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“Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography

Hydrolysis of carbohydrates is a major bioreaction in nature, catalyzed by glycoside hydrolases (GHs). We used neutron diffraction and high-resolution x-ray diffraction analyses to investigate the hydrogen bond network in inverting cellulase PcCel45A, which is an endoglucanase belonging to subfamily...

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Autores principales: Nakamura, Akihiko, Ishida, Takuya, Kusaka, Katsuhiro, Yamada, Taro, Fushinobu, Shinya, Tanaka, Ichiro, Kaneko, Satoshi, Ohta, Kazunori, Tanaka, Hiroaki, Inaka, Koji, Higuchi, Yoshiki, Niimura, Nobuo, Samejima, Masahiro, Igarashi, Kiyohiko
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Association for the Advancement of Science 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4643802/
https://www.ncbi.nlm.nih.gov/pubmed/26601228
http://dx.doi.org/10.1126/sciadv.1500263
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author Nakamura, Akihiko
Ishida, Takuya
Kusaka, Katsuhiro
Yamada, Taro
Fushinobu, Shinya
Tanaka, Ichiro
Kaneko, Satoshi
Ohta, Kazunori
Tanaka, Hiroaki
Inaka, Koji
Higuchi, Yoshiki
Niimura, Nobuo
Samejima, Masahiro
Igarashi, Kiyohiko
author_facet Nakamura, Akihiko
Ishida, Takuya
Kusaka, Katsuhiro
Yamada, Taro
Fushinobu, Shinya
Tanaka, Ichiro
Kaneko, Satoshi
Ohta, Kazunori
Tanaka, Hiroaki
Inaka, Koji
Higuchi, Yoshiki
Niimura, Nobuo
Samejima, Masahiro
Igarashi, Kiyohiko
author_sort Nakamura, Akihiko
collection PubMed
description Hydrolysis of carbohydrates is a major bioreaction in nature, catalyzed by glycoside hydrolases (GHs). We used neutron diffraction and high-resolution x-ray diffraction analyses to investigate the hydrogen bond network in inverting cellulase PcCel45A, which is an endoglucanase belonging to subfamily C of GH family 45, isolated from the basidiomycete Phanerochaete chrysosporium. Examination of the enzyme and enzyme-ligand structures indicates a key role of multiple tautomerizations of asparagine residues and peptide bonds, which are finally connected to the other catalytic residue via typical side-chain hydrogen bonds, in forming the “Newton’s cradle”–like proton relay pathway of the catalytic cycle. Amide–imidic acid tautomerization of asparagine has not been taken into account in recent molecular dynamics simulations of not only cellulases but also general enzyme catalysis, and it may be necessary to reconsider our interpretation of many enzymatic reactions.
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spelling pubmed-46438022015-11-23 “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography Nakamura, Akihiko Ishida, Takuya Kusaka, Katsuhiro Yamada, Taro Fushinobu, Shinya Tanaka, Ichiro Kaneko, Satoshi Ohta, Kazunori Tanaka, Hiroaki Inaka, Koji Higuchi, Yoshiki Niimura, Nobuo Samejima, Masahiro Igarashi, Kiyohiko Sci Adv Research Articles Hydrolysis of carbohydrates is a major bioreaction in nature, catalyzed by glycoside hydrolases (GHs). We used neutron diffraction and high-resolution x-ray diffraction analyses to investigate the hydrogen bond network in inverting cellulase PcCel45A, which is an endoglucanase belonging to subfamily C of GH family 45, isolated from the basidiomycete Phanerochaete chrysosporium. Examination of the enzyme and enzyme-ligand structures indicates a key role of multiple tautomerizations of asparagine residues and peptide bonds, which are finally connected to the other catalytic residue via typical side-chain hydrogen bonds, in forming the “Newton’s cradle”–like proton relay pathway of the catalytic cycle. Amide–imidic acid tautomerization of asparagine has not been taken into account in recent molecular dynamics simulations of not only cellulases but also general enzyme catalysis, and it may be necessary to reconsider our interpretation of many enzymatic reactions. American Association for the Advancement of Science 2015-08-21 /pmc/articles/PMC4643802/ /pubmed/26601228 http://dx.doi.org/10.1126/sciadv.1500263 Text en Copyright © 2015, The Authors http://creativecommons.org/licenses/by-nc/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license (http://creativecommons.org/licenses/by-nc/4.0/) , which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.
spellingShingle Research Articles
Nakamura, Akihiko
Ishida, Takuya
Kusaka, Katsuhiro
Yamada, Taro
Fushinobu, Shinya
Tanaka, Ichiro
Kaneko, Satoshi
Ohta, Kazunori
Tanaka, Hiroaki
Inaka, Koji
Higuchi, Yoshiki
Niimura, Nobuo
Samejima, Masahiro
Igarashi, Kiyohiko
“Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title_full “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title_fullStr “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title_full_unstemmed “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title_short “Newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
title_sort “newton’s cradle” proton relay with amide–imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4643802/
https://www.ncbi.nlm.nih.gov/pubmed/26601228
http://dx.doi.org/10.1126/sciadv.1500263
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