I. Summary

SecReT6 ID	641
Strain	Helicobacter cinaedi PAGU611
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_017761
Location	1416768..1425853
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	0	0	1	0	0	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	0

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	HCN_1414	1412004..1412252 [-], 249	386762093	hypothetical protein
2	HCN_1415	1412612..1412767 [-], 156	386762094	hypothetical protein
3	HCN_1416	1412784..1414850 [-], 2067	386762095	hypothetical protein
4	HCN_1417	1414843..1415289 [-], 447	386762096	hypothetical protein
5	HCN_1418	1415270..1415731 [-], 462	386762097	hypothetical protein
6	HCN_1419	1415733..1415924 [-], 192	386762098	hypothetical protein
7	HCN_1420	1415885..1416274 [-], 390	386762099	hypothetical protein
8	HCN_1421	1416274..1416684 [-], 411	386762100	hypothetical protein
9	HCN_1422	1416768..1417670 [-], 903	402783618	type VI secretion protein VC_A0111 family	TssG
10	HCN_1423	1417667..1419391 [-], 1725	386762101	type VI secretion protein VC_A0110 family	TssF
11	HCN_1424	1419391..1419783 [-], 393	402783619	hypothetical protein	TssE
12	HCN_1425	1419786..1421240 [-], 1455	386762102	type VI secretion protein EvpB/VC_A0108 family	TssC
13	HCN_1426	1421249..1421734 [-], 486	386762103	type VI secretion protein VC_A0107 family	TssB
14	HCN_1427	1421797..1423044 [-], 1248	402783620	nucleobase:cation symporter
15	HCN_1428	1423204..1423659 [+], 456	386762104	type VI secretion lipoprotein	TssJ
16	HCN_1429	1423676..1425076 [+], 1401	386762105	type VI secretion protein VC_A0114 family	TssK
17	HCN_1430	1425086..1425853 [+], 768	402783621	type IV/VI secretion system protein	TssL
18	HCN_1431	1426367..1426804 [-], 438	386762106	hypothetical protein
19	HCN_1432	1426909..1427169 [-], 261	386762107	hypothetical protein
20	HCN_1433	1427153..1427722 [-], 570	386762108	hypothetical protein
21	HCN_1434	1427753..1428124 [-], 372	386762109	hypothetical protein
22	HCN_1435	1428139..1428504 [-], 366	386762110	hypothetical protein
23	HCN_1436	1428501..1428701 [-], 201	386762111	hypothetical protein
24	HCN_1437	1428620..1429807 [-], 1188	386762112	transcriptional regulator

 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

HH0243

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	HCN_1362	1367652..1368167 [+], 516	402783617	secreted protein Hcp	HH0243

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Proteins        Genes

N/A

(1) Goto T et al. (2012). Complete genome sequence of Helicobacter cinaedi strain PAGU611, isolated in a case of human bacteremia. J Bacteriol. 194(14):3744-5. [PudMed:22740670]

This literature contains bioinformatics investigation