I. Summary

SecReT6 ID	19
Strain	Yersinia pestis CO92
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_003143
Location	1651381..1695174
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	2	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	YPO_RS08255	1647116..1647334 [+], 219	488141828	hypothetical protein
2	YPO_RS08260	1647598..1648122 [+], 525	488141826	beta-hydroxyacyl-ACP dehydratase
3	YPO_RS08265	1648112..1649395 [+], 1284	488141824	beta-ketoacyl-[acyl-carrier-protein] synthase family protein
4	YPO_RS08270	1649397..1650134 [+], 738	488141822	SDR family oxidoreductase
5	YPO_RS08275	1650150..1651388 [+], 1239	488141820	hydroxymethylglutaryl-CoA synthase family protein
6	YPO_RS08280	1651381..1652100 [+], 720	488141818	enoyl-CoA hydratase/isomerase family protein
7	YPO_RS08285	1652102..1652854 [+], 753	488141817	enoyl-CoA hydratase/isomerase family protein
8	YPO_RS08290	1652857..1653645 [+], 789	488141816	SDR family oxidoreductase
9	YPO_RS08295	1653732..1654172 [+], 441	488157362	lipocalin-like domain-containing protein
10	YPO_RS08300	1654210..1654458 [+], 249	488141809	acyl carrier protein
11	YPO_RS08305	1654557..1655405 [+], 849	488141808	ACP S-malonyltransferase
12	YPO_RS08310 (tssB)	1656394..1656894 [+], 501	488141806	type VI secretion system contractile sheath small subunit
13	YPO_RS08315 (tssC)	1656937..1658487 [+], 1551	488143499	type VI secretion system contractile sheath large subunit
14	YPO_RS08320 (tssK)	1658499..1659851 [+], 1353	488141803	type VI secretion system baseplate subunit TssK
15	YPO_RS08325	1659848..1660534 [+], 687	488138807	type VI secretion system protein TssL, short form
16	YPO_RS08330	1660534..1662270 [+], 1737	488143360	OmpA family protein
17	YPO_RS08335	1662274..1662765 [+], 492	488138806	Hcp family type VI secretion system effector
18	YPO_RS08340 (tssH)	1663153..1665795 [+], 2643	488140719	type VI secretion system ATPase TssH
19	YPO_RS08345	1665798..1668146 [+], 2349	488140720	type VI secretion system tip protein VgrG
20	YPO_RS08350	1668162..1670462 [+], 2301	488140721	M23 family metallopeptidase
21	YPO_RS08355	1670459..1671232 [+], 774	488140722	hypothetical protein
22	YPO_RS08360	1671386..1671646 [+], 261	488140723	DUF2345 domain-containing protein
23	YPO_RS08365	1671662..1673845 [+], 2184	488140724	M23 family metallopeptidase
24	YPO_RS08370	1674018..1674488 [+], 471	488143356	hypothetical protein
25	YPO_RS08375	1674953..1675823 [-], 871	pseudogene	transposase
26	YPO_RS08380	1676653..1677885 [+], 1233	488140727	hypothetical protein
27	YPO_RS08385	1677882..1681304 [+], 3423	488140728	type VI secretion system membrane subunit
28	YPO_RS08390 (tssA)	1681348..1682949 [+], 1602	488140729	type VI secretion system protein TssA
29	YPO_RS08395	1682967..1684025 [+], 1059	488140730	PAAR domain-containing protein
30	YPO_RS08400	1684040..1684495 [+], 456	488140731	hypothetical protein
31	YPO_RS08405 (tssF)	1684716..1686479 [+], 1764	488140732	type VI secretion system baseplate subunit TssF
32	YPO_RS08410 (tssG)	1686443..1687528 [+], 1086	488140733	type VI secretion system baseplate subunit TssG
33	YPO_RS08415 (tssJ)	1687503..1688084 [+], 582	488143344	type VI secretion system lipoprotein TssJ
34	YPO_RS08420 (tssE)	1688084..1688536 [+], 453	488140735	type VI secretion system baseplate subunit TssE
35	YPO_RS08425	1688561..1689928 [+], 1368	488140736	type VI secretion system ImpA family N-terminal domain-containing protein
36	YPO_RS08430	1690140..1690763 [-], 624	488140737	hypothetical protein
37	YPO_RS08435	1691446..1693041 [+], 1596	488156788	ABC-F family ATPase
38	YPO_RS08440	1693269..1693922 [+], 654	488140739	hypothetical protein
39	YPO_RS08445	1693966..1695174 [-], 1209	488138535	IS256 family transposase
40	YPO_RS08450 (moeB)	1695310..1696080 [-], 771	488140740	molybdopterin-synthase adenylyltransferase MoeB
41	YPO_RS08455 (moeA)	1696082..1697356 [-], 1275	488140741	molybdopterin molybdotransferase MoeA
42	YPO_RS08460 (darE)	1697891..1699201 [-], 1311	488140742	darobactin maturation radical SAM/SPASM protein DarE
43	YPO_RS08465 (darD)	1699211..1699879 [-], 669	488140743	darobactin export ABC transporter ATP-binding 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