Created with SnapCAZymeTCSTPotherTF1379575901138515180189752276926564303593415437949


PUL ID

PUL0460

PubMed

29774012, Front Microbiol. 2018 May 3;9:839. doi: 10.3389/fmicb.2018.00839. eCollection 2018.

Characterization method

recombinant protein expression,RT-PCR,enzyme activity assay

Genomic accession number

NZ_LSNE01000005.1

Nucelotide position range

77024-114972

Substrate

agar

Loci

AX660_RS08390-AX660_RS08495

Species

Paraglaciecola hydrolytica S66/1799789

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- AX660_RS08390 WP_235594693.1 0 - 2562 (+) NZ_LSNE01000005.1:77024-79586 -
- AX660_RS08395 WP_068375537.1 2592 - 4191 (+) NZ_LSNE01000005.1:79616-81215 3.2.1.51
- AX660_RS08400 WP_068375539.1 4433 - 5636 (-) NZ_LSNE01000005.1:81457-82660 -
- AX660_RS08405 WP_068375542.1 5628 - 6615 (-) NZ_LSNE01000005.1:82652-83639 2.7.1.-
- AX660_RS08410 WP_068375545.1 6645 - 7935 (-) NZ_LSNE01000005.1:83669-84959 -
- AX660_RS08415 WP_068375547.1 8137 - 10585 (+) NZ_LSNE01000005.1:85161-87609 -
- AX660_RS08420 WP_068375550.1 10753 - 12331 (+) NZ_LSNE01000005.1:87777-89355 -
- AX660_RS08425 WP_068375554.1 12346 - 13612 (+) NZ_LSNE01000005.1:89370-90636 -
- AX660_RS08430 WP_068375556.1 13667 - 14825 (+) NZ_LSNE01000005.1:90691-91849 -
- AX660_RS08435 WP_068375558.1 14975 - 16082 (-) NZ_LSNE01000005.1:91999-93106 -
- AX660_RS08440 WP_162266408.1 16148 - 16501 (-) NZ_LSNE01000005.1:93172-93525 1.14.-.-
- AX660_RS08445 WP_162266409.1 16634 - 17064 (-) NZ_LSNE01000005.1:93658-94088 1.14.-.-
- AX660_RS23290 WP_068375562.1 17966 - 18956 (+) NZ_LSNE01000005.1:94990-95980 -
- AX660_RS23700 WP_407669385.1 19106 - 19259 (+) NZ_LSNE01000005.1:96130-96283 -
- AX660_RS08455 WP_162266410.1 19440 - 20676 (+) NZ_LSNE01000005.1:96464-97700 3.1.-.-
- AX660_RS08460 WP_068375565.1 20957 - 24233 (+) NZ_LSNE01000005.1:97981-101257 -
- AX660_RS08465 WP_068375567.1 24339 - 25845 (+) NZ_LSNE01000005.1:101363-102869 1.14.19.-
- AX660_RS08470 WP_068375568.1 25848 - 27324 (+) NZ_LSNE01000005.1:102872-104348 -
- AX660_RS08475 WP_068375570.1 27637 - 28420 (+) NZ_LSNE01000005.1:104661-105444 -
- AX660_RS08480 WP_068375572.1 28973 - 33920 (+) NZ_LSNE01000005.1:105997-110944 -
- AX660_RS08485 WP_068375574.1 33943 - 34519 (+) NZ_LSNE01000005.1:110967-111543 -
- AX660_RS08490 WP_068375576.1 34649 - 35264 (-) NZ_LSNE01000005.1:111673-112288 -
- AX660_RS08495 WP_068375578.1 35615 - 37949 (-) NZ_LSNE01000005.1:112639-114973 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 2562 (+) CAZyme: GH2 Yes
- 2593 - 4191 (+) CAZyme: GH29 Yes
- 4434 - 5636 (-) other Yes
- 5629 - 6615 (-) STP: STP|PfkB Yes
- 6646 - 7935 (-) CAZyme: GH63 Yes
- 8138 - 10585 (+) other Yes
- 10754 - 12331 (+) TC: gnl|TC-DB|Q92911|2.A.21.5.1 Yes
- 12347 - 13612 (+) other Yes
- 13668 - 14825 (+) STP: STP|Sigma70_r4 Yes
- 14976 - 16082 (-) other Yes
- 16149 - 16501 (-) other Yes
- 16635 - 17064 (-) other Yes
- 17967 - 18956 (+) TF: DBD-SUPERFAMILY|0035607 Yes
- 19107 - 19259 (+) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0035607,DBD-SUPERFAMILY|0035607 Yes
- 19441 - 20676 (+) CAZyme: CE2 Yes
- 20958 - 24233 (+) TC: gnl|TC-DB|Q9A608|1.B.14.12.1 Yes
- 24340 - 25845 (+) other Yes
- 25849 - 27324 (+) other Yes
- 27638 - 28420 (+) TF: DBD-Pfam|TrmB,DBD-SUPERFAMILY|0040266 Yes
- 28974 - 33920 (+) CAZyme: GH86|GH86|CBM6 Yes
- 33944 - 34519 (+) other Yes
- 34650 - 35264 (-) TF: DBD-Pfam|GntR,DBD-SUPERFAMILY|0039384 Yes
- 35616 - 37949 (-) CAZyme: GH50 Yes

PUL ID

PUL0460

PubMed

29774012, Front Microbiol. 2018 May 3;9:839. doi: 10.3389/fmicb.2018.00839. eCollection 2018.

Title

A Novel Enzyme Portfolio for Red Algal Polysaccharide Degradation in the Marine Bacterium Paraglaciecola hydrolytica S66(T) Encoded in a Sizeable Polysaccharide Utilization Locus.

Author

Schultz-Johansen M, Bech PK, Hennessy RC, Glaring MA, Barbeyron T, Czjzek M, Stougaard P

Abstract

Marine microbes are a rich source of enzymes for the degradation of diverse polysaccharides. Paraglaciecola hydrolytica S66(T) is a marine bacterium capable of hydrolyzing polysaccharides found in the cell wall of red macroalgae. In this study, we applied an approach combining genomic mining with functional analysis to uncover the potential of this bacterium to produce enzymes for the hydrolysis of complex marine polysaccharides. A special feature of P. hydrolytica S66(T) is the presence of a large genomic region harboring an array of carbohydrate-active enzymes (CAZymes) notably agarases and carrageenases. Based on a first functional characterization combined with a comparative sequence analysis, we confirmed the enzymatic activities of several enzymes required for red algal polysaccharide degradation by the bacterium. In particular, we report for the first time, the discovery of novel enzyme activities targeting furcellaran, a hybrid carrageenan containing both beta-carrageenan and kappa/beta-carrageenan motifs. Some of these enzymes represent a new subfamily within the CAZy classification. From the combined analyses, we propose models for the complete degradation of agar and kappa/beta-type carrageenan by P. hydrolytica S66(T). The novel enzymes described here may find value in new bio-based industries and advance our understanding of the mechanisms responsible for recycling of red algal polysaccharides in marine ecosystems.