{"id":"https://openalex.org/W2995110164","doi":"https://doi.org/10.1101/2019.12.20.885368","title":"Self-regulation of single-stranded DNA wrapping dynamics by E. coli SSB promotes both stable binding and rapid dissociation","display_name":"Self-regulation of single-stranded DNA wrapping dynamics by E. coli SSB promotes both stable binding and rapid dissociation","publication_year":2019,"publication_date":"2019-12-21","ids":{"openalex":"https://openalex.org/W2995110164","doi":"https://doi.org/10.1101/2019.12.20.885368","mag":"2995110164"},"language":"en","primary_location":{"id":"doi:10.1101/2019.12.20.885368","doi":"https://doi.org/10.1101/2019.12.20.885368","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2019.12.20.885368","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2019/12/21/2019.12.20.885368.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2019/12/21/2019.12.20.885368.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072151645","display_name":"M. Nabuan Naufer","orcid":"https://orcid.org/0000-0001-7474-4465","observed_orcids":["https://orcid.org/0000-0001-7474-4465"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Nabuan Naufer","raw_affiliation_strings":["Department of Physics, Northeastern University, Boston, MA, 02115","Department of Physics, Northeastern University, Boston, MA, 025"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 025","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005057288","display_name":"Michael Morse","orcid":"https://orcid.org/0000-0002-8561-1833","observed_orcids":["https://orcid.org/0000-0002-8561-1833"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Morse","raw_affiliation_strings":["Department of Physics, Northeastern University, Boston, MA, 02115","Department of Physics, Northeastern University, Boston, MA, 025"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 025","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090106430","display_name":"Gu\u00f0fr\u00ed\u00f0ur Bj\u00f6rg M\u00f6ller","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gu\u00f0fr\u00ed\u00f0ur Bj\u00f6rg M\u00f6ller","raw_affiliation_strings":["Department of Physics, Northeastern University, Boston, MA, 02115","Department of Physics, Northeastern University, Boston, MA, 025"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 025","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051007966","display_name":"James McIsaac","orcid":"https://orcid.org/0000-0002-0382-2355","observed_orcids":["https://orcid.org/0000-0002-0382-2355"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James McIsaac","raw_affiliation_strings":["Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 02115","Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 0115"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 0115","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051419894","display_name":"Ioulia F. Rouzina","orcid":"https://orcid.org/0000-0003-4651-5264","observed_orcids":["https://orcid.org/0000-0003-4651-5264"]},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ioulia Rouzina","raw_affiliation_strings":["Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH 43210","Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH 4210"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH 43210","institution_ids":["https://openalex.org/I52357470"]},{"raw_affiliation_string":"Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH 4210","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015910317","display_name":"Penny J. Beuning","orcid":"https://orcid.org/0000-0002-7770-022X","observed_orcids":["https://orcid.org/0000-0002-7770-022X"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Penny J. Beuning","raw_affiliation_strings":["Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 02115","Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 0115"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA, 0115","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029091774","display_name":"Mark C. Williams","orcid":"https://orcid.org/0000-0003-3219-376X","observed_orcids":["https://orcid.org/0000-0003-3219-376X"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mark C. Williams","raw_affiliation_strings":["Department of Physics, Northeastern University, Boston, MA, 02115","Department of Physics, Northeastern University, Boston, MA, 025"],"raw_orcid":"https://orcid.org/0000-0003-3219-376X","affiliations":[{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 02115","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Physics, Northeastern University, Boston, MA, 025","institution_ids":["https://openalex.org/I12912129"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5029091774"],"corresponding_institution_ids":["https://openalex.org/I12912129"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13187","display_name":"Diffusion and Search Dynamics","score":0.8246999979019165,"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/T13187","display_name":"Diffusion and Search Dynamics","score":0.8246999979019165,"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/T10123","display_name":"DNA Repair Mechanisms","score":0.08590000122785568,"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/T10923","display_name":"Force Microscopy Techniques and Applications","score":0.04969999939203262,"subfield":{"id":"https://openalex.org/subfields/3107","display_name":"Atomic and Molecular Physics, and Optics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/sugar-sweetened-beverages","display_name":"sugar-sweetened beverages","score":0.5429999828338623},{"id":"https://openalex.org/keywords/protein-dna-binding-kinetics","display_name":"protein-DNA binding kinetics","score":0.7770000100135803},{"id":"https://openalex.org/keywords/nearest-neighbor-interactions","display_name":"nearest-neighbor interactions","score":0.6869999766349792},{"id":"https://openalex.org/keywords/genome-maintenance","display_name":"genome maintenance","score":0.8349999785423279},{"id":"https://openalex.org/keywords/dna-replication","display_name":"DNA replication","score":0.8159999847412109},{"id":"https://openalex.org/keywords/dna-repair","display_name":"DNA repair","score":0.7680000066757202},{"id":"https://openalex.org/keywords/optical-tweezers","display_name":"optical tweezers","score":0.7160000205039978}],"concepts":[{"id":"https://openalex.org/C2778886173","wikidata":"https://www.wikidata.org/wiki/Q53832","display_name":"Tetramer","level":3,"score":0.6968573927879333},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.6294082999229431},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.6087564826011658},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.5188202261924744},{"id":"https://openalex.org/C102931765","wikidata":"https://www.wikidata.org/wiki/Q189673","display_name":"Dissociation (chemistry)","level":2,"score":0.5141994953155518},{"id":"https://openalex.org/C73573662","wikidata":"https://www.wikidata.org/wiki/Q130996","display_name":"DNA replication","level":3,"score":0.4724752604961395},{"id":"https://openalex.org/C512185932","wikidata":"https://www.wikidata.org/wiki/Q28745","display_name":"Nucleotide","level":3,"score":0.44773122668266296},{"id":"https://openalex.org/C77400797","wikidata":"https://www.wikidata.org/wiki/Q24724047","display_name":"Single-stranded binding protein","level":5,"score":0.4290931522846222},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.396888792514801},{"id":"https://openalex.org/C94966510","wikidata":"https://www.wikidata.org/wiki/Q2252764","display_name":"DNA-binding protein","level":4,"score":0.26097798347473145},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.23368006944656372},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1720655858516693},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.15688717365264893},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.085736483335495},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.0767413079738617},{"id":"https://openalex.org/C147789679","wikidata":"https://www.wikidata.org/wiki/Q11372","display_name":"Physical chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1101/2019.12.20.885368","doi":"https://doi.org/10.1101/2019.12.20.885368","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2019.12.20.885368","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2019/12/21/2019.12.20.885368.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.1101/2019.12.20.885368","doi":"https://doi.org/10.1101/2019.12.20.885368","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2019.12.20.885368","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2019/12/21/2019.12.20.885368.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G344133651","display_name":"Quantifying Single Molecule DNA-ligand Interactions","funder_award_id":"1817712","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3764513323","display_name":"Molecular mechanisms of polymerase management","funder_award_id":"1615946","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2995110164.pdf","grobid_xml":"https://content.openalex.org/works/W2995110164.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W171381810","https://openalex.org/W1500420602","https://openalex.org/W1501619406","https://openalex.org/W1504986101","https://openalex.org/W1526102850","https://openalex.org/W1556573788","https://openalex.org/W1559132509","https://openalex.org/W1584920009","https://openalex.org/W1605482400","https://openalex.org/W1619891693","https://openalex.org/W1806123628","https://openalex.org/W1924027056","https://openalex.org/W1945756523","https://openalex.org/W1964526008","https://openalex.org/W1966260649","https://openalex.org/W1971178460","https://openalex.org/W1977109739","https://openalex.org/W1989108993","https://openalex.org/W1989508283","https://openalex.org/W1998276013","https://openalex.org/W2015912163","https://openalex.org/W2017127381","https://openalex.org/W2033119420","https://openalex.org/W2044507201","https://openalex.org/W2052960275","https://openalex.org/W2056082657","https://openalex.org/W2091928826","https://openalex.org/W2093065152","https://openalex.org/W2093358373","https://openalex.org/W2100489858","https://openalex.org/W2115684167","https://openalex.org/W2115942985","https://openalex.org/W2116711646","https://openalex.org/W2133290100","https://openalex.org/W2135006530","https://openalex.org/W2145304961","https://openalex.org/W2153436893","https://openalex.org/W2167499835","https://openalex.org/W2191824721","https://openalex.org/W2410800695","https://openalex.org/W2574055941","https://openalex.org/W2591942932","https://openalex.org/W2612254851","https://openalex.org/W2744835540","https://openalex.org/W2901607021","https://openalex.org/W2903481453","https://openalex.org/W2938964090","https://openalex.org/W2982280598","https://openalex.org/W2982587873"],"related_works":["https://openalex.org/W3120161506","https://openalex.org/W2914266382","https://openalex.org/W3004719888","https://openalex.org/W3132335929","https://openalex.org/W4211073426","https://openalex.org/W1945756523","https://openalex.org/W4410339914","https://openalex.org/W2162444193","https://openalex.org/W2588802532","https://openalex.org/W2794497310"],"abstract_inverted_index":{"Abstract":[0],"E.":[1],"coli":[2],"SSB":[3,28,78,106,122,177,207],"(":[4],"Ec":[5,27,77,105,112,121,151,158,165,176,206],"SSB)":[6],"is":[7,148],"a":[8,62,81,100,118,135,170,197,231],"model":[9,173],"protein":[10,72,94,235],"for":[11,219],"studying":[12],"functions":[13,224],"of":[14,61,111,130,138,163,234],"single-stranded":[15],"DNA":[16,220],"(ssDNA)":[17],"binding":[18,58],"proteins":[19],"(SSBs),":[20],"which":[21,127,175,184,200],"are":[22,88,132,185],"critical":[23,101],"in":[24,34,37,80,114,126,174],"genome":[25],"maintenance.":[26],"forms":[29],"homotetramers":[30],"that":[31,76],"wrap":[32],"ssDNA":[33,65,131,147,192,215,229],"multiple":[35,181],"conformations":[36,183],"order":[38],"to":[39,217],"protect":[40],"these":[41],"transiently":[42],"formed":[43],"regions":[44],"during":[45],"processes":[46],"such":[47],"as":[48,93],"replication":[49,223],"and":[50,59,70,191,204,222],"repair.":[51],"Using":[52],"optical":[53],"tweezers,":[54],"we":[55],"measure":[56],"the":[57,97,109,139,146],"wrapping":[60,86],"single":[63,136],"long":[64],"substrate":[66,98,143,216],"under":[67],"various":[68],"conditions":[69],"free":[71,104],"concentrations.":[73,236],"We":[74,168],"show":[75],"binds":[79],"biphasic":[82],"manner,":[83],"where":[84],"initial":[85],"events":[87,92],"followed":[89],"by":[90,134],"unwrapping":[91],"density":[95],"on":[96],"passes":[99],"saturation.":[102],"Increasing":[103],"concentrations":[107],"increase":[108],"fraction":[110],"SSBs":[113],"less-wrapped":[115],"conformations,":[116],"including":[117],"previously":[119],"uncharacterized":[120],"8":[123],"bound":[124,133,203],"state":[125],"\u223c8":[128],"nucleotides":[129],"domain":[137],"tetramer":[140],"with":[141,150],"minimal":[142],"deformation.":[144],"When":[145],"over-saturated":[149],"SSB,":[152,159],"stimulated":[153],"dissociation":[154],"rapidly":[155,211],"removes":[156],"excess":[157],"leaving":[160],"an":[161,214],"array":[162],"stably-wrapped":[164],"SSB-ssDNA":[166],"complexes.":[167],"develop":[169],"multi-step":[171],"kinetic":[172],"tetramers":[178,208],"transition":[179],"through":[180,187,199],"wrapped":[182,205],"regulated":[186],"nearest":[188],"neighbor":[189],"interactions":[190],"occupancy.":[193],"These":[194],"results":[195],"provide":[196],"mechanism":[198],"otherwise":[201],"stably":[202],"can":[209],"be":[210],"removed":[212],"from":[213],"allow":[218],"maintenance":[221],"while":[225],"still":[226],"fully":[227],"protecting":[228],"over":[230],"wide":[232],"range":[233]},"counts_by_year":[{"year":2023,"cited_by_count":1}],"updated_date":"2026-10-08T09:06:37.294493","created_date":"2019-12-26T00:00:00"}
