{"id":"https://openalex.org/W2065632510","doi":"https://doi.org/10.1080/07391102.2006.10507117","title":"Side Chain Dynamics and Alternative Hydrogen Bonding in the Mechanism of Protein Thermostabilization","display_name":"Side Chain Dynamics and Alternative Hydrogen Bonding in the Mechanism of Protein Thermostabilization","publication_year":2006,"publication_date":"2006-12-01","ids":{"openalex":"https://openalex.org/W2065632510","doi":"https://doi.org/10.1080/07391102.2006.10507117","mag":"2065632510","pmid":"https://pubmed.ncbi.nlm.nih.gov/17054383"},"language":"en","primary_location":{"id":"doi:10.1080/07391102.2006.10507117","doi":"https://doi.org/10.1080/07391102.2006.10507117","is_oa":false,"landing_page_url":"https://doi.org/10.1080/07391102.2006.10507117","pdf_url":null,"source":{"id":"https://openalex.org/S178711970","display_name":"Journal of Biomolecular Structure and Dynamics","issn_l":"0739-1102","issn":["0739-1102","1538-0254"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomolecular Structure and Dynamics","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111594291","display_name":"\u041d. \u041d. \u0425\u0435\u0447\u0438\u043d\u0430\u0448\u0432\u0438\u043b\u0438","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1313323035","display_name":"Russian Academy of Sciences","ror":"https://ror.org/05qrfxd25","country_code":"RU","type":"government","lineage":["https://openalex.org/I1313323035"]},{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"N. N. Khechinashvili","raw_affiliation_strings":["Institute of Cell Biophysics, Russian Academy of Sciences, 142290 Pushchino, Moscow Region, Russia. nikolay@icb.psn.ru","Institute of Cell Biophysics, Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Cell Biophysics, Russian Academy of Sciences, 142290 Pushchino, Moscow Region, Russia. nikolay@icb.psn.ru","institution_ids":["https://openalex.org/I1313323035","https://openalex.org/I4210155801"]},{"raw_affiliation_string":"Institute of Cell Biophysics, Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia","institution_ids":["https://openalex.org/I1313323035","https://openalex.org/I4210155801"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014755535","display_name":"Maxim V. Fedorov","orcid":"https://orcid.org/0000-0003-3901-3565","observed_orcids":["https://orcid.org/0000-0003-3901-3565"]},"institutions":[{"id":"https://openalex.org/I1313323035","display_name":"Russian Academy of Sciences","ror":"https://ror.org/05qrfxd25","country_code":"RU","type":"government","lineage":["https://openalex.org/I1313323035"]},{"id":"https://openalex.org/I4210088122","display_name":"Institute of Theoretical and Experimental Biophysics","ror":"https://ror.org/008ebms37","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210088122","https://openalex.org/I4210129690"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"M. V. Fedorov","raw_affiliation_strings":["Institute of Theoretical and Experimental Biophysics Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Theoretical and Experimental Biophysics Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia","institution_ids":["https://openalex.org/I1313323035","https://openalex.org/I4210088122"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049306066","display_name":"Artem V. Kabanov","orcid":"https://orcid.org/0000-0002-2277-0263","observed_orcids":["https://orcid.org/0000-0002-2277-0263"]},"institutions":[{"id":"https://openalex.org/I1313323035","display_name":"Russian Academy of Sciences","ror":"https://ror.org/05qrfxd25","country_code":"RU","type":"government","lineage":["https://openalex.org/I1313323035"]},{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"A. V. Kabanov","raw_affiliation_strings":["Institute of Cell Biophysics, Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Cell Biophysics, Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia","institution_ids":["https://openalex.org/I1313323035","https://openalex.org/I4210155801"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067355470","display_name":"Susanna Monti","orcid":"https://orcid.org/0000-0002-3419-7118","observed_orcids":["https://orcid.org/0000-0002-3419-7118"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"S. Monti","raw_affiliation_strings":["Institute for Physico-Chemical Processes, IPCF-CNR, Molecular Modeling Lab, Via G. Moruzzi 1, 56124, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Physico-Chemical Processes, IPCF-CNR, Molecular Modeling Lab, Via G. Moruzzi 1, 56124, Pisa, Italy","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055314609","display_name":"Caterina Ghio","orcid":"https://orcid.org/0000-0003-4514-5900","observed_orcids":["https://orcid.org/0000-0003-4514-5900"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"C. Ghio","raw_affiliation_strings":["Institute for Physico-Chemical Processes, IPCF-CNR, Molecular Modeling Lab, Via G. Moruzzi 1, 56124, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Physico-Chemical Processes, IPCF-CNR, Molecular Modeling Lab, Via G. Moruzzi 1, 56124, Pisa, Italy","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019116609","display_name":"K. Soda","orcid":"https://orcid.org/0000-0003-1715-7840","observed_orcids":["https://orcid.org/0000-0003-1715-7840"]},"institutions":[{"id":"https://openalex.org/I85922643","display_name":"Nagaoka University of Technology","ror":"https://ror.org/00ys1hz88","country_code":"JP","type":"education","lineage":["https://openalex.org/I85922643"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"K. Soda","raw_affiliation_strings":["Department of Bioengineering, Nagaoka University of Technology, Nagaoka, 940-2188, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, Nagaoka University of Technology, Nagaoka, 940-2188, Japan","institution_ids":["https://openalex.org/I85922643"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.1126,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.41844813,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":97},"biblio":{"volume":"24","issue":"3","first_page":"255","last_page":"262"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13539","display_name":"thermodynamics and calorimetric analyses","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10934","display_name":"Heat shock proteins research","score":9.999999747378752e-05,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-thermostabilization","display_name":"protein thermostabilization","score":0.9490000009536743},{"id":"https://openalex.org/keywords/side-chain-dynamics","display_name":"side-chain dynamics","score":0.9629999995231628},{"id":"https://openalex.org/keywords/thermophilic-proteins","display_name":"thermophilic proteins","score":0.8370000123977661},{"id":"https://openalex.org/keywords/mesophilic-proteins","display_name":"mesophilic proteins","score":0.8029999732971191},{"id":"https://openalex.org/keywords/conformational-entropy","display_name":"conformational entropy","score":0.7450000047683716},{"id":"https://openalex.org/keywords/enthalpy","display_name":"enthalpy","score":0.6700000166893005},{"id":"https://openalex.org/keywords/loop-regions","display_name":"loop regions","score":0.7419999837875366}],"concepts":[{"id":"https://openalex.org/C2781216036","wikidata":"https://www.wikidata.org/wiki/Q902494","display_name":"Thermostability","level":3,"score":0.9098320007324219},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.7651110887527466},{"id":"https://openalex.org/C112887158","wikidata":"https://www.wikidata.org/wiki/Q169324","display_name":"Hydrogen bond","level":3,"score":0.7396377325057983},{"id":"https://openalex.org/C204921945","wikidata":"https://www.wikidata.org/wiki/Q899689","display_name":"Side chain","level":3,"score":0.7241753339767456},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.6480749249458313},{"id":"https://openalex.org/C69308434","wikidata":"https://www.wikidata.org/wiki/Q5160266","display_name":"Conformational entropy","level":3,"score":0.6275181770324707},{"id":"https://openalex.org/C3288061","wikidata":"https://www.wikidata.org/wiki/Q161064","display_name":"Enthalpy","level":2,"score":0.5286734104156494},{"id":"https://openalex.org/C166940927","wikidata":"https://www.wikidata.org/wiki/Q178827","display_name":"Monomer","level":3,"score":0.4892549514770508},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.45271337032318115},{"id":"https://openalex.org/C2781338088","wikidata":"https://www.wikidata.org/wiki/Q903495","display_name":"Residue (chemistry)","level":2,"score":0.4171321392059326},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.4145435392856598},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.25377357006073},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.2442813217639923},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.2044523060321808},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.20357218384742737},{"id":"https://openalex.org/C521977710","wikidata":"https://www.wikidata.org/wiki/Q81163","display_name":"Polymer","level":2,"score":0.18237006664276123},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.18199235200881958},{"id":"https://openalex.org/C32909587","wikidata":"https://www.wikidata.org/wiki/Q11369","display_name":"Molecule","level":2,"score":0.16737475991249084},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004355","descriptor_name":"Drug Stability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1080/07391102.2006.10507117","doi":"https://doi.org/10.1080/07391102.2006.10507117","is_oa":false,"landing_page_url":"https://doi.org/10.1080/07391102.2006.10507117","pdf_url":null,"source":{"id":"https://openalex.org/S178711970","display_name":"Journal of Biomolecular Structure and Dynamics","issn_l":"0739-1102","issn":["0739-1102","1538-0254"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomolecular Structure and Dynamics","raw_type":"journal-article"},{"id":"pmid:17054383","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17054383","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of biomolecular structure & dynamics","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":67,"referenced_works":["https://openalex.org/W1487994944","https://openalex.org/W1533504098","https://openalex.org/W1539792790","https://openalex.org/W1541258411","https://openalex.org/W1552128354","https://openalex.org/W1824051645","https://openalex.org/W1963667773","https://openalex.org/W1966041739","https://openalex.org/W1967506254","https://openalex.org/W1971251199","https://openalex.org/W1976981353","https://openalex.org/W1978870059","https://openalex.org/W1981021420","https://openalex.org/W1985252219","https://openalex.org/W1985842673","https://openalex.org/W1988299779","https://openalex.org/W1988778988","https://openalex.org/W1989598746","https://openalex.org/W1994983243","https://openalex.org/W1995730663","https://openalex.org/W1996408394","https://openalex.org/W1998902553","https://openalex.org/W2003713109","https://openalex.org/W2008672089","https://openalex.org/W2009559383","https://openalex.org/W2019651680","https://openalex.org/W2021291422","https://openalex.org/W2027304997","https://openalex.org/W2028499577","https://openalex.org/W2028854152","https://openalex.org/W2031617550","https://openalex.org/W2040351161","https://openalex.org/W2041833185","https://openalex.org/W2044110936","https://openalex.org/W2045994733","https://openalex.org/W2048740018","https://openalex.org/W2051628563","https://openalex.org/W2052170790","https://openalex.org/W2067411283","https://openalex.org/W2067917889","https://openalex.org/W2069789930","https://openalex.org/W2070783701","https://openalex.org/W2073662901","https://openalex.org/W2074731613","https://openalex.org/W2076394025","https://openalex.org/W2076938281","https://openalex.org/W2078317530","https://openalex.org/W2083654158","https://openalex.org/W2090396026","https://openalex.org/W2091114929","https://openalex.org/W2093583318","https://openalex.org/W2093969953","https://openalex.org/W2100250556","https://openalex.org/W2103420861","https://openalex.org/W2106320506","https://openalex.org/W2118122534","https://openalex.org/W2120139937","https://openalex.org/W2121372252","https://openalex.org/W2122680286","https://openalex.org/W2123768693","https://openalex.org/W2133322954","https://openalex.org/W2154665416","https://openalex.org/W2156012420","https://openalex.org/W2163555337","https://openalex.org/W2170023996","https://openalex.org/W4294326239","https://openalex.org/W4300611374"],"related_works":["https://openalex.org/W4294733278","https://openalex.org/W3023233327","https://openalex.org/W2027304997","https://openalex.org/W2374262315","https://openalex.org/W4379054920","https://openalex.org/W2287778687","https://openalex.org/W2300649977","https://openalex.org/W2151486314","https://openalex.org/W1979285072","https://openalex.org/W4362735064"],"abstract_inverted_index":{"To":[0],"elucidate":[1],"the":[2,7,28,70,79,99,110,114,123,127,133,137,142,149,161,163],"mechanism":[3,91],"of":[4,10,30,33,39,73,81,84,92,98,104,122,132,155],"protein":[5,93,164],"thermostabilization,":[6],"thermodynamic":[8],"properties":[9],"small":[11],"monomeric":[12],"proteins":[13,85],"from":[14],"mesophilic":[15],"and":[16,35,51,78,102,117,144,147],"thermophilic":[17],"organisms":[18],"have":[19],"been":[20,47,87],"analyzed.":[21],"Molecular":[22],"dynamics":[23],"simulations":[24],"were":[25],"employed":[26],"in":[27,113,141,148],"study":[29],"dynamic":[31],"features":[32],"charged":[34,50],"polar":[36,52],"side":[37,53],"chains":[38,54],"amino":[40],"acid":[41],"residues.":[42],"The":[43,67,89,130],"basic":[44],"conclusion":[45],"has":[46,86],"made:":[48],"surface":[49],"with":[55,126],"high":[56],"conformational":[57,124],"mobility":[58],"can":[59],"form":[60],"alternative":[61,74,105,157],"hydrogen":[62],"bonded":[63],"(H-bonded)":[64],"donor-acceptor":[65],"pairs.":[66],"correlation":[68],"between":[69],"quantitative":[71],"content":[72],"H-bonds":[75,101],"per":[76],"residue":[77],"temperature":[80],"maximal":[82],"thermostability":[83],"found.":[88],"proposed":[90],"thermostabilization":[94],"suggests":[95],"continuous":[96],"disruption":[97],"primary":[100],"formation":[103],"ones,":[106],"which":[107],"maintain":[108],"constant":[109],"enthalpy":[111],"value":[112],"native":[115],"state":[116],"prevent":[118],"a":[119],"rapid":[120],"increase":[121],"entropy":[125],"rising":[128],"temperature.":[129],"analysis":[131],"results":[134],"show":[135],"that":[136,152],"more":[138],"residues":[139],"located":[140],"N-":[143],"C-terminal":[145],"regions":[146],"extended":[150],"loops":[151],"are":[153],"capable":[154],"forming":[156],"longer-range":[158],"H-bonded":[159],"pairs,":[160],"higher":[162],"thermostability.":[165]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}
