522574..522951 [-], 378	218927689	ApaG
4	YPO0492 (ksgA)	522965..523783 [-], 819	218927690	dimethyladenosine transferase
5	YPO0493 (pdxA)	523776..524771 [-], 996	218927691	4-hydroxythreonine-4-phosphate dehydrogenase
6	YPO0494 (surA)	524755..526059 [-], 1305	218927692	peptidyl-prolyl cis-trans isomerase SurA
7	YPO0495 (imp)	526127..528469 [-], 2343	218927693	organic solvent tolerance protein
8	YPO0496 (djlA)	528654..529487 [+], 834	218927694	Dna-J like membrane chaperone protein
9	YPO0497 (rluA)	529785..530405 [-], 621	218927695	ribosomal large subunit pseudouridine synthase A
10	YPO0498	531628..532371 [-], 744	218927696	hypothetical protein
11	YPO0499	532701..533714 [+], 1014	218927697	hypothetical protein	TssA
12	YPO0500	533725..534285 [+], 561	218927698	hypothetical protein	TssB
13	YPO0501	534285..535796 [+], 1512	218927699	hypothetical protein	TssC
14	YPO0502	535959..536477 [+], 519	218927700	hypothetical protein	TssD
15	YPO0503	536551..536994 [+], 444	218927701	hypothetical protein	TssE
16	YPO0504	537027..538871 [+], 1845	218927702	hypothetical protein	TssF
17	YPO0505	538864..539847 [+], 984	218927703	hypothetical protein	TssG
18	YPO0506 (clpB)	539850..542453 [+], 2604	218927704	Clp ATPase	TssH
19	YPO0507	542557..544905 [+], 2349	218927705	hypothetical protein	TssI
20	YPO0508	544918..545490 [+], 573	218927706	hypothetical protein
21	YPO0509	545515..547137 [+], 1623	218927707	hypothetical protein
22	YPO0510	547163..548266 [+], 1104	218927708	hypothetical protein
23	YPO0511	548259..548876 [+], 618	218927709	hypothetical protein
24	YPO0511a	548882..549247 [+], 366	218927710	hypothetical protein	PAAR
25	YPO0512	549240..549731 [+], 492	218927711	lipoprotein	TssJ
26	YPO0513	549851..551206 [+], 1356	218927712	hypothetical protein	TssK
27	YPO0514	551203..552813 [+], 1611	218927713	hypothetical protein	TssL
28	YPO0515	552863..556315 [+], 3453	218927714	hypothetical protein	TssM
29	YPO0516	556337..556690 [+], 354	218927715	hypothetical protein
30	YPO0517 (hepA)	556946..559852 [-], 2907	218927716	ATP-dependent helicase HepA
31	YPO0518 (dinA)	560313..562682 [-], 2370	218927717	DNA polymerase II
32	YPO0519	562878..563645 [+], 768	218927718	DedA family membrane protein
33	YPO0520 (thiQ)	563714..564397 [-], 684	218927719	thiamine transporter ATP-binding subunit
34	YPO0521 (thiP)	564411..565970 [-], 1560	218927720	thiamine transporter membrane protein
35	YPO0522 (tbpA)	565994..566986 [-], 993	218927721	thiamine transporter substrate binding subunit

 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

YPK_3563 , YPK_3558

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	YPO0502	535959..536477 [+], 519	218927700	hypothetical protein	YPK_3563
2	YPO0507	542557..544905 [+], 2349	218927705	hypothetical protein	YPK_3558

Download FASTA format files

Proteins        Genes

N/A

Regulatory element identified

RovA

Regulator	Description	Reference
RovA (YPO2374)	Indirect activator	PMID: 16938880

(1) Robinson JB et al. (2009). Evaluation of a Yersinia pestis mutant impaired in a thermoregulated type VI-like secretion system in flea, macrophage and murine models. Microb Pathog. 47(5):243-51. [PudMed:19716410]

(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) Cathelyn JS et al. (2006). RovA, a global regulator of Yersinia pestis, specifically required for bubonic plague. Proc Natl Acad Sci U S A. 103(36):13514-9. [PudMed:16938880]

This literature contains experimental investigation

This literature contains bioinformatics investigation