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

PUL0184

PubMed

27058293, Carbohydr Res. 2016 May 13;426:26-32. doi: 10.1016/j.carres.2016.03.011. Epub 2016 Mar 29.

Characterization method

NMR, sugar utilization assay

Genomic accession number

AB812045

Nucelotide position range

517-20808

Substrate

O-antigen

Loci

galF-rmlB-rmlD-rmlA-rmlC-wegS-wzx-orf7-wzy-orf9-orf10-gnd

Species

Escherichia coli/562

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

wcaM - BAQ01447.1 517 - 1909 (+) AB812045.1:1034-2426 -
galF - BAQ01448.1 2084 - 2981 (+) AB812045.1:2601-3498 -
rmlB - BAQ01449.1 3320 - 4403 (+) AB812045.1:3837-4920 -
rmlD - BAQ01450.1 4405 - 5305 (+) AB812045.1:4922-5822 -
rmlA - BAQ01451.1 5357 - 6236 (+) AB812045.1:5874-6753 -
rmlC - BAQ01452.1 6239 - 6788 (+) AB812045.1:6756-7305 -
- - BAQ01453.1 6789 - 7194 (+) AB812045.1:7306-7711 -
wzx - BAQ01454.1 7206 - 8448 (+) AB812045.1:7723-8965 -
- - BAQ01455.1 8431 - 9628 (+) AB812045.1:8948-10145 -
wzy - BAQ01456.1 9661 - 10831 (+) AB812045.1:10178-11348 -
- - BAQ01457.1 10839 - 11781 (+) AB812045.1:11356-12298 -
- - BAQ01458.1 11787 - 12936 (+) AB812045.1:12304-13453 -
gnd - BAQ01459.1 13082 - 14489 (+) AB812045.1:13599-15006 -
ugd - BAQ01460.1 14712 - 15879 (+) AB812045.1:15229-16396 -
- - BAQ01461.1 15930 - 16992 (-) AB812045.1:16447-17509 -
- - BAQ01462.1 17019 - 17838 (-) AB812045.1:17536-18355 -
- - BAQ01463.1 17922 - 19074 (-) AB812045.1:18439-19591 -
wzz - BAQ01464.1 19616 - 20597 (+) AB812045.1:20133-21114 -
hisI - BAQ01465.1 20635 - 20808 (-) AB812045.1:21152-21325 -

Cluster number

0

Gene name

Gene position

Gene type

Found by CGCFinder?

- 518 - 1909 (+) CDS No
- 2085 - 2981 (+) CDS No
- 3321 - 4403 (+) CDS No
- 4406 - 5305 (+) CDS No
- 5358 - 6236 (+) CDS No
- 6240 - 6788 (+) CDS No
- 6790 - 7194 (+) CDS No
- 7207 - 8448 (+) CDS No
- 8432 - 9628 (+) CDS No
- 9662 - 10831 (+) CAZyme: GT4 No
- 10840 - 11781 (+) CDS No
- 11788 - 12936 (+) CDS No
- 13083 - 14489 (+) CDS No
- 14713 - 15879 (+) CDS No
- 15931 - 16992 (-) CDS No
- 17020 - 17838 (-) CDS No
- 17923 - 19074 (-) CDS No
- 19031 - 19399 (-) CDS No
- 19617 - 20597 (+) CDS No
- 20636 - 20808 (-) CDS No

PUL ID

PUL0184

PubMed

27058293, Carbohydr Res. 2016 May 13;426:26-32. doi: 10.1016/j.carres.2016.03.011. Epub 2016 Mar 29.

Title

Structures and genetics of biosynthesis of glycerol 1-phosphate-containing O-polysaccharides of Escherichia coli O28ab, O37, and O100.

Author

Shashkov AS, Yang B, Senchenkova SN, Perepelov AV, Liu B, Knirel YA

Abstract

O-polysaccharides of E. coli O28ab, O37, and O100 were found to contain glycerol 1-phosphate and the following structures of their oligosaccharide repeats were established by sugar analysis, Smith degradation (for O28ab), 1D and 2D (1)H, (13)C, and (13)P NMR spectroscopy: [Formula: see text]. Functions of putative glycosyltransferases genes in the O-antigen gene clusters of the strains studied were tentatively assigned based on similarities to genes of other E. coli O-serogroups available from GenBank and taking into account the O-polysaccharide structures established.