PUL ID

PUL0060

PubMed

31421354, Carbohydr Res. 2019 Oct 1;484:107774. doi: 10.1016/j.carres.2019.107774. Epub 2019 Aug 8.

Characterization method

NMR, sequence homology analysis

Genomic accession number

MK399425.1

Nucelotide position range

27-29927

Substrate

capsule polysaccharide

Loci

wzc- wzb- wza- gna+ wzx+ gtr75+ gtr76+ wzy+ gtr25+ gtr5+ itrA2+ gaIU+ ugd+ gpi+ gen1+ pgt1+ pgm-

Species

Acinetobacter baumannii/470

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

mviN - QBM04662.1 27 - 1569 (+) MK399425.1:54-1596 -
fklB - QBM04679.1 1614 - 2310 (-) MK399425.1:1641-2337 -
fkpA - QBM04680.1 2359 - 3082 (-) MK399425.1:2386-3109 -
wzc - QBM04681.1 3274 - 5473 (-) MK399425.1:3301-5500 -
wzb - QBM04682.1 5494 - 5923 (-) MK399425.1:5521-5950 -
wza - QBM04683.1 5924 - 7025 (-) MK399425.1:5951-7052 -
gna - QBM04663.1 7229 - 8507 (+) MK399425.1:7256-8534 -
wzx - QBM04664.1 8509 - 9799 (+) MK399425.1:8536-9826 -
gtr75 - QBM04665.1 9798 - 10746 (+) MK399425.1:9825-10773 -
gtr76 - QBM04666.1 10895 - 11879 (+) MK399425.1:10922-11906 -
wzy - QBM04667.1 11982 - 12951 (+) MK399425.1:12009-12978 -
gtr25 - QBM04668.1 12964 - 13999 (+) MK399425.1:12991-14026 -
gtr5 - QBM04669.1 14005 - 14833 (+) MK399425.1:14032-14860 -
itrA3 - QBM04670.1 14833 - 15466 (+) MK399425.1:14860-15493 -
galU - QBM04671.1 15490 - 16366 (+) MK399425.1:15517-16393 -
ugd - QBM04672.1 16481 - 17744 (+) MK399425.1:16508-17771 -
gpi - QBM04673.1 17740 - 19411 (+) MK399425.1:17767-19438 -
gne1 - QBM04674.1 19403 - 20423 (+) MK399425.1:19430-20450 -
pgt1 - QBM04675.1 20558 - 22400 (+) MK399425.1:20585-22427 -
pgm - QBM04685.1 22426 - 23797 (+) MK399425.1:22453-23824 -
lldP - QBM04676.1 24171 - 25833 (-) MK399425.1:24198-25860 -
lldD - QBM04684.1 25852 - 26605 (+) MK399425.1:25879-26632 -
lldP - QBM04677.1 26601 - 27753 (+) MK399425.1:26628-27780 -
ldhD - QBM04678.1 28196 - 29927 (+) MK399425.1:28223-29954 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 28 - 1569 (+) TC: gnl|TC-DB|D0WY71|2.A.66.4.5 Yes
- 1615 - 2310 (-) other Yes
- 2360 - 3082 (-) other Yes
- 3275 - 5473 (-) TC: gnl|TC-DB|Q45409|8.A.3.3.3 Yes
- 5495 - 5923 (-) other Yes
- 5925 - 7025 (-) TC: gnl|TC-DB|P0A930|1.B.18.3.1 Yes
- 7230 - 8507 (+) other Yes
- 8510 - 9799 (+) other Yes
- 9799 - 10746 (+) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 10896 - 11879 (+) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 11983 - 12951 (+) other Yes
- 12965 - 13999 (+) CAZyme: GT4 Yes
- 14006 - 14833 (+) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 14834 - 15466 (+) TC: gnl|TC-DB|H8E4X1|9.B.18.1.2 Yes
- 15491 - 16366 (+) other Yes
- 16482 - 17744 (+) other Yes
- 17741 - 19411 (+) other Yes
- 19404 - 20423 (+) other Yes
- 20559 - 22400 (+) other Yes
- 22427 - 23797 (-) other Yes
- 24172 - 25833 (+) TC: gnl|TC-DB|P33231|2.A.14.1.1 Yes
- 25853 - 26605 (+) TF: DBD-Pfam|GntR,DBD-SUPERFAMILY|0039384 No
- 26602 - 27753 (+) CDS No
- 28197 - 29927 (+) CDS No

PUL ID

PUL0060

PubMed

31421354, Carbohydr Res. 2019 Oct 1;484:107774. doi: 10.1016/j.carres.2019.107774. Epub 2019 Aug 8.

Title

Acinetobacter baumannii K116 capsular polysaccharide structure is a hybrid of the K14 and revised K37 structures.

Author

Shashkov AS, Cahill SM, Arbatsky NP, Westacott AC, Kasimova AA, Shneider MM, Popova AV, Shagin DA, Shelenkov AA, Mikhailova YV, Yanushevich YG, Edelstein MV, Kenyon JJ, Knirel YA

Abstract

The genome of Acinetobacter baumannii clinical isolate, MAR-303, recovered in Russia was sequenced and found to contain a novel gene cluster at the A. baumannii K locus for capsule biosynthesis. The gene cluster, designated KL116, included four genes for glycosyltransferases (Gtrs) and a gene for a Wzy polymerase responsible for joining oligosaccharide K units into the capsular polysaccharide (CPS). The arrangement of KL116 was a hybrid of previously described A. baumannii gene clusters, with two gtr genes and the wzy gene shared by KL37 and the two other gtr genes found in KL14. The structure of the K116 CPS was established by sugar analysis and Smith degradation, along with one- and two-dimensional (1)H and (13)C NMR spectroscopy. The CPS is composed of branched pentasaccharide K units containing only neutral sugars, with three monosaccharides in the main chain and a disaccharide side chain. The K116 unit shares internal sugar linkages with the K14 and K37 units, corresponding to the presence of shared gtr genes in the gene clusters. However, the specific linkage formed by Wzy was discrepant between K116 and the previously reported K37 CPS produced by A. baumannii isolate NIPH146. The K37 structure was therefore revised in this study, and the corrected Wzy linkage found to be identical to the Wzy linkage in K116. The KL116, KL14 and KL37 gene clusters were found in genomes of a variety of A. baumannii strain backgrounds, indicating their global distribution.