The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
Functional and structural analysis of a cyclization domain in a cyclic β-1,2-glucan synthase
Open accessPreprint — published as 10.1007/s00253-024-13013-9 · Paper page
Abstract
Cyclic β-1,2-glucan synthase (CGS) is a key enzyme in production of cyclic β-1,2-glucans (CβGs) which are involved in bacterial infection or symbiosis to host organisms. Nevertheless, a mechanism of cyclization, the final step in the CGS reaction, has not been fully understood. Here we performed functional and structural analyses of the cyclization domain of CGS alone from Thermoanaerobacter italicus (TiCGS Cy ). We first found that β-glucosidase-resistant compounds are produced by TiCGS Cy with linear β-1,2-glucans as substrates. The 1 H-NMR analysis revealed that these products are CβGs. Next, action pattern analyses using β-1,2-glucooligosaccharides revealed a unique reaction pattern: exclusive transglycosylation without hydrolysis and a hexasaccharide as the minimum length of the substrate. Nevertheless, longer substrate β-1,2-glucooligosaccharides are preferred, being consistent with the fact that CGSs generally produce CβGs with degrees of polymerization of around 20. Finally, the overall structure of the cyclization domain of TiCGS Cy was found to be similar to those of β-1,2-glucanases in phylogenetically different groups. Meanwhile, the identified catalytic residues indicated clear difference in the reaction pathways between these enzymes. Therefore, we propose a novel reaction mechanism of TiCGS Cy . Thus, we propose that the present group of CGSs should be defined as a new glycoside hydrolase family, GHxxx. Statements and Declarations: Competing Interests: The authors declare no competing interests. Key Points: It was clearly evidenced that cyclization domain alone produces cyclic β-1,2-glucans. The domain exclusively catalyzes transglycosylation without hydrolysis. The present catalytic domain should be defined as a new glycoside hydrolase family.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Highly accurate protein structure prediction with AlphaFold
Jumper, J., Evans, R., Pritzel, A., Green, T., Figurnov, M., Ronneberger, O., Tunyasuvunakool, K., Bates, R., Žídek, A., Potapenko, A., et al. (2021) · Nature · doi:10.1038/s41586-021-03819-2 · Cited by 43,764
Research works printed but not linked: 46
- 10.5458/jag.jag.JAG-2014_011 · DOI
- 10.1074/jbc.M116.762724 · DOI
- 10.1128/ecosalplus.esp-0001-2017 · DOI
- 10.1128/MR.58.2.145-161.1994 · DOI
- 10.1128/iai.56.5.1101-1106.1988 · DOI
- 10.1128/jb.178.20.6043-6048.1996 · DOI
- 10.1073/pnas.0708025104 · DOI
- 10.1093/glycob/cwj113 · DOI
- 10.1016/S0022-2836(03)00307-3 · DOI
- 10.1016/j.bbabio.2005.12.001 · DOI
- 10.1016/S0969-2126(01)00220-9 · DOI
- 1806, Sur la décomposition de l’eau et des corps qu’elle tient en dissolution à l’aide de l’électricité galvanique, Ann Chim, 58, 54
- 10.1016/0008-6215(83)88086-0 · DOI
- 10.1093/nar/gkab1045 · DOI · Paper page
- 10.1107/S0907444904019158 · DOI · Paper page
- 10.1128/JB.01108-08 · DOI
- 10.1155/2010/124509 · DOI
- 10.1016/0008-6215(92)84014-J · DOI
- 10.5458/jag1972.31.117 · DOI
- 10.1002/pro.3749 · DOI
- 10.1128/JB.180.17.4392-4400.1998 · DOI
- 10.1002/1873-3468.12911 · DOI
- 10.1016/j.jbc.2022.101606 · DOI
- 10.1016/S0021-9673(01)97833-1 · DOI
- 10.1107/S0907444904026460 · DOI
- 10.1006/jmbi.2000.4315 · DOI · Paper page
- 10.1038/s42003-023-05336-6 · DOI
- 10.1107/S0907444996012255 · DOI · Paper page
- 10.1016/j.jmb.2013.08.002 · DOI
- 10.1007/s11756-022-01205-5 · DOI
- 10.1038/srep42671 · DOI
- 10.1371/journal.pone.0092353 · DOI
- 10.1371/journal.pone.0148870 · DOI
- 10.1021/ct100578z · DOI · Paper page
- 10.1002/pro.5560041120 · DOI
- 10.1093/nar/gku316 · DOI · Paper page
- 10.1128/JB.00086-06 · DOI
- 10.1101/2023.05.05.539553 · DOI
- 10.1021/acs.biochem.8b00385 · DOI
- 10.1021/cr00105a006 · DOI · Paper page
- 10.1074/jbc.RA118.007087 · DOI
- 10.1093/nar/gku1028 · DOI · Paper page
- 10.1107/S0907444909042589 · DOI
- 10.1016/j.chembiol.2017.03.012 · DOI
- 10.1128/jb.167.3.947-951.1986 · DOI
- 10.1016/0006-291X(85)90613-8 · DOI
Metadata
- Authors
- Tanaka, N., Saito, R., Kobayashi, K., Nakai, H., Kamo, S., Kuramochi, K., Taguchi, H., Nakajima, M., & Masaike, T.
- Affiliations
- Tokyo University of Science (JP)
- Artificial Intelligence Research Center (JP)
- Niigata University (JP)
- Corresponding author
- Tanaka, Nobukiyo
- Nakajima, Masahiro
- Masaike, Tomoko
- ORCID
- Venue
- Applied Microbiology and Biotechnology
- Publisher
- openRxiv
- Published
- 2023-10-30
- Volume
- 108
- Issue
- 1
- Pages
- 187-187
- ISSN
- 0175-7598 (ISSN-L)
- OpenAlex
- W4391448277
- Cited by
- 13
- References
- 1
- Citations by year
- 2026: 3 · 2025: 6 · 2024: 4
- FWCI
- 1.88
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- Applied Microbiology and Biotechnology (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Topics
- Physical Sciences › Chemistry › Organic Chemistry › Carbohydrate Chemistry and Synthesis
- Life Sciences › Agricultural and Biological Sciences › Food Science › Polysaccharides Composition and Applications
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Polysaccharides and Plant Cell Walls
- Keywords
- transglycosylation, substrate specificity, catalytic residues, enzyme mechanism
- MeSH terms
- Catalysis, Cyclization, Glucans, Glycoside Hydrolases, beta-Glucans
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.