SecReT6
I. Summary
SecReT6 ID796 insolico
StrainEscherichia coli LF82
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_011993
Location2926406..2954713
Comment
FunctionN/A
T6SS TypeType i; subtype i2
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111121111
ComponentTssGTssJTssKTssM
Number1111
14
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1LF82_0358 (csdA)2921592..2922797 [+], 1206222157496Cysteine sulfinate desulfinase 
2LF82_0359 (csdE)2922797..2923240 [+], 444222157497sufE-like protein ygdK 
3LF82_3159 (ygdL)2923291..2924097 [-], 807222157498hypothetical protein 
4LF82_1355 (mltA)2924174..2925271 [-], 1098222157499Membrane-bound lytic murein transglycosylase A 
5LF82_4262926406..2926906 [+], 501222157500hypothetical protein  TssB
6LF82_4272926965..2928503 [+], 1539222157501hypothetical protein  TssC
7LF82_4282928523..2929860 [+], 1338222157502hypothetical protein  TssK
8LF82_4292929857..2930522 [+], 666222157503hypothetical protein  TssL
9LF82_4302930535..2932187 [+], 1653222157504hypothetical protein  TagL
10LF82_4312932245..2932736 [+], 492222157505Secreted protein Hcp  TssD
11LF82_4322932928..2935564 [+], 2637222157506ClpB protein  TssH
12LF82_4332935564..2938038 [+], 2475222157507hypothetical protein  TssI
13LF82_4342938053..2938877 [+], 825222157508hypothetical protein 
14LF82_4352938874..2940850 [+], 1977222157509hypothetical protein 
15LF82_4362940860..2941132 [+], 273222157510hypothetical protein  PAAR
16LF82_4372941132..2942565 [+], 1434222157511hypothetical protein 
17LF82_4382942572..2945910 [+], 3339222157512hypothetical protein  TssM
18LF82_4392945903..2947513 [+], 1611222157513hypothetical protein  TssA
19LF82_4402947513..2948769 [+], 1257222157514hypothetical protein  PAAR
20LF82_4412948772..2949215 [+], 444222157515hypothetical protein 
21LF82_4422949585..2951345 [+], 1761222157516(Q66CA4) hypothetical protein  TssF
22LF82_4432951309..2952388 [+], 1080222157517hypothetical protein  TssG
23LF82_4442952369..2952905 [+], 537222157518hypothetical protein  TssJ
24LF82_4452952909..2953337 [+], 429222157519hypothetical protein  TssE
25LF82_4462953337..2954713 [+], 1377222157520hypothetical protein  TssA
26LF82_4472955013..2955960 [-], 9482221575212-hydroxy acid dehydrogenase (EC 11195) 
27LF82_4482956032..2956628 [-], 597222157522Phosphosugar isomerase 
28LF82_4492956631..2957806 [-], 1176222157523Beta-cystathionase 
29LF82_4502957806..2959386 [-], 1581222157524PTS system, maltose and glucose-specific II ABC component 
 
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
Hcp

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1LF82_4312932245..2932736 [+], 492222157505Secreted protein Hcp Hcp

Download FASTA format files
Proteins        Genes
N/A
(1) Miquel S et al. (2010). Complete Genome Sequence of Crohn's Disease-Associated Adherent-Invasive E. coli Strain LF82. PLoS One. 5(9). [PudMed:20862302] in_silico
 
in_silico This literature contains bioinformatics investigation

Genomics & Bioinformatics Group in MML, SJTU