I. Summary

SecReT6 ID	258
Strain	Yersinia pseudotuberculosis YPIII
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_010465
Location	1619849..1653371
Comment
Function	N/A
T6SS Type	Type i; subtype i3
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	2	1	1	1	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	YPK_1464	1616059..1617153 [+], 1095	170023705	murein hydrolase B
2	YPK_1465	1618395..1618997 [+], 603	170023706	LuxR family transcriptional regulator
3	YPK_1466	1619370..1619852 [-], 483	170023707	hypothetical protein
4	YPK_1467	1619849..1621531 [-], 1683	170023708	OmpA/MotB domain-containing protein	TagL
5	YPK_1468	1621532..1622233 [-], 702	170023709	hypothetical protein
6	YPK_1469	1622230..1623567 [-], 1338	170023710	hypothetical protein
7	YPK_1470	1623607..1624638 [-], 1032	170023711	hypothetical protein
8	YPK_1471	1624645..1625838 [-], 1194	170023712	ImpA domain-containing protein	TssA
9	YPK_1472	1625937..1626962 [-], 1026	170023713	type VI secretion protein	TssG
10	YPK_1473	1626962..1628842 [-], 1881	170023714	type VI secretion protein	TssF
11	YPK_1474	1629626..1632283 [+], 2658	170023715	type VI secretion ATPase	TssH
12	YPK_1475	1632494..1633039 [+], 546	170023716	fimbrial protein
13	YPK_1476	1633196..1633957 [+], 762	170023717	pili assembly chaperone
14	YPK_1477	1634085..1636757 [+], 2673	170023718	fimbrial biogenesis outer membrane usher protein
15	YPK_1478	1636742..1637350 [+], 609	170023719	fimbrial protein
16	YPK_1479	1637456..1637980 [+], 525	170023720	type VI secretion protein	TssB
17	YPK_1480	1638004..1639506 [+], 1503	170023721	EvpB family type VI secretion protein	TssC
18	YPK_1481	1639755..1640324 [+], 570	170023722	Hcp1 family type VI secretion system effector	TssD
19	YPK_1482	1640577..1641137 [+], 561	170023723	hypothetical protein	TssJ
20	YPK_1483	1641141..1642490 [+], 1350	170023724	type VI secretion protein	TssK
21	YPK_1484	1642487..1643863 [+], 1377	170023725	type VI secretion system OmpA/MotB family protein	TssL
22	YPK_1485	1643872..1647699 [+], 3828	170023726	type VI secretion protein IcmF	TssM
23	YPK_1486	1648026..1650794 [+], 2769	170023727	ImpA family type VI secretion-associated protein	TssI
24	YPK_1487	1650893..1651153 [+], 261	170023728	hypothetical protein	PAAR
25	YPK_1488	1651153..1652001 [+], 849	170023729	hypothetical protein
26	YPK_1489	1652021..1652827 [+], 807	170023730	virulence protein SciE type	TagJ
27	YPK_1490	1652892..1653371 [+], 480	170023731	type VI secretion system lysozyme-like protein	TssE
28	YPK_1491	1653396..1653743 [+], 348	170023732	hypothetical protein
29	YPK_1492	1653818..1654159 [-], 342	170023733	alkylphosphonate utilization operon protein PhnA
30	YPK_1493	1654535..1656574 [-], 2040	170023734	hypothetical protein
31	YPK_1494	1656579..1657121 [-], 543	170023735	LemA family protein
32	YPK_1495	1657738..1658205 [+], 468	170023736	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

ROD_27741

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	YPK_1481	1639755..1640324 [+], 570	170023722	Hcp1 family type VI secretion system effector	ROD_27741

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Proteins        Genes

N/A

(1) Zhang W et al. (2012). A type VI secretion system regulated by OmpR in Yersinia pseudotuberculosis functions to maintain intracellular pH homeostasis. Environ Microbiol. 15(2):557-69. [PudMed:23094603]

(2) Zhang W et al. (2011). Modulation of a thermoregulated type VI secretion system by AHL-dependent quorum sensing in Yersinia pseudotuberculosis. Arch Microbiol. 193(5):351-63. [PudMed:21298257]

This literature contains experimental investigation