I. Summary
SecReT6 ID66 insolico
StrainYersinia pseudotuberculosis IP32953
Repliconchromosome [Browse all T6SS(s) in this replicon]
T6SS TypeType i; subtype i1
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
1YPTB3604 (ssuD)4287823..4288971 [-], 114951597895alkanesulfonate monooxygenase 
2YPTB3605 (ssuA)4288990..4290096 [-], 110751597896alkanesulfonate transporter substrate-binding subunit 
3YPTB3606 (ssuE)4290111..4290692 [-], 58251597897NAD(P)H-dependent FMN reductase 
4YPTB36074291163..4291864 [+], 70251597898deoxyribose-phosphate aldolase 
5YPTB36084292045..4292974 [+], 93051597899carbohydrate kinase 
6YPTB36094292980..4293483 [+], 50451597900carbohydrate transport protein 
7YPTB36104293643..4294521 [-], 87951597901AraC family transcriptional regulator 
8YPTB36114294779..4295909 [+], 113151597902oxidoreductase 
9YPTB36124295906..4296805 [+], 90051597903hypothetical protein 
10YPTB36134297082..4297327 [-], 24651597904Rhs accessory genetic element  TssI
11YPTB36144297516..4297797 [-], 28251597905hypothetical protein 
12YPTB36154297794..4302356 [-], 456351597906hypothetical protein  PAAR
13YPTB36164302401..4302823 [-], 42351597907hypothetical protein 
14YPTB36174302826..4305024 [-], 219951597908Rhs accessory genetic element  TssI
15YPTB36184305385..4305792 [+], 40851597909transcriptional regulatory protein 
16YPTB36194306095..4306448 [+], 35451597910hypothetical protein 
17YPTB36204306508..4307125 [-], 61851597911hypothetical protein 
18YPTB36214307136..4311404 [-], 426951597912hypothetical protein  PAAR
19YPTB36224311397..4311855 [-], 45951597913hypothetical protein 
20YPTB36234311861..4314080 [-], 222051597914Rhs accessory genetic element  TssI
21YPTB36244314102..4315415 [-], 131451597915hypothetical protein  TssA
22YPTB36254315540..4319073 [-], 353451597916hypothetical protein  TssM
23YPTB36264319105..4320493 [-], 138951597917hypothetical protein  TssA
24YPTB36274320499..4321185 [-], 68751597918hypothetical protein 
25YPTB36284321182..4321979 [-], 79851597919hypothetical protein 
26YPTB3629 (clpB2)4321976..4324579 [-], 260451597920Clp ATPase  TssH
27YPTB36304324590..4325357 [-], 76851597921hypothetical protein  TssL
28YPTB36314325357..4326703 [-], 134751597922hypothetical protein  TssK
29YPTB36324326706..4327251 [-], 54651597923lipoprotein  TssJ
30YPTB36334327251..4328567 [-], 131751597924hypothetical protein  Fha
31YPTB36344328693..4329781 [-], 108951597925hypothetical protein  TssG
32YPTB36354329745..4331565 [-], 182151597926hypothetical protein  TssF
33YPTB36364331565..4332005 [-], 44151597927hypothetical protein  TssE
34YPTB36374332012..4333493 [-], 148251597928hypothetical protein  TssC
35YPTB36384333561..4334058 [-], 49851597929hypothetical protein  TssB
36YPTB36394334582..4335100 [+], 51951597930hypothetical protein  TssD
37YPTB36404335252..4335530 [-], 27951597931hypothetical protein 
38YPTB3641 (malM)4336002..4336913 [-], 91251597932maltose regulon periplasmic protein 
39YPTB3642 (lamB)4337154..4338425 [-], 127251597933maltoporin 
40YPTB3643 (malK)4338496..4339605 [-], 111051597934maltose ABC transporter ATP-binding protein 
41YPTB36444339609..4339845 [-], 23751597935hypothetical protein 
42YPTB3645 (malE)4340433..4341644 [+], 121251597936maltose ABC transporter substrate-binding protein 
43YPTB3646 (malF)4341831..4343408 [+], 157851597937maltose transporter membrane protein 
44YPTB3647 (malG)4343422..4344312 [+], 89151597938maltose ABC transporter permease 
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

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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.

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

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1YPTB36394334582..4335100 [+], 51951597930hypothetical protein ECA2866

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Proteins        Genes
(1) 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] in_silico
in_silico This literature contains bioinformatics investigation