Structural insight into a CE15 esterase from the marine bacterial metagenome
Source at http://dx.doi.org/10.1038/s41598-017-17677-4 . The family 15 carbohydrate esterase (CE15) MZ0003, which derives from a marine Arctic metagenome, has a broader substrate scope than other members of this family. Here we report the crystal structure of MZ0003, which reveals that residues comp...
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Online Access: | https://hdl.handle.net/10037/12439 https://doi.org/10.1038/s41598-017-17677-4 |
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ftunivtroemsoe:oai:munin.uit.no:10037/12439 2023-05-15T15:08:40+02:00 Structural insight into a CE15 esterase from the marine bacterial metagenome De Santi, Concetta Gani, Osman A. B. S. M. Helland, Ronny Williamson, Adele Kim 2017-12-08 https://hdl.handle.net/10037/12439 https://doi.org/10.1038/s41598-017-17677-4 eng eng Nature Publishing Group Scientific Reports De Santi, C., Gani, O. A., Helland, R., Williamson, A. K. (2017) Structural insight into a CE15 esterase from the marine bacterial metagenome. Scientific Reports. 7:17278:1-10 FRIDAID 1573106 doi:10.1038/s41598-017-17677-4 2045-2322 https://hdl.handle.net/10037/12439 openAccess Enzyme mechanisms X-ray crystallography VDP::Matematikk og Naturvitenskap: 400::Kjemi: 440 VDP::Mathematics and natural science: 400::Chemistry: 440 Journal article Tidsskriftartikkel Peer reviewed 2017 ftunivtroemsoe https://doi.org/10.1038/s41598-017-17677-4 2021-06-25T17:55:51Z Source at http://dx.doi.org/10.1038/s41598-017-17677-4 . The family 15 carbohydrate esterase (CE15) MZ0003, which derives from a marine Arctic metagenome, has a broader substrate scope than other members of this family. Here we report the crystal structure of MZ0003, which reveals that residues comprising the catalytic triad differ from previously-characterized fungal homologs, and resolves three large loop regions that are unique to this bacterial sub-clade. The catalytic triad of the bacterial CE15, which includes Asp 332 as its third member, closely resembles that of family 1 carbohydrate esterases (CE1), despite the overall lower structural similarity with members of this family. Two of the three loop regions form a subdomain that deepens the active site pocket and includes several basic residues that contribute to the high positive charge surrounding the active site. Docking simulations predict specific interactions with the sugar moiety of glucuronic-acid substrates, and with aromatically-substituted derivatives that serve as model compounds for the lignin-carbohydrate complex of plant cell walls. Molecular dynamics simulations indicate considerable flexibility of the sub-domain in the substrate-bound form, suggesting plasticity to accommodate different substrates is possible. The findings from this first reported structure of a bacterial member of the CE15 family provide insight into the basis of its broader substrate specificity. Article in Journal/Newspaper Arctic University of Tromsø: Munin Open Research Archive Arctic Scientific Reports 7 1 |
institution |
Open Polar |
collection |
University of Tromsø: Munin Open Research Archive |
op_collection_id |
ftunivtroemsoe |
language |
English |
topic |
Enzyme mechanisms X-ray crystallography VDP::Matematikk og Naturvitenskap: 400::Kjemi: 440 VDP::Mathematics and natural science: 400::Chemistry: 440 |
spellingShingle |
Enzyme mechanisms X-ray crystallography VDP::Matematikk og Naturvitenskap: 400::Kjemi: 440 VDP::Mathematics and natural science: 400::Chemistry: 440 De Santi, Concetta Gani, Osman A. B. S. M. Helland, Ronny Williamson, Adele Kim Structural insight into a CE15 esterase from the marine bacterial metagenome |
topic_facet |
Enzyme mechanisms X-ray crystallography VDP::Matematikk og Naturvitenskap: 400::Kjemi: 440 VDP::Mathematics and natural science: 400::Chemistry: 440 |
description |
Source at http://dx.doi.org/10.1038/s41598-017-17677-4 . The family 15 carbohydrate esterase (CE15) MZ0003, which derives from a marine Arctic metagenome, has a broader substrate scope than other members of this family. Here we report the crystal structure of MZ0003, which reveals that residues comprising the catalytic triad differ from previously-characterized fungal homologs, and resolves three large loop regions that are unique to this bacterial sub-clade. The catalytic triad of the bacterial CE15, which includes Asp 332 as its third member, closely resembles that of family 1 carbohydrate esterases (CE1), despite the overall lower structural similarity with members of this family. Two of the three loop regions form a subdomain that deepens the active site pocket and includes several basic residues that contribute to the high positive charge surrounding the active site. Docking simulations predict specific interactions with the sugar moiety of glucuronic-acid substrates, and with aromatically-substituted derivatives that serve as model compounds for the lignin-carbohydrate complex of plant cell walls. Molecular dynamics simulations indicate considerable flexibility of the sub-domain in the substrate-bound form, suggesting plasticity to accommodate different substrates is possible. The findings from this first reported structure of a bacterial member of the CE15 family provide insight into the basis of its broader substrate specificity. |
format |
Article in Journal/Newspaper |
author |
De Santi, Concetta Gani, Osman A. B. S. M. Helland, Ronny Williamson, Adele Kim |
author_facet |
De Santi, Concetta Gani, Osman A. B. S. M. Helland, Ronny Williamson, Adele Kim |
author_sort |
De Santi, Concetta |
title |
Structural insight into a CE15 esterase from the marine bacterial metagenome |
title_short |
Structural insight into a CE15 esterase from the marine bacterial metagenome |
title_full |
Structural insight into a CE15 esterase from the marine bacterial metagenome |
title_fullStr |
Structural insight into a CE15 esterase from the marine bacterial metagenome |
title_full_unstemmed |
Structural insight into a CE15 esterase from the marine bacterial metagenome |
title_sort |
structural insight into a ce15 esterase from the marine bacterial metagenome |
publisher |
Nature Publishing Group |
publishDate |
2017 |
url |
https://hdl.handle.net/10037/12439 https://doi.org/10.1038/s41598-017-17677-4 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_relation |
Scientific Reports De Santi, C., Gani, O. A., Helland, R., Williamson, A. K. (2017) Structural insight into a CE15 esterase from the marine bacterial metagenome. Scientific Reports. 7:17278:1-10 FRIDAID 1573106 doi:10.1038/s41598-017-17677-4 2045-2322 https://hdl.handle.net/10037/12439 |
op_rights |
openAccess |
op_doi |
https://doi.org/10.1038/s41598-017-17677-4 |
container_title |
Scientific Reports |
container_volume |
7 |
container_issue |
1 |
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1766339983240593408 |