{"_buckets": {"deposit": "34d80e12-30c3-41a2-8c0d-a76ad5926383"}, "_deposit": {"id": "18535", "owners": [], "pid": {"revision_id": 0, "type": "depid", "value": "18535"}, "status": "published"}, "_oai": {"id": "oai:nagoya.repo.nii.ac.jp:00018535", "sets": ["322"]}, "author_link": ["53844", "53845"], "item_10_biblio_info_6": {"attribute_name": "書誌情報", "attribute_value_mlt": [{"bibliographicIssueDates": {"bibliographicIssueDate": "2011-03", "bibliographicIssueDateType": "Issued"}, "bibliographicIssueNumber": "12", "bibliographicPageEnd": "125102", "bibliographicPageStart": "125102", "bibliographicVolumeNumber": "134", "bibliographic_titles": [{"bibliographic_title": "The Journal of Chemical Physics", "bibliographic_titleLang": "en"}]}]}, "item_10_description_4": {"attribute_name": "抄録", "attribute_value_mlt": [{"subitem_description": "A statistical mechanical model of allosteric transition of proteins is developed by extending the structure-basedmodel of protein folding to cases that a protein has two different native conformations. Partition function is calculated exactly within the model and free-energysurfaces associated with allostery are derived. In this paper, the model of allosteric transition proposed in a previous paper [Proc. Natl. Acad. Sci. U.S.A134, 7775 (2010)] is reformulated to describe both fluctuation in side-chain configurations and that in backbone structures in a balanced way. The model is applied to example proteins, Ras, calmodulin, and CheY: Ras undergoes the allosteric transition between guanosine diphosphate (GDP)-bound and guanosine triphosphate (GTP)-bound forms, and the model results show that the GDP-bound form is stabilized enough to prevent unnecessary signal transmission, but the conformation in the GTP-bound state bears large fluctuation in side-chain configurations, which may help to bind multiple target proteins for multiple pathways of signaling. The calculated results of calmodulin show the scenario of sequential ordering in Ca^2+ binding and the associated allosteric conformational change, which are realized though the sequential appearing of pre-existing structural fluctuations, i.e., fluctuations to show structures suitable to bind Ca^2+ before its binding. Here, the pre-existing fluctuations to accept the second and third Ca^2+ ions are dominated by the side-chain fluctuation. In CheY, the calculated side-chain fluctuation of Tyr106 is coordinated with the backbone structural change in the β4–α4 loop, which explains the pre-existing Y–T coupling process in this protein. Ability of the model to explain allosteric transitions of example proteins supports the view that the large entropic effects lower the free-energy barrier of allosteric transition.", "subitem_description_language": "en", "subitem_description_type": "Abstract"}]}, "item_10_identifier_60": {"attribute_name": "URI", "attribute_value_mlt": [{"subitem_identifier_type": "DOI", "subitem_identifier_uri": "http://dx.doi.org/10.1063/1.3565025"}, {"subitem_identifier_type": "HDL", "subitem_identifier_uri": "http://hdl.handle.net/2237/20621"}]}, "item_10_publisher_32": {"attribute_name": "出版者", "attribute_value_mlt": [{"subitem_publisher": "AIP", "subitem_publisher_language": "en"}]}, "item_10_relation_11": {"attribute_name": "DOI", "attribute_value_mlt": [{"subitem_relation_type": "isVersionOf", "subitem_relation_type_id": {"subitem_relation_type_id_text": "https://doi.org/10.1063/1.3565025", "subitem_relation_type_select": "DOI"}}]}, "item_10_rights_12": {"attribute_name": "権利", "attribute_value_mlt": [{"subitem_rights": "© 2011 American Institute of Physics", "subitem_rights_language": "en"}]}, "item_10_select_15": {"attribute_name": "著者版フラグ", "attribute_value_mlt": [{"subitem_select_item": "author"}]}, "item_10_source_id_7": {"attribute_name": "ISSN", "attribute_value_mlt": [{"subitem_source_identifier": "0021-9606", "subitem_source_identifier_type": "PISSN"}]}, "item_1615787544753": {"attribute_name": "出版タイプ", "attribute_value_mlt": [{"subitem_version_resource": "http://purl.org/coar/version/c_ab4af688f83e57aa", "subitem_version_type": "AM"}]}, "item_access_right": {"attribute_name": "アクセス権", "attribute_value_mlt": [{"subitem_access_right": "open access", "subitem_access_right_uri": "http://purl.org/coar/access_right/c_abf2"}]}, "item_creator": {"attribute_name": "著者", "attribute_type": "creator", "attribute_value_mlt": [{"creatorNames": [{"creatorName": "Itoh, Kazuhito", "creatorNameLang": "en"}], "nameIdentifiers": [{"nameIdentifier": "53844", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Sasai, Masaki", "creatorNameLang": "en"}], "nameIdentifiers": [{"nameIdentifier": "53845", "nameIdentifierScheme": "WEKO"}]}]}, "item_files": {"attribute_name": "ファイル情報", "attribute_type": "file", "attribute_value_mlt": [{"accessrole": "open_date", "date": [{"dateType": "Available", "dateValue": "2018-02-21"}], "displaytype": "detail", "download_preview_message": "", "file_order": 0, "filename": "ItohSasaiJCP2011.pdf", "filesize": [{"value": "3.0 MB"}], "format": "application/pdf", "future_date_message": "", "is_thumbnail": false, "licensetype": "license_note", "mimetype": "application/pdf", "size": 3000000.0, "url": {"label": "ItohSasaiJCP2011.pdf", "objectType": "fulltext", "url": "https://nagoya.repo.nii.ac.jp/record/18535/files/ItohSasaiJCP2011.pdf"}, "version_id": "b6f7ab06-d823-4d13-9af4-3cc4352484f3"}]}, "item_language": {"attribute_name": "言語", "attribute_value_mlt": [{"subitem_language": "eng"}]}, "item_resource_type": {"attribute_name": "資源タイプ", "attribute_value_mlt": [{"resourcetype": "journal article", "resourceuri": "http://purl.org/coar/resource_type/c_6501"}]}, "item_title": "Statistical mechanics of protein allostery: Roles of backbone and side-chain structural fluctuations", "item_titles": {"attribute_name": "タイトル", "attribute_value_mlt": [{"subitem_title": "Statistical mechanics of protein allostery: Roles of backbone and side-chain structural fluctuations", "subitem_title_language": "en"}]}, "item_type_id": "10", "owner": "1", "path": ["322"], "permalink_uri": "http://hdl.handle.net/2237/20621", "pubdate": {"attribute_name": "PubDate", "attribute_value": "2014-10-30"}, "publish_date": "2014-10-30", "publish_status": "0", "recid": "18535", "relation": {}, "relation_version_is_last": true, "title": ["Statistical mechanics of protein allostery: Roles of backbone and side-chain structural fluctuations"], "weko_shared_id": -1}