I. Summary
SecReT6 ID650 insolico
StrainPectobacterium sp. SCC3193
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i3
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1W5S_24052589144..2589887 [-], 744470154863Phospholipase A accessory protein 
2W5S_24062589949..2590623 [-], 675470154864Fibronectin type 3 and ankyrin repeat domains 1 protein 
3W5S_24072590721..2592013 [-], 1293470154865Propable Phospholipase A1 
4W5S_24082592006..2593160 [-], 1155470154866Aec14 
5W5S_24092593163..2595301 [-], 2139470154867Type VI secretion system Vgr family protein  TssI
6W5S_24102595348..2595740 [-], 393470154868Type VI secretion protein TssI 
7W5S_24112595750..2596355 [-], 606470154869hypothetical protein 
8W5S_24122596368..2597054 [-], 687470154870QnrD 
9W5S_24132597017..2597439 [-], 423470154871Hypothetical protein 
10W5S_24142597436..2598257 [-], 822470154872Pentapeptide repeat protein 
11W5S_24152598609..2599976 [-], 1368470154873Pentapeptide repeat-containing protein 
12W5S_24162600077..2600460 [-], 384470154874Hypothetical protein 
13W5S_24172600753..2601127 [-], 375470154875Hypothetical protein 
14W5S_24182601429..2601809 [-], 381470154876Hypothetical protein 
15W5S_24192601818..2602288 [-], 471470154877Hypothetical protein 
16W5S_24202602263..2604026 [-], 1764470154878Rhs element Vgr protein  TssI
17W5S_24212604044..2605474 [-], 1431470154879Transmembrane serine/threonine-protein kinase L pknL 
18W5S_24222605504..2608113 [-], 2610470154880Type VI secretion ATPase, ClpV1 family  TssH
19W5S_24232608169..2609218 [-], 1050470154881Type VI secretion protein, VC_A0111 family  TssG
20W5S_24242609215..2611089 [-], 1875470154882Type VI secretion protein, VC_A0110 family  TssF
21W5S_24252611092..2611667 [-], 576470154883Type VI secretion system lysozyme like protein  TssE
22W5S_24262611657..2612484 [-], 828470154884Virulence protein SciE type  TagJ
23W5S_24272612501..2613478 [-], 978470154885hypothetical protein 
24W5S_24282613489..2614280 [-], 792470154886Protein serine/threonine phosphatase 
25W5S_24292614277..2616091 [-], 1815470154887Forkhead-associated (FHA) protein  Fha
26W5S_24302616352..2617011 [-], 660470154888Bacterial SH3 domain protein 
27W5S_24312617028..2617474 [-], 447470154889Hypothetical protein 
28W5S_24322617529..2618011 [-], 483470154890Type VI secretion system effector, Hcp1 family  TssD
29W5S_24332618320..2619819 [-], 1500470154891Type VI secretion protein, EvpB/VC_A0108 family  TssC
30W5S_24342619819..2620349 [-], 531470154892Type VI secretion protein, VC_A0107 family  TssB
31W5S_24352620429..2621448 [-], 1020470154893Type VI secretion-associated protein, ImpA family  TssA
32W5S_24362621460..2622167 [-], 708470154894Type VI secretion-associated protein, BMA_A0400 family 
33W5S_24372622182..2625778 [-], 3597470154895Type VI secretion protein IcmF  TssM
34W5S_24382625804..2627045 [-], 1242470154896Type IV / VI secretion system protein, DotU family  TssL
35W5S_24392627065..2628405 [-], 1341470154897Type VI secretion protein, VC_A0114 family  TssK
36W5S_24402628415..2628906 [-], 492470154898Type VI secretion lipoprotein/VasD  TssJ
37W5S_24412628933..2629502 [-], 570470154899hypothetical protein 
38W5S_24422630531..2631592 [-], 1062470154900Outer membrane protein romA 
39W5S_24432631836..2632561 [+], 726470154901Manganese ABC transporter, ATP-binding protein 
40W5S_24442632561..2633451 [+], 891470154902Manganese transport system membrane protein MntB 
41W5S_24452633458..2633745 [+], 288470154903Hypothetical protein 
flank 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

Download FASTA format files
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.

2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.

3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.

Homology Effector list
SMA2263 , ECA3427, ECA2866, ECA3427, ECA4275, ECA3427, ECA2866, ECA3427, ECA2866, ECA3427

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1W5S_24322617529..2618011 [-], 483470154890Type VI secretion system effector, Hcp1 family SMA2263
2W5S_26762897780..2899627 [-], 1848470155132VgrG protein ECA3427
3W5S_26772899816..2900334 [-], 519470155133Hcp protein ECA2866
4W5S_35153783859..3785688 [-], 1830470155955VgrG protein ECA3427
5W5S_35163785810..3786328 [-], 519470155956Hcp protein ECA4275
6W5S_35903853714..3855396 [-], 1683470156029VgrG protein ECA3427
7W5S_39564273780..4274298 [+], 519470156389Hcp protein ECA2866
8W5S_39574274487..4276319 [+], 1833470156390VgrG protein ECA3427
9W5S_44254779823..4780341 [+], 519470156841Hcp protein ECA2866
10W5S_44264780530..4782566 [+], 2037470156842VgrG protein ECA3427

Download FASTA format files
Proteins        Genes
(1) Nykyri J et al. (2012). Revised Phylogeny and Novel Horizontally Acquired Virulence Determinants of the Model Soft Rot Phytopathogen Pectobacterium wasabiae SCC3193. PLoS Pathog. 8(11):e1003013. [PudMed:23133391] experimental in_silico
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation