I. Summary
SecReT6 ID62 insolico
StrainYersinia pseudotuberculosis IP32953
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
1YPTB0630747614..748078 [+], 46551594981hypothetical protein 
2YPTB0631 (apaH)748168..749037 [-], 87051594982diadenosine tetraphosphatase 
3YPTB0632 (apaG)749054..749431 [-], 37851594983ApaG protein 
4YPTB0633 (ksgA)749445..750263 [-], 81951594984dimethyladenosine transferase 
5YPTB0634 (pdxA)750256..751251 [-], 996515949854-hydroxythreonine-4-phosphate dehydrogenase 
6YPTB0635 (surA)751235..752539 [-], 130551594986peptidyl-prolyl cis-trans isomerase SurA 
7YPTB0636 (imp)752607..754949 [-], 234351594987organic solvent tolerance protein 
8YPTB0637 (djlA)755134..755967 [+], 83451594988Dna-J like membrane chaperone protein 
9YPTB0638 (rluA)756284..756904 [-], 6215159498923S rRNA pseudouridylate 746 synthase 
10YPTB0639758127..758870 [-], 74451594990hypothetical protein 
11YPTB0640759200..760213 [+], 101451594991hypothetical protein  TssA
12YPTB0641760224..760784 [+], 56151594992hypothetical protein  TssB
13YPTB0642760784..762295 [+], 151251594993hypothetical protein  TssC
14YPTB0643762458..762976 [+], 51951594994hypothetical protein  TssD
15YPTB0644763050..763493 [+], 44451594995hypothetical protein  TssE
16YPTB0645763526..765370 [+], 184551594996hypothetical protein  TssF
17YPTB0646765363..766346 [+], 98451594997hypothetical protein  TssG
18YPTB0647 (clpB)766349..768952 [+], 260451594998ATP-dependent protease, Hsp 100, part of novel multi-chaperone system with DnaK, DnaJ, and GrpE  TssH
19YPTB0648769056..771404 [+], 234951594999hypothetical protein  TssI
20YPTB0649771417..773636 [+], 222051595000hypothetical protein 
21YPTB0650773662..774765 [+], 110451595001hypothetical protein 
22YPTB0651774758..775375 [+], 61851595002hypothetical protein 
23YPTB0652775381..775746 [+], 36651595003hypothetical protein  PAAR
24YPTB0653775739..776230 [+], 49251595004lipoprotein  TssJ
25YPTB0654776350..777705 [+], 135651595005hypothetical protein  TssK
26YPTB0655777702..779312 [+], 161151595006hypothetical protein  TssL
27YPTB0656779321..782815 [+], 349551595007hypothetical protein  TssM
28YPTB0657782837..783190 [+], 35451595008hypothetical protein 
29YPTB0658 (rapA)783446..786352 [-], 290751595009ATP-dependent helicase HepA 
30YPTB0659 (polB)786813..789182 [-], 237051595010DNA polymerase II 
31YPTB0660789378..790145 [+], 76851595011DedA family membrane protein 
32YPTB0661 (thiQ)790214..790924 [-], 711229310105thiamine transporter ATP-binding subunit 
33YPTB0662 (thiP)790911..792518 [-], 160851595013thiamine transporter membrane protein 
34YPTB0663 (tbpA)792494..793486 [-], 99351595014thiamine transporter substrate binding subunit 
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
YPK_3563 , YPK_3558

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1YPTB0643762458..762976 [+], 51951594994hypothetical protein YPK_3563
2YPTB0648769056..771404 [+], 234951594999hypothetical protein YPK_3558

Download FASTA format files
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