I. Summary

SecReT6 ID	52
Strain	Photorhabdus luminescens subsp. laumondii TTO1
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_005126
Location	3805730..3880777
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	0	1	0	3	0	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	3

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	plu3218	3805730..3806371 [-], 642	37527101	hypothetical protein
2	plu3219	3807331..3808020 [+], 690	37527102	hypothetical protein
3	plu3220	3808060..3808746 [+], 687	37527103	hypothetical protein
4	plu3221	3809059..3809727 [+], 669	37527104	hypothetical protein
5	plu3222	3810052..3810480 [-], 429	37527105	hypothetical protein	TssE
6	plu3223	3810485..3811024 [-], 540	37527106	hypothetical protein	TssJ
7	plu3224	3811002..3812090 [-], 1089	37527107	hypothetical protein	TssG
8	plu3225	3812054..3813814 [-], 1761	37527108	hypothetical protein	TssF
9	plu3226	3814341..3815324 [-], 984	37527109	hypothetical protein
10	plu3227	3815368..3817845 [-], 2478	37527110	hypothetical protein
11	plu3228	3817833..3818345 [-], 513	37527111	hypothetical protein
12	plu3229	3818397..3818909 [-], 513	37527112	hypothetical protein
13	plu3230	3818983..3819219 [+], 237	37527113	hypothetical protein
14	plu3231	3819697..3823068 [-], 3372	37527114	hypothetical protein	TssM
15	plu3232	3823065..3824144 [-], 1080	37527115	hypothetical protein
16	plu3233	3824164..3824403 [-], 240	37527116	hypothetical protein
17	plu3234	3824416..3824649 [-], 234	37527117	hypothetical protein
18	plu3235	3824737..3825843 [-], 1107	37527118	hypothetical protein
19	plu3236	3825840..3827456 [-], 1617	37527119	hypothetical protein
20	plu3237	3827457..3829982 [-], 2526	37527120	hypothetical protein	TssI
21	plu3238	3830821..3834171 [-], 3351	37527121	hypothetical protein	TssM
22	plu3239	3834188..3835339 [-], 1152	37527122	hypothetical protein
23	plu3240	3835336..3835593 [-], 258	37527123	hypothetical protein	PAAR
24	plu3241	3835590..3838079 [-], 2490	37527124	hypothetical protein
25	plu3242	3838067..3838579 [-], 513	37527125	hypothetical protein
26	plu3243	3838631..3839143 [-], 513	37527126	hypothetical protein
27	plu3244	3839195..3839710 [-], 516	37527127	hypothetical protein
28	plu3245	3839720..3840502 [-], 783	37527128	hypothetical protein
29	plu3246	3840506..3842905 [-], 2400	37527129	hypothetical protein	TssI
30	plu3247	3843641..3847012 [-], 3372	37527130	hypothetical protein	TssM
31	plu3248	3847009..3848127 [-], 1119	37527131	hypothetical protein
32	plu3249	3848348..3848581 [-], 234	37527132	hypothetical protein
33	plu3250	3848669..3849718 [-], 1050	37527133	hypothetical protein
34	plu3251	3849897..3850988 [-], 1092	37527134	hypothetical protein
35	plu3252	3850981..3852591 [-], 1611	37527135	hypothetical protein
36	plu3253	3852594..3855122 [-], 2529	37527136	hypothetical protein	TssI
37	plu3254	3855299..3855790 [-], 492	37527137	hypothetical protein	TssD
38	plu3255	3855809..3857536 [-], 1728	37527138	hypothetical protein	TagL
39	plu3256	3857912..3858214 [+], 303	37527139	hypothetical protein
40	plu3257	3858208..3858543 [+], 336	37527140	hypothetical protein
41	plu3258	3858607..3860112 [+], 1506	37527141	hypothetical protein
42	plu3260	3860551..3861900 [-], 1350	37527142	hypothetical protein	TssK
43	plu3261	3861916..3863442 [-], 1527	37527143	hypothetical protein	TssC
44	plu3262	3863474..3863971 [-], 498	37527144	hypothetical protein	TssB
45	plu3263	3865127..3880777 [-], 15651	37527145	hypothetical protein
46	plu3264	3880897..3881043 [-], 147	37527146	hypothetical protein
47	plu3266 (ISPlu3O)	3882983..3884008 [+], 1026	37527147	IS630 family transposase

 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
1	plu3254	3855299..3855790 [-], 492	37527137	hypothetical protein	EC042_4529

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Proteins        Genes

N/A

Regulatory element identified

LuxS

Regulator	Description	Reference
LuxS (plu1253)	Indirect repressor	PMID: 20511495

(1) Bernard CS et al. (2010). Nooks and crannies in type VI secretion regulation. J Bacteriol. 192(15):3850-60. [PudMed:20511495]

(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]

This literature contains bioinformatics investigation