{"id":"https://openalex.org/W1977265258","doi":"https://doi.org/10.1074/jbc.271.33.19668","title":"Identification of Elements of the Peptide Binding Site of DnaK by Peptide Cross-linking","display_name":"Identification of Elements of the Peptide Binding Site of DnaK by Peptide Cross-linking","publication_year":1996,"publication_date":"1996-08-01","ids":{"openalex":"https://openalex.org/W1977265258","doi":"https://doi.org/10.1074/jbc.271.33.19668","mag":"1977265258","pmid":"https://pubmed.ncbi.nlm.nih.gov/8702669"},"language":"en","primary_location":{"id":"doi:10.1074/jbc.271.33.19668","doi":"https://doi.org/10.1074/jbc.271.33.19668","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.271.33.19668","pdf_url":"http://www.jbc.org/article/S0021925818982438/pdf","source":{"id":"https://openalex.org/S140251998","display_name":"Journal of Biological Chemistry","issn_l":"0021-9258","issn":["0021-9258","1067-8816","1083-351X"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biological Chemistry","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"http://www.jbc.org/article/S0021925818982438/pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101642197","display_name":"Jundong Zhang","orcid":"https://orcid.org/0000-0001-7433-2479","observed_orcids":["https://orcid.org/0000-0001-7433-2479"]},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jundong Zhang","raw_affiliation_strings":["Biology Dept. , Massachusetts Institute of Technology , 77 Massachusetts Ave. , Cambridge , MA 02139 ","From the Department of Biology , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139","Department of Biology, Massachusetts Institute of Technology Cambridge, Massachusetts 02139, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biology Dept. , Massachusetts Institute of Technology , 77 Massachusetts Ave. , Cambridge , MA 02139 ","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"From the Department of Biology , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Department of Biology, Massachusetts Institute of Technology Cambridge, Massachusetts 02139, USA","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112719442","display_name":"Graham Charles Walker","orcid":"https://orcid.org/0000-0001-7243-8261","observed_orcids":["https://orcid.org/0000-0001-7243-8261"]},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Graham C. Walker","raw_affiliation_strings":["From the Department of Biology Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"From the Department of Biology Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I63966007"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5112719442"],"corresponding_institution_ids":["https://openalex.org/I63966007"],"apc_list":{"value":3430,"currency":"USD","value_usd":3430},"apc_paid":{"value":3430,"currency":"USD","value_usd":3430},"fwci":0.4221,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.53414091,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":93},"biblio":{"volume":"271","issue":"33","first_page":"19668","last_page":"19674"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10934","display_name":"Heat shock proteins research","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/T10934","display_name":"Heat shock proteins research","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/T10044","display_name":"Protein Structure and Dynamics","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"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":9.999999747378752e-05,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/dnak","display_name":"DnaK","score":0.9959999918937683},{"id":"https://openalex.org/keywords/hsp40","display_name":"Hsp40","score":0.7570000290870667},{"id":"https://openalex.org/keywords/peptide-binding-site","display_name":"peptide binding site","score":0.8489999771118164},{"id":"https://openalex.org/keywords/peptide-cross-linking","display_name":"peptide cross-linking","score":0.7400000095367432},{"id":"https://openalex.org/keywords/hsp70-chaperones","display_name":"Hsp70 chaperones","score":0.7120000123977661},{"id":"https://openalex.org/keywords/chaperonin","display_name":"chaperonin","score":0.4690000116825104},{"id":"https://openalex.org/keywords/alpha-helix","display_name":"alpha-helix","score":0.546999990940094},{"id":"https://openalex.org/keywords/amino-acid-residues","display_name":"amino acid residues","score":0.4259999990463257}],"concepts":[{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.9014215469360352},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.6903766393661499},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.6146397590637207},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.613970935344696},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.55318683385849},{"id":"https://openalex.org/C2780340462","wikidata":"https://www.wikidata.org/wiki/Q127450","display_name":"Trypsin","level":3,"score":0.5035974383354187},{"id":"https://openalex.org/C2780557392","wikidata":"https://www.wikidata.org/wiki/Q523796","display_name":"Linker","level":2,"score":0.48803630471229553},{"id":"https://openalex.org/C14053116","wikidata":"https://www.wikidata.org/wiki/Q284398","display_name":"N-terminus","level":4,"score":0.4399200677871704},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.33270561695098877},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.1423381268978119},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000091342","descriptor_name":"Endoplasmic Reticulum Chaperone BiP","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D003432","descriptor_name":"Cross-Linking Reagents","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006360","descriptor_name":"Heat-Shock Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008562","descriptor_name":"Membrane Glycoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014357","descriptor_name":"Trypsin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014466","descriptor_name":"Ultraviolet Rays","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014721","descriptor_name":"Vesicular stomatitis Indiana virus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014759","descriptor_name":"Viral Envelope Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018832","descriptor_name":"Molecular Chaperones","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018840","descriptor_name":"HSP70 Heat-Shock Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D050883","descriptor_name":"HSC70 Heat-Shock Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1074/jbc.271.33.19668","doi":"https://doi.org/10.1074/jbc.271.33.19668","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.271.33.19668","pdf_url":"http://www.jbc.org/article/S0021925818982438/pdf","source":{"id":"https://openalex.org/S140251998","display_name":"Journal of Biological Chemistry","issn_l":"0021-9258","issn":["0021-9258","1067-8816","1083-351X"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biological Chemistry","raw_type":"journal-article"},{"id":"pmid:8702669","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/8702669","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":"The Journal of biological chemistry","raw_type":"Comparative Study"}],"best_oa_location":{"id":"doi:10.1074/jbc.271.33.19668","doi":"https://doi.org/10.1074/jbc.271.33.19668","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.271.33.19668","pdf_url":"http://www.jbc.org/article/S0021925818982438/pdf","source":{"id":"https://openalex.org/S140251998","display_name":"Journal of Biological Chemistry","issn_l":"0021-9258","issn":["0021-9258","1067-8816","1083-351X"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biological Chemistry","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1415485918","display_name":"CELLULAR RESPONSES TO DNA DAMAGE AND STRESS","funder_award_id":"R01GM028988","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2967437266","display_name":null,"funder_award_id":"GM17100-02","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G4537218714","display_name":"STRUCTURAL AND FUNCTIONAL STUDY OF DNAK","funder_award_id":"F32GM017100","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8679240924","display_name":"GLYCOPROTEIN HORMONE BIOSYNTHESIS AND ACTION","funder_award_id":"R01DK025532","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1977265258.pdf","grobid_xml":"https://content.openalex.org/works/W1977265258.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W82016731","https://openalex.org/W655583471","https://openalex.org/W960791378","https://openalex.org/W1489272761","https://openalex.org/W1518828679","https://openalex.org/W1522260796","https://openalex.org/W1567164927","https://openalex.org/W1586954919","https://openalex.org/W1597850573","https://openalex.org/W1598630167","https://openalex.org/W1670653629","https://openalex.org/W1685892021","https://openalex.org/W1851873120","https://openalex.org/W1892867345","https://openalex.org/W1929955207","https://openalex.org/W1936320257","https://openalex.org/W1956330430","https://openalex.org/W1974036723","https://openalex.org/W1974560596","https://openalex.org/W1976958793","https://openalex.org/W1978014671","https://openalex.org/W1994022052","https://openalex.org/W1999157304","https://openalex.org/W2015644766","https://openalex.org/W2029993034","https://openalex.org/W2032672063","https://openalex.org/W2033785962","https://openalex.org/W2034943952","https://openalex.org/W2042511341","https://openalex.org/W2043825401","https://openalex.org/W2060864422","https://openalex.org/W2062093195","https://openalex.org/W2070809545","https://openalex.org/W2074222872","https://openalex.org/W2075155315","https://openalex.org/W2075569593","https://openalex.org/W2076201930","https://openalex.org/W2076231247","https://openalex.org/W2076945013","https://openalex.org/W2084566007","https://openalex.org/W2086910570","https://openalex.org/W2086922403","https://openalex.org/W2092198909","https://openalex.org/W2111441225","https://openalex.org/W2123797085","https://openalex.org/W2128737924","https://openalex.org/W2137417707","https://openalex.org/W2163299071","https://openalex.org/W2177384235","https://openalex.org/W2951512787","https://openalex.org/W2951758363"],"related_works":["https://openalex.org/W2088305661","https://openalex.org/W4255824337","https://openalex.org/W2020894620","https://openalex.org/W2801932213","https://openalex.org/W2330036318","https://openalex.org/W2063645557","https://openalex.org/W2089511760","https://openalex.org/W4238514380","https://openalex.org/W1813353304","https://openalex.org/W1988523750"],"abstract_inverted_index":{"We":[0,17],"used":[1],"photocross-linking":[2],"of":[3,10,15,35,59,70,89,97,109,136,157,167,172],"peptides":[4,142],"to":[5,7,29,47,64,85,144],"DnaK":[6,48,60,90,98],"identify":[8],"elements":[9],"the":[11,36,42,45,55,65,71,76,93,110,122,158,162,168],"peptide":[12,33,46,82,112,169],"binding":[13,170],"site":[14],"DnaK.":[16],"attached":[18],"a":[19,86,151],"photoactivatable":[20,80,116],"group":[21],"(N-hydroxysuccinimidyl-4-azido-salicylic":[22],"acid":[23,27,57],"(NHS-ASA)":[24],"or":[25],"N-iodoacetamidobutyl-4-azido-salicylic":[26],"(I-ABASA))":[28],"different":[30,119],"positions":[31],"on":[32,121],"C":[34,83,113],"vesicular":[37],"stomatitis":[38],"virus":[39],"glycoprotein,":[40],"125I-radiolabeled":[41],"cross-linker,":[43],"cross-linked":[44,63,84,101,143],"by":[49,102],"UV":[50],"irradiation,":[51],"and":[52,91,126,134,181],"then":[53],"determined":[54],"amino":[56,145],"residues":[58],"that":[61,75,92,153],"were":[62],"peptide.":[66],"Limited":[67],"trypsin":[68],"digestion":[69],"DnaK-peptide":[72],"complex":[73],"revealed":[74],"derivatives":[77,114],"modified":[78,104],"with":[79],"cross-linker":[81],"C-terminal":[87],"fragment":[88,96],"N-terminal":[94],"45-kDa":[95],"was":[99],"not":[100],"these":[103],"peptides.":[105],"The":[106],"attachment":[107],"points":[108],"three":[111,141],"carrying":[115],"cross-linkers":[117],"at":[118],"locations":[120],"peptide,":[123],"PepC-ASA,":[124],"PepC-S7C-ABASA,":[125],"PepC-S8C-ABASA,":[127],"have":[128],"been":[129],"identified":[130],"as":[131],"Arg-536,":[132],"Arg-527,":[133],"His-541":[135],"DnaK,":[137],"respectively.":[138],"Thus":[139],"all":[140],"acids":[146],"located":[147],"close":[148],"together":[149],"in":[150,161],"sequence":[152],"includes":[154],"one":[155],"end":[156],"long":[159],"alpha-helix":[160],"NMR-based":[163],"secondary":[164],"structure":[165],"model":[166],"domain":[171],"Hsp70":[173],"family":[174],"(Morshauser,":[175],"R.,":[176],"Wang,":[177],"H.,":[178],"Flynn,":[179],"G.,":[180],"Zuiderweg,":[182],"E.":[183],"(1995)":[184],"Biochemistry":[185],"34,":[186],"6261-6266).":[187]},"counts_by_year":[{"year":2013,"cited_by_count":1}],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}