Because CGCFinder predicted no CGC for this PUL, the gene cluster depicted below contains dbCAN2 and CGC signature predictions for all genes in the PUL, instead of a predicted CGC.


PUL ID

PUL0431

PubMed

27454490, Carbohydr Res. 2016 Sep 2;432:83-7. doi: 10.1016/j.carres.2016.07.011. Epub 2016 Jul 14.

Characterization method

sequence homology analysis, sugar utilization assay, NMR

Genomic accession number

AB812032

Nucelotide position range

1-20768

Substrate

O-antigen

Loci

BAQ01226.1-BAQ01243.1

Species

Escherichia coli/562

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

wcaM - BAQ01226.1 0 - 891 (+) AB812032.1:1-892 -
galF - BAQ01227.1 1053 - 1959 (+) AB812032.1:1054-1960 -
- - BAQ01228.1 2287 - 3301 (+) AB812032.1:2288-3302 -
gmd - BAQ01229.1 3631 - 4750 (+) AB812032.1:3632-4751 -
fcl - BAQ01230.1 4753 - 5719 (+) AB812032.1:4754-5720 -
gmm - BAQ01231.1 5718 - 6222 (+) AB812032.1:5719-6223 -
manC - BAQ01232.1 6214 - 7663 (+) AB812032.1:6215-7664 -
manB - BAQ01233.1 7666 - 9040 (+) AB812032.1:7667-9041 -
wzx - BAQ01234.1 9067 - 10288 (+) AB812032.1:9068-10289 -
- - BAQ01235.1 10268 - 11111 (+) AB812032.1:10269-11112 -
- - BAQ01236.1 11095 - 12070 (+) AB812032.1:11096-12071 -
- - BAQ01237.1 12035 - 13982 (+) AB812032.1:12036-13983 -
wzy - BAQ01238.1 13978 - 15205 (+) AB812032.1:13979-15206 -
- - BAQ01239.1 15215 - 15962 (+) AB812032.1:15216-15963 -
gnd - BAQ01240.1 16114 - 17521 (+) AB812032.1:16115-17522 -
ugd - BAQ01241.1 17769 - 18936 (+) AB812032.1:17770-18937 -
wzz - BAQ01242.1 19025 - 20060 (+) AB812032.1:19026-20061 -
hisI - BAQ01243.1 20156 - 20768 (-) AB812032.1:20157-20769 -

Cluster number

0

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 891 (+) CDS No
- 1054 - 1959 (+) CDS No
- 2288 - 3301 (+) CDS No
- 3632 - 4750 (+) CDS No
- 4754 - 5719 (+) CDS No
- 5719 - 6222 (+) STP: STP|NUDIX No
- 6215 - 7663 (+) CDS No
- 7667 - 9040 (+) CDS No
- 9068 - 10288 (+) CDS No
- 10269 - 11111 (+) CDS No
- 11096 - 12070 (+) CDS No
- 12036 - 13982 (+) CDS No
- 13979 - 15205 (+) CAZyme: GT26 No
- 15216 - 15962 (+) CDS No
- 16115 - 17521 (+) CDS No
- 17770 - 18936 (+) CDS No
- 19026 - 20060 (+) CDS No
- 20157 - 20768 (-) CDS No

PUL ID

PUL0431

PubMed

27454490, Carbohydr Res. 2016 Sep 2;432:83-7. doi: 10.1016/j.carres.2016.07.011. Epub 2016 Jul 14.

Title

Structure elucidation and gene cluster characterization of the O-antigen of Escherichia coli O80.

Author

Senchenkova SN, Guo X, Filatov AV, Perepelov AV, Liu B, Shashkov AS, Knirel YA

Abstract

Mild alkaline degradation of the lipopolysaccharide of Escherichia coli O80 afforded a polysaccharide, which was studied by sugar analysis, selective cleavage of glycosidic linkages, and (1)H and (13)C NMR spectroscopy. Solvolysis of the polysaccharide with CF3CO2H cleaved the linkages of alpha-Fuc and beta-linked GlcNAc and GalNAc residues to give two disaccharides. The following structure of the hexasaccharide repeating unit of the O-polysaccharide was established: The polysaccharide repeat also contains a minor O-acetyl group but its position was not determined. The O-antigen gene cluster of E. coli O80 between the conserved galF and gnd genes was analyzed and found to be consistent with the O-polysaccharide structure established.