Home Repository Download Help About Statistics Taxonomy Blastx
Links
PULDB
CAZy
dbCAN2
dbCAN-seq
run_dbcan
CAZypedia
PlantCAZyme
Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0286

PubMed

23163869, FEMS Immunol Med Microbiol. 2012 Dec;66(3):382-92. doi: 10.1111/1574-695X.12002.

Characterization method

NMR,mass spectrometry,sugar utilization assay

Genomic accession number

HM583640.1

Nucelotide position range

2273-19017

Substrate

O-antigen

Loci

AEB61510.1-AEB61525.1

Species

Providencia alcalifaciens/126385

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

qdtf - AEB61510.1 2273 - 3467 (+) HM583640.1:4546-5740 -
rmlA - AEB61511.1 3557 - 4439 (+) HM583640.1:5830-6712 -
qdtA - AEB61512.1 4425 - 4830 (+) HM583640.1:6698-7103 -
qdtB - AEB61513.1 4929 - 6051 (+) HM583640.1:7202-8324 -
wzx - AEB61514.1 6050 - 7298 (+) HM583640.1:8323-9571 -
wpaA - AEB61515.1 7305 - 8229 (+) HM583640.1:9578-10502 -
wzy - AEB61516.1 8264 - 9305 (+) HM583640.1:10537-11578 -
wpaB - AEB61517.1 9327 - 10533 (+) HM583640.1:11600-12806 -
wpaC - AEB61518.1 10519 - 10975 (+) HM583640.1:12792-13248 -
ugd - AEB61519.1 11015 - 12182 (+) HM583640.1:13288-14455 -
wpaD - AEB61520.1 12135 - 12930 (+) HM583640.1:14408-15203 -
gne - AEB61521.1 12945 - 13893 (+) HM583640.1:15218-16166 -
galE - AEB61522.1 13943 - 14969 (+) HM583640.1:16216-17242 -
wza - AEB61523.1 15325 - 16474 (+) HM583640.1:17598-18747 -
wzb - AEB61524.1 16479 - 16908 (+) HM583640.1:18752-19181 -
wzc - AEB61525.1 16935 - 19017 (+) HM583640.1:19208-21290 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 2274 - 3467 (+) CDS No
- 3558 - 4439 (+) CDS No
- 4426 - 4830 (+) CDS No
- 4930 - 6051 (+) STP: STP|Aminotran_1_2 No
- 6051 - 7298 (+) CDS No
- 7306 - 8229 (+) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 8265 - 9305 (+) other Yes
- 9328 - 10533 (+) CAZyme: GT4 Yes
- 10520 - 10975 (+) other Yes
- 11016 - 12182 (+) other Yes
- 12136 - 12930 (+) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 12946 - 13893 (+) other Yes
- 13944 - 14969 (+) other Yes
- 15326 - 16474 (+) TC: gnl|TC-DB|P0A930|1.B.18.3.1 Yes
- 16480 - 16908 (+) other Yes
- 16936 - 19017 (+) TC: gnl|TC-DB|P76387|8.A.3.3.2 Yes

PUL ID

PUL0286

PubMed

23163869, FEMS Immunol Med Microbiol. 2012 Dec;66(3):382-92. doi: 10.1111/1574-695X.12002.

Title

Structural, serological, and genetic characterization of the O-antigen of Providencia alcalifaciens O40.

Author

Ovchinnikova OG, Liu B, Guo D, Kocharova NA, Bialczak-Kokot M, Shashkov AS, Feng L, Rozalski A, Wang L, Knirel YA

Abstract

The O-polysaccharide chain of the lipopolysaccharide (O-antigen) on the bacterial cell surface is one of the most structurally variable cell components and serves as a basis for serotyping of Gram-negative bacteria, including human opportunistic pathogens of the genus Providencia. In this work, the O-antigen of Providencia alcalifaciens O40 was obtained by mild acid degradation of the isolated lipopolysaccharide and studied by chemical methods and high-resolution NMR spectroscopy. The following structure of the O-polysaccharide was established: -->4)-beta-D-Quip3NFo-(1-->3)-alpha-D-Galp-(1-->3)-beta-D-GlcpA-(1-->3)-beta-D-GalpNAc-(1-->, where GlcA stands for glucuronic acid and Qui3NFo for 3,6-dideoxy-3-formamidoglucose. The O40-antigen was found to be structurally and serologically related to the O-antigens of P. alcalifaciens O5 and Providencia stuartii O18. The O40-antigen gene cluster between cpxA and yibK was sequenced, and the gene functions were predicted in silico. In agreement with the O-polysaccharide structure established, the genes for the synthesis of dTDP-D-Qui3NFo, UDP-D-Gal, UDP-D-GlcA, and UDP-D-GalNAc as well as those encoding three glycosyltransferases, flippase (Wzx), and O-antigen polymerase (Wzy) were recognized. In addition, homologues of wza, wzb, and wzc genes, which are required for the surface expression of capsular polysaccharides, were found within the gene cluster, suggesting that the O-polysaccharide studied is a part of the capsule-related form of the lipopolysaccharide called K(LPS).