Structured Crowding and Its Effects on Enzyme Catalysis
Identifieur interne : 001118 ( Main/Exploration ); précédent : 001117; suivant : 001119Structured Crowding and Its Effects on Enzyme Catalysis
Auteurs : Buyong Ma [États-Unis] ; Ruth Nussinov [États-Unis, Israël]Source :
- Topics in Current Chemistry [ 0340-1022 ]
Abstract
Abstract: Macromolecular crowding decreases the diffusion rate, shifts the equilibrium of protein–protein and protein–substrate interactions, and changes protein conformational dynamics. Collectively, these effects contribute to enzyme catalysis. Here we describe how crowding may bias the conformational change and dynamics of enzyme populations and in this way affect catalysis. Crowding effects have been studied using artificial crowding agents and in vivo-like environments. These studies revealed a correlation between protein dynamics and function in the crowded environment. We suggest that crowded environments be classified into uniform crowding and structured crowding. Uniform crowding represents random crowding conditions created by synthetic particles with a narrow size distribution. Structured crowding refers to the highly coordinated cellular environment, where proteins and other macromolecules are clustered and organized. In structured crowded environments the perturbation of protein thermal stability may be lower; however, it may still be able to modulate functions effectively and dynamically. Dynamic, allosteric enzymes could be more sensitive to cellular perturbations if their free energy landscape is flatter around the native state; on the other hand, if their free energy landscape is rougher, with high kinetic barriers separating deep minima, they could be more robust. Above all, cells are structured; and this holds both for the cytosol and for the membrane environment. The crowded environment is organized, which limits the search, and the crowders are not necessarily inert. More likely, they too transmit allosteric effects, and as such play important functional roles. Overall, structured cellular crowding may lead to higher enzyme efficiency and specificity.
Url:
DOI: 10.1007/128_2012_316
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Istex, to step Corpus: 000950
- to stream Istex, to step Curation: 000944
- to stream Istex, to step Checkpoint: 000269
- to stream Main, to step Merge: 001119
- to stream Main, to step Curation: 001118
Le document en format XML
<record><TEI wicri:istexFullTextTei="biblStruct"><teiHeader><fileDesc><titleStmt><title xml:lang="en">Structured Crowding and Its Effects on Enzyme Catalysis</title>
<author><name sortKey="Ma, Buyong" sort="Ma, Buyong" uniqKey="Ma B" first="Buyong" last="Ma">Buyong Ma</name>
</author>
<author><name sortKey="Nussinov, Ruth" sort="Nussinov, Ruth" uniqKey="Nussinov R" first="Ruth" last="Nussinov">Ruth Nussinov</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">ISTEX</idno>
<idno type="RBID">ISTEX:E80E15C17707E313015D71CC8897E428BB93337F</idno>
<date when="2013" year="2013">2013</date>
<idno type="doi">10.1007/128_2012_316</idno>
<idno type="url">https://api.istex.fr/ark:/67375/HCB-98H3T0JZ-B/fulltext.pdf</idno>
<idno type="wicri:Area/Istex/Corpus">000950</idno>
<idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Corpus" wicri:corpus="ISTEX">000950</idno>
<idno type="wicri:Area/Istex/Curation">000944</idno>
<idno type="wicri:Area/Istex/Checkpoint">000269</idno>
<idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Checkpoint">000269</idno>
<idno type="wicri:doubleKey">0340-1022:2013:Ma B:structured:crowding:and</idno>
<idno type="wicri:Area/Main/Merge">001119</idno>
<idno type="wicri:Area/Main/Curation">001118</idno>
<idno type="wicri:Area/Main/Exploration">001118</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title level="a" type="main" xml:lang="en">Structured Crowding and Its Effects on Enzyme Catalysis</title>
<author><name sortKey="Ma, Buyong" sort="Ma, Buyong" uniqKey="Ma B" first="Buyong" last="Ma">Buyong Ma</name>
<affiliation wicri:level="2"><country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Basic Science Program, SAIC-Frederick, Inc., Center for Cancer Research Nanobiology Program, Frederick National Laboratory for Cancer Research, National Cancer Institute, 21702, Frederick, MD</wicri:regionArea>
<placeName><region type="state">Maryland</region>
</placeName>
</affiliation>
<affiliation></affiliation>
</author>
<author><name sortKey="Nussinov, Ruth" sort="Nussinov, Ruth" uniqKey="Nussinov R" first="Ruth" last="Nussinov">Ruth Nussinov</name>
<affiliation wicri:level="2"><country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Basic Science Program, SAIC-Frederick, Inc., Center for Cancer Research Nanobiology Program, Frederick National Laboratory for Cancer Research, National Cancer Institute, 21702, Frederick, MD</wicri:regionArea>
<placeName><region type="state">Maryland</region>
</placeName>
</affiliation>
<affiliation wicri:level="1"><country xml:lang="fr">Israël</country>
<wicri:regionArea>Department of Human Genetics and Molecular Medicine, Sackler School of Medicine, Sackler Institute of Molecular Medicine, Tel Aviv University, 69978, Tel Aviv</wicri:regionArea>
<wicri:noRegion>Tel Aviv</wicri:noRegion>
</affiliation>
<affiliation></affiliation>
</author>
</analytic>
<monogr></monogr>
<series><title level="s" type="main" xml:lang="en">Topics in Current Chemistry</title>
<title level="s" type="abbrev">Topics Current Chemistry</title>
<idno type="ISSN">0340-1022</idno>
<idno type="eISSN">1436-5049</idno>
<idno type="ISSN">0340-1022</idno>
</series>
</biblStruct>
</sourceDesc>
<seriesStmt><idno type="ISSN">0340-1022</idno>
</seriesStmt>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">Abstract: Macromolecular crowding decreases the diffusion rate, shifts the equilibrium of protein–protein and protein–substrate interactions, and changes protein conformational dynamics. Collectively, these effects contribute to enzyme catalysis. Here we describe how crowding may bias the conformational change and dynamics of enzyme populations and in this way affect catalysis. Crowding effects have been studied using artificial crowding agents and in vivo-like environments. These studies revealed a correlation between protein dynamics and function in the crowded environment. We suggest that crowded environments be classified into uniform crowding and structured crowding. Uniform crowding represents random crowding conditions created by synthetic particles with a narrow size distribution. Structured crowding refers to the highly coordinated cellular environment, where proteins and other macromolecules are clustered and organized. In structured crowded environments the perturbation of protein thermal stability may be lower; however, it may still be able to modulate functions effectively and dynamically. Dynamic, allosteric enzymes could be more sensitive to cellular perturbations if their free energy landscape is flatter around the native state; on the other hand, if their free energy landscape is rougher, with high kinetic barriers separating deep minima, they could be more robust. Above all, cells are structured; and this holds both for the cytosol and for the membrane environment. The crowded environment is organized, which limits the search, and the crowders are not necessarily inert. More likely, they too transmit allosteric effects, and as such play important functional roles. Overall, structured cellular crowding may lead to higher enzyme efficiency and specificity.</div>
</front>
</TEI>
<affiliations><list><country><li>Israël</li>
<li>États-Unis</li>
</country>
<region><li>Maryland</li>
</region>
</list>
<tree><country name="États-Unis"><region name="Maryland"><name sortKey="Ma, Buyong" sort="Ma, Buyong" uniqKey="Ma B" first="Buyong" last="Ma">Buyong Ma</name>
</region>
<name sortKey="Nussinov, Ruth" sort="Nussinov, Ruth" uniqKey="Nussinov R" first="Ruth" last="Nussinov">Ruth Nussinov</name>
</country>
<country name="Israël"><noRegion><name sortKey="Nussinov, Ruth" sort="Nussinov, Ruth" uniqKey="Nussinov R" first="Ruth" last="Nussinov">Ruth Nussinov</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/StressCovidV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001118 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 001118 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Sante |area= StressCovidV1 |flux= Main |étape= Exploration |type= RBID |clé= ISTEX:E80E15C17707E313015D71CC8897E428BB93337F |texte= Structured Crowding and Its Effects on Enzyme Catalysis }}
This area was generated with Dilib version V0.6.33. |