Similarity between oxygen evolution in photosystem II and oxygen reduction in cytochrome c oxidase via proton coupled electron transfers. A unified view of the oxygenic life from four electron oxidation–reduction reactions
Basic concepts and theoretical foundations of broken symmetry (BS) and post BS methods for strongly correlated electron systems (SCES) such as electron-transfer (ET) diradical, multi-center polyradicals with spin frustration are described systematically to elucidate structures, bonding and reactivit...
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creator | Yamaguchi, Kizashi Miyagawa, Koichi Shoji, Mitsuo Isobe, Hiroshi Kawakami, Takashi |
description | Basic concepts and theoretical foundations of broken symmetry (BS) and post BS methods for strongly correlated electron systems (SCES) such as electron-transfer (ET) diradical, multi-center polyradicals with spin frustration are described systematically to elucidate structures, bonding and reactivity of the high-valent transition metal oxo bonds in metalloenzymes: photosystem II (PSII) and cytochrome
c
oxidase (C
c
O). BS hybrid DFT (HDFT) and DLPNO coupled-cluster (CC) SD(T
0
) computations are performed to elucidate electronic and spin states of CaMn
4
O
x
cluster in the key step for oxygen evolution, namely S
4
[S
3
with Mn(IV) = O + Tyr161-O radical] state of PSII and P
M
[Fe(IV) = O + HO-Cu(II) + Tyr161-O radical] step for oxygen reduction in C
c
O. The cycle of water oxidation catalyzed by the CaMn
4
O
x
cluster in PSII and the cycle of oxygen reduction catalyzed by the Cu
A
-Fe
a
-Fe
a3
-Cu
B
cluster in C
c
O are examined on the theoretical grounds, elucidating similar concerted and/or stepwise proton transfer coupled electron transfer (PT-ET) processes for the four-electron oxidation in PSII and four-electron reduction in C
c
O. Interplay between theory and experiments have revealed that three electrons in the metal sites and one electron in tyrosine radical site are characteristic for PT-ET in these biological redox reaction systems, indicating no necessity of harmful Mn(V) = O and Fe(V) = O bonds with strong oxyl-radical character. Implications of the computational results are discussed in relation to design of artificial systems consisted of earth abundant transition metals for water oxidation.
Graphical abstract |
doi_str_mv | 10.1007/s43630-024-00648-w |
format | Article |
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c
oxidase (C
c
O). BS hybrid DFT (HDFT) and DLPNO coupled-cluster (CC) SD(T
0
) computations are performed to elucidate electronic and spin states of CaMn
4
O
x
cluster in the key step for oxygen evolution, namely S
4
[S
3
with Mn(IV) = O + Tyr161-O radical] state of PSII and P
M
[Fe(IV) = O + HO-Cu(II) + Tyr161-O radical] step for oxygen reduction in C
c
O. The cycle of water oxidation catalyzed by the CaMn
4
O
x
cluster in PSII and the cycle of oxygen reduction catalyzed by the Cu
A
-Fe
a
-Fe
a3
-Cu
B
cluster in C
c
O are examined on the theoretical grounds, elucidating similar concerted and/or stepwise proton transfer coupled electron transfer (PT-ET) processes for the four-electron oxidation in PSII and four-electron reduction in C
c
O. Interplay between theory and experiments have revealed that three electrons in the metal sites and one electron in tyrosine radical site are characteristic for PT-ET in these biological redox reaction systems, indicating no necessity of harmful Mn(V) = O and Fe(V) = O bonds with strong oxyl-radical character. Implications of the computational results are discussed in relation to design of artificial systems consisted of earth abundant transition metals for water oxidation.
Graphical abstract</description><identifier>ISSN: 1474-905X</identifier><identifier>ISSN: 1474-9092</identifier><identifier>EISSN: 1474-9092</identifier><identifier>DOI: 10.1007/s43630-024-00648-w</identifier><identifier>PMID: 39576557</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Biochemistry ; Biomaterials ; Chemistry ; Chemistry and Materials Science ; Density Functional Theory ; Electron Transport ; Electron Transport Complex IV - chemistry ; Electron Transport Complex IV - metabolism ; Electrons ; Original Papers ; Oxidation-Reduction ; Oxygen - chemistry ; Oxygen - metabolism ; Photosystem II Protein Complex - chemistry ; Photosystem II Protein Complex - metabolism ; Physical Chemistry ; Plant Sciences ; Protons</subject><ispartof>Photochemical & photobiological sciences, 2024-12, Vol.23 (12), p.2133-2155</ispartof><rights>The Author(s) 2024</rights><rights>2024. The Author(s).</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c272t-9d7c6eec628798c10d26e6469a41c6d16c33d9d34d63759cbd97cb4e69b852c63</cites><orcidid>0000-0002-4411-7425 ; 0000-0001-7465-6326 ; 0000-0002-1990-1904 ; 0000-0002-7409-3727</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s43630-024-00648-w$$EPDF$$P50$$Gspringer$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s43630-024-00648-w$$EHTML$$P50$$Gspringer$$Hfree_for_read</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/39576557$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yamaguchi, Kizashi</creatorcontrib><creatorcontrib>Miyagawa, Koichi</creatorcontrib><creatorcontrib>Shoji, Mitsuo</creatorcontrib><creatorcontrib>Isobe, Hiroshi</creatorcontrib><creatorcontrib>Kawakami, Takashi</creatorcontrib><title>Similarity between oxygen evolution in photosystem II and oxygen reduction in cytochrome c oxidase via proton coupled electron transfers. A unified view of the oxygenic life from four electron oxidation–reduction reactions</title><title>Photochemical & photobiological sciences</title><addtitle>Photochem Photobiol Sci</addtitle><addtitle>Photochem Photobiol Sci</addtitle><description>Basic concepts and theoretical foundations of broken symmetry (BS) and post BS methods for strongly correlated electron systems (SCES) such as electron-transfer (ET) diradical, multi-center polyradicals with spin frustration are described systematically to elucidate structures, bonding and reactivity of the high-valent transition metal oxo bonds in metalloenzymes: photosystem II (PSII) and cytochrome
c
oxidase (C
c
O). BS hybrid DFT (HDFT) and DLPNO coupled-cluster (CC) SD(T
0
) computations are performed to elucidate electronic and spin states of CaMn
4
O
x
cluster in the key step for oxygen evolution, namely S
4
[S
3
with Mn(IV) = O + Tyr161-O radical] state of PSII and P
M
[Fe(IV) = O + HO-Cu(II) + Tyr161-O radical] step for oxygen reduction in C
c
O. The cycle of water oxidation catalyzed by the CaMn
4
O
x
cluster in PSII and the cycle of oxygen reduction catalyzed by the Cu
A
-Fe
a
-Fe
a3
-Cu
B
cluster in C
c
O are examined on the theoretical grounds, elucidating similar concerted and/or stepwise proton transfer coupled electron transfer (PT-ET) processes for the four-electron oxidation in PSII and four-electron reduction in C
c
O. Interplay between theory and experiments have revealed that three electrons in the metal sites and one electron in tyrosine radical site are characteristic for PT-ET in these biological redox reaction systems, indicating no necessity of harmful Mn(V) = O and Fe(V) = O bonds with strong oxyl-radical character. Implications of the computational results are discussed in relation to design of artificial systems consisted of earth abundant transition metals for water oxidation.
Graphical abstract</description><subject>Biochemistry</subject><subject>Biomaterials</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Density Functional Theory</subject><subject>Electron Transport</subject><subject>Electron Transport Complex IV - chemistry</subject><subject>Electron Transport Complex IV - metabolism</subject><subject>Electrons</subject><subject>Original Papers</subject><subject>Oxidation-Reduction</subject><subject>Oxygen - chemistry</subject><subject>Oxygen - metabolism</subject><subject>Photosystem II Protein Complex - chemistry</subject><subject>Photosystem II Protein Complex - metabolism</subject><subject>Physical Chemistry</subject><subject>Plant Sciences</subject><subject>Protons</subject><issn>1474-905X</issn><issn>1474-9092</issn><issn>1474-9092</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>EIF</sourceid><recordid>eNp9kc1u1DAQxyMEoqXwAhyQj1xS7Nix42NV8bFSJQ6AxM1y7EnXVWIvtrNLbrwDL4h4Etz9aG-cZuT5zX9m_K-q1wRfEozFu8Qop7jGDasx5qyrd0-qc8IEqyWWzdOHvP1-Vr1I6Q5j0jIunldnVLaCt604r_58cZMbdXR5QT3kHYBH4edyWwJswzhnFzxyHm3WIYe0pAwTWq2Q9vaERbCzOWFmycGsY5gAmQI4qxOgrdNoE0t_qYd5M4JFMILJsTzkqH0aIKZLdIVm7wZXqlsHOxQGlNdwnOIMGt0AaCjSaAhzfFTYT7mf__fX78ddIuh9kl5WzwY9Jnh1jBfVtw_vv15_qm8-f1xdX93UphFNrqUVhgMY3nRCdoZg23DgjEvNiOGWcEOplZYyy6lopemtFKZnwGXftY3h9KJ6e9Atl_6YIWU1uWRgHLWHMCdFCSVdizGVBW0OqIkhpQiD2kQ36bgogtW9s-rgrCrOqr2zalea3hz1534C-9BysrIA9ACkUvK3ENVd-Sdfbv6f7D9htLfi</recordid><startdate>20241201</startdate><enddate>20241201</enddate><creator>Yamaguchi, Kizashi</creator><creator>Miyagawa, Koichi</creator><creator>Shoji, Mitsuo</creator><creator>Isobe, Hiroshi</creator><creator>Kawakami, Takashi</creator><general>Springer International Publishing</general><scope>C6C</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-4411-7425</orcidid><orcidid>https://orcid.org/0000-0001-7465-6326</orcidid><orcidid>https://orcid.org/0000-0002-1990-1904</orcidid><orcidid>https://orcid.org/0000-0002-7409-3727</orcidid></search><sort><creationdate>20241201</creationdate><title>Similarity between oxygen evolution in photosystem II and oxygen reduction in cytochrome c oxidase via proton coupled electron transfers. A unified view of the oxygenic life from four electron oxidation–reduction reactions</title><author>Yamaguchi, Kizashi ; Miyagawa, Koichi ; Shoji, Mitsuo ; Isobe, Hiroshi ; Kawakami, Takashi</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c272t-9d7c6eec628798c10d26e6469a41c6d16c33d9d34d63759cbd97cb4e69b852c63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><topic>Biochemistry</topic><topic>Biomaterials</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Density Functional Theory</topic><topic>Electron Transport</topic><topic>Electron Transport Complex IV - chemistry</topic><topic>Electron Transport Complex IV - metabolism</topic><topic>Electrons</topic><topic>Original Papers</topic><topic>Oxidation-Reduction</topic><topic>Oxygen - chemistry</topic><topic>Oxygen - metabolism</topic><topic>Photosystem II Protein Complex - chemistry</topic><topic>Photosystem II Protein Complex - metabolism</topic><topic>Physical Chemistry</topic><topic>Plant Sciences</topic><topic>Protons</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yamaguchi, Kizashi</creatorcontrib><creatorcontrib>Miyagawa, Koichi</creatorcontrib><creatorcontrib>Shoji, Mitsuo</creatorcontrib><creatorcontrib>Isobe, Hiroshi</creatorcontrib><creatorcontrib>Kawakami, Takashi</creatorcontrib><collection>Springer Nature OA Free Journals</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Photochemical & photobiological sciences</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yamaguchi, Kizashi</au><au>Miyagawa, Koichi</au><au>Shoji, Mitsuo</au><au>Isobe, Hiroshi</au><au>Kawakami, Takashi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Similarity between oxygen evolution in photosystem II and oxygen reduction in cytochrome c oxidase via proton coupled electron transfers. A unified view of the oxygenic life from four electron oxidation–reduction reactions</atitle><jtitle>Photochemical & photobiological sciences</jtitle><stitle>Photochem Photobiol Sci</stitle><addtitle>Photochem Photobiol Sci</addtitle><date>2024-12-01</date><risdate>2024</risdate><volume>23</volume><issue>12</issue><spage>2133</spage><epage>2155</epage><pages>2133-2155</pages><issn>1474-905X</issn><issn>1474-9092</issn><eissn>1474-9092</eissn><abstract>Basic concepts and theoretical foundations of broken symmetry (BS) and post BS methods for strongly correlated electron systems (SCES) such as electron-transfer (ET) diradical, multi-center polyradicals with spin frustration are described systematically to elucidate structures, bonding and reactivity of the high-valent transition metal oxo bonds in metalloenzymes: photosystem II (PSII) and cytochrome
c
oxidase (C
c
O). BS hybrid DFT (HDFT) and DLPNO coupled-cluster (CC) SD(T
0
) computations are performed to elucidate electronic and spin states of CaMn
4
O
x
cluster in the key step for oxygen evolution, namely S
4
[S
3
with Mn(IV) = O + Tyr161-O radical] state of PSII and P
M
[Fe(IV) = O + HO-Cu(II) + Tyr161-O radical] step for oxygen reduction in C
c
O. The cycle of water oxidation catalyzed by the CaMn
4
O
x
cluster in PSII and the cycle of oxygen reduction catalyzed by the Cu
A
-Fe
a
-Fe
a3
-Cu
B
cluster in C
c
O are examined on the theoretical grounds, elucidating similar concerted and/or stepwise proton transfer coupled electron transfer (PT-ET) processes for the four-electron oxidation in PSII and four-electron reduction in C
c
O. Interplay between theory and experiments have revealed that three electrons in the metal sites and one electron in tyrosine radical site are characteristic for PT-ET in these biological redox reaction systems, indicating no necessity of harmful Mn(V) = O and Fe(V) = O bonds with strong oxyl-radical character. Implications of the computational results are discussed in relation to design of artificial systems consisted of earth abundant transition metals for water oxidation.
Graphical abstract</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>39576557</pmid><doi>10.1007/s43630-024-00648-w</doi><tpages>23</tpages><orcidid>https://orcid.org/0000-0002-4411-7425</orcidid><orcidid>https://orcid.org/0000-0001-7465-6326</orcidid><orcidid>https://orcid.org/0000-0002-1990-1904</orcidid><orcidid>https://orcid.org/0000-0002-7409-3727</orcidid><oa>free_for_read</oa></addata></record> |
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subjects | Biochemistry Biomaterials Chemistry Chemistry and Materials Science Density Functional Theory Electron Transport Electron Transport Complex IV - chemistry Electron Transport Complex IV - metabolism Electrons Original Papers Oxidation-Reduction Oxygen - chemistry Oxygen - metabolism Photosystem II Protein Complex - chemistry Photosystem II Protein Complex - metabolism Physical Chemistry Plant Sciences Protons |
title | Similarity between oxygen evolution in photosystem II and oxygen reduction in cytochrome c oxidase via proton coupled electron transfers. A unified view of the oxygenic life from four electron oxidation–reduction reactions |
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