I. Summary

SecReT6 ID	846
Strain	Variovorax paradoxus B4
Replicon	chromosome I [Browse all T6SS(s) in this replicon]
Accession	NC_022247
Location	646308..695965
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	1	1	2	1	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	2

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	VAPA_1c05890	641958..643847 [-], 1890	538392819	putative signal transduction histidine kinase
2	VAPA_1c05900	644084..645103 [+], 1020	538392820	putative phosphonate ABC transporter, periplasmic protein
3	VAPA_1c05910	645118..646164 [+], 1047	538392821	putative phosphonate ABC transporter, periplasmic protein
4	VAPA_1c05920	646308..647639 [+], 1332	538392822	type VI secretion protein	TssK
5	VAPA_1c05930	647672..649000 [+], 1329	538392823	putative type IV / VI secretion system protein, DotU family	TssL
6	VAPA_1c05940 (icmF2)	648997..652596 [+], 3600	538392824	putative type VI secretion protein IcmF	TssM
7	VAPA_1c05950	652602..653225 [+], 624	538392825	putative type VI secretion-associated protein, BMA_A0400 family
8	VAPA_1c05960	653323..655227 [+], 1905	538392826	putative protein kinase
9	VAPA_1c05970 (mltA1)	655281..656897 [+], 1617	538392827	putative lytic murein transglycosylase MltA
10	VAPA_1c05980	657002..657751 [+], 750	538392828	hypothetical protein
11	VAPA_1c05990	657780..658931 [+], 1152	538392829	hypothetical protein
12	VAPA_1c06000	659057..661033 [+], 1977	538392830	putative peptidase
13	VAPA_1c06010	661068..661625 [+], 558	538392831	hypothetical protein
14	VAPA_1c06020	661627..662427 [+], 801	538392832	ImpE family protein	TagJ
15	VAPA_1c06030	662430..662945 [+], 516	538392833	putative type VI secretion system protein, lysozyme-like protein	TssE
16	VAPA_1c06040	662953..664845 [+], 1893	538392834	type VI secretion protein, VC_A0110 family	TssF
17	VAPA_1c06050	664842..665990 [+], 1149	538392835	type VI secretion protein, VC_A0111 family	TssG
18	VAPA_1c06060	665987..667321 [+], 1335	538392836	putative methyltransferase
19	VAPA_1c06070 (clpV1)	667391..670120 [+], 2730	538392837	type VI secretion ATPase, ClpV1 family	TssH
20	VAPA_1c06080	670146..673043 [+], 2898	538392838	type VI secretion system protein, Vgr family	TssI
21	VAPA_1c06090	673065..675659 [+], 2595	538392839	pentapeptide repeats-containing protein
22	VAPA_1c06100	675656..676708 [+], 1053	538392840	pentapeptide repeats-containing protein
23	VAPA_1c06110	676750..677430 [+], 681	538392841	hypothetical protein
24	VAPA_1c06120	677443..677838 [+], 396	538392842	hypothetical protein
25	VAPA_1c06130	677885..680263 [+], 2379	538392843	putative type VI secretion system protein, Vgr family	TssI
26	VAPA_1c06140	680285..680767 [+], 483	538392844	hypothetical protein
27	VAPA_1c06150	680784..681908 [+], 1125	538392845	hypothetical protein
28	VAPA_1c06160	681905..682948 [+], 1044	538392846	thiolase-like domain-containing protein
29	VAPA_1c06170	683022..684170 [+], 1149	538392847	hypothetical protein
30	VAPA_1c06180	684185..685069 [+], 885	538392848	hypothetical protein
31	VAPA_1c06190	685090..686373 [+], 1284	538392849	hypothetical protein
32	VAPA_1c06200	686651..688327 [+], 1677	538392850	putative type VI secretion system protein, FHA domain-containing	Fha
33	VAPA_1c06210	688403..689242 [+], 840	538392851	putative protein phosphatase
34	VAPA_1c06220	689265..689801 [-], 537	538392852	N-acetylmuramoyl-L-alanine amidase domain-containing protein
35	VAPA_1c06230	689829..690389 [-], 561	538392853	hypothetical protein
36	VAPA_1c06240	690461..690943 [-], 483	538392854	putative type VI secretion system effector, Hcp1 family	TssD
37	VAPA_1c06250	691087..692580 [-], 1494	538392855	type VI secretion protein, EvpB/VC_A0108 family	TssC
38	VAPA_1c06260	692621..693139 [-], 519	538392856	type VI secretion protein, VC_A0107 family	TssB
39	VAPA_1c06270	693212..694243 [-], 1032	538392857	type VI secretion-associated protein, ImpA family	TssA
40	VAPA_1c06280	694315..694827 [+], 513	538392858	putative type VI secretion lipoprotein, VC_A0113 family	TssJ
41	VAPA_1c06290	694847..695965 [-], 1119	538392859	ImcF-like N-terminal domain-containing protein	TssM
42	VAPA_1c06300	695988..697316 [-], 1329	538392860	putative type IV/VI secretion system protein, DotU family
43	VAPA_1c06310	697580..698263 [+], 684	538392861	transcriptional regulator, LuxR family
44	VAPA_1c06320	698284..699615 [-], 1332	538392862	putative flavin-dependent oxidoreductase
45	VAPA_1c06330	699651..699926 [-], 276	538392863	hypothetical protein
46	VAPA_1c06340	699926..700924 [-], 999	538392864	AIR synthase-like protein, sll0787 family

 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):

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