I. Summary

SecReT6 ID	409
Strain	Dickeya dadantii 3937
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_014500
Location	1574284..1594564
Comment
Function	N/A
T6SS Type	Type i; subtype i1
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	0	1	0	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	Dda3937_00823	1569556..1569957 [+], 402	307130211	hypothetical protein
2	Dda3937_00822	1570055..1571092 [+], 1038	307130212	hypothetical protein
3	Dda3937_00821	1571103..1571450 [+], 348	307130213	hypothetical protein
4	Dda3937_00820	1571534..1571716 [-], 183	307130214	hypothetical protein
5	Dda3937_00819	1572150..1573313 [+], 1164	307130215	peptidase M20D, amidohydrolase
6	Dda3937_00818	1573440..1573739 [-], 300	307130216	hypothetical protein
7	Dda3937_04511	1573951..1574208 [-], 258	307130217	hypothetical protein
8	Dda3937_00817	1574284..1574787 [+], 504	307130218	protein ImpB	TssB
9	Dda3937_00816	1574819..1576297 [+], 1479	307130219	SciI protein	TssC
10	Dda3937_00815	1576304..1576735 [+], 432	307130220	hypothetical protein	TssE
11	Dda3937_00814	1576738..1578504 [+], 1767	307130221	hypothetical protein	TssF
12	Dda3937_00813	1578468..1579481 [+], 1014	307130222	SciB protein	TssG
13	Dda3937_00812	1579418..1580698 [+], 1281	307130223	hypothetical protein	Fha
14	Dda3937_00811	1580698..1581234 [+], 537	307130224	lipoprotein	TssJ
15	Dda3937_00810	1581237..1582574 [+], 1338	307130225	protein ImpJ	TssK
16	Dda3937_00809	1582591..1583367 [+], 777	307130226	chemotaxis motB protein	TssL
17	Dda3937_00808	1583383..1586001 [+], 2619	307130227	ClpB protein	TssH
18	Dda3937_00807	1586004..1587542 [+], 1539	307130228	response regulator of zinc sigma-54-dependent two-component system
19	Dda3937_00806	1587518..1588105 [+], 588	307130229	hypothetical protein
20	Dda3937_00805	1588093..1589556 [+], 1464	307130230	hypothetical protein	TssA
21	Dda3937_00804	1589582..1593079 [+], 3498	307130231	IcmF-like protein	TssM
22	Dda3937_00803	1593131..1594564 [+], 1434	307130232	hypothetical protein	TssA
23	Dda3937_00802	1594634..1596001 [+], 1368	307130233	hypothetical protein
24	Dda3937_00801	1595895..1596956 [+], 1062	307130234	hypothetical protein
25	Dda3937_00800	1597050..1597910 [-], 861	307130235	D-alanine aminotransferase
26	Dda3937_00799	1597910..1598920 [-], 1011	307130236	mandelate racemase/muconate lactonizing 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

Dda3937_01758 , ECA3427, ECA4275, ECA2866, ECA3427, Dda3937_02773, ECA3427, ECA4275

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	Dda3937_01758	907392..911696 [-], 4305	307129607	Rhs-family protein	Dda3937_01758
2	Dda3937_01760	912129..913982 [-], 1854	307129609	Rhs accessory genetic element	ECA3427
3	Dda3937_01761(hcpA)	914093..914611 [-], 519	307129610	hypothetical protein	ECA4275
4	Dda3937_00833(hcpB)	1554817..1555335 [+], 519	307130200	hypothetical protein	ECA2866
5	Dda3937_00832	1555504..1557540 [+], 2037	307130201	VgrG protein	ECA3427
6	Dda3937_02773	3131418..3135728 [-], 4311	307131672	Rhs-family protein	Dda3937_02773
7	Dda3937_02771	3136161..3138014 [-], 1854	307131674	Rhs accessory genetic element	ECA3427
8	Dda3937_02770	3138127..3138645 [-], 519	307131675	hypothetical protein	ECA4275

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Proteins        Genes

Homology Immunity protein list

Dda3937_01757, Dda3937_04645

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	Dda3937_01757	906975..907382 [-], 408	307129606	hypothetical protein	Dda3937_01757
2	Dda3937_04645	3130907..3131407 [-], 501	307131671	hypothetical protein	Dda3937_04645

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Proteins        Genes

(1) Koskiniemi S et al. (2013). Rhs proteins from diverse bacteria mediate intercellular competition. Proc Natl Acad Sci U S A. 110(17):7032-7. [PudMed:23572593]

This literature contains experimental investigation