{"id":"https://openalex.org/W2051787622","doi":"https://doi.org/10.1021/bi901323a","title":"A Structural Model for the Single-Stranded DNA Genome of Filamentous Bacteriophage Pf1","display_name":"A Structural Model for the Single-Stranded DNA Genome of Filamentous Bacteriophage Pf1","publication_year":2010,"publication_date":"2010-01-15","ids":{"openalex":"https://openalex.org/W2051787622","doi":"https://doi.org/10.1021/bi901323a","mag":"2051787622","pmid":"https://pubmed.ncbi.nlm.nih.gov/20078135","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/2829477"},"language":"en","primary_location":{"id":"doi:10.1021/bi901323a","doi":"https://doi.org/10.1021/bi901323a","is_oa":false,"landing_page_url":"https://doi.org/10.1021/bi901323a","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2829477","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110172292","display_name":"Masamichi Tsuboi","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I79746392","display_name":"IRYO Sosei University","ror":"https://ror.org/04v5axh10","country_code":"JP","type":"education","lineage":["https://openalex.org/I79746392"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Masamichi Tsuboi","raw_affiliation_strings":["College of Science and Engineering and Faculty of Pharmacy, Iwaki-Meisei University, Chuodai-Iino 5-5-1, Iwaki, Fukushima 970-8551, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science and Engineering and Faculty of Pharmacy, Iwaki-Meisei University, Chuodai-Iino 5-5-1, Iwaki, Fukushima 970-8551, Japan","institution_ids":["https://openalex.org/I79746392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015186730","display_name":"M. Tsunoda","orcid":"https://orcid.org/0000-0002-3128-7695","observed_orcids":["https://orcid.org/0000-0002-3128-7695"]},"institutions":[{"id":"https://openalex.org/I79746392","display_name":"IRYO Sosei University","ror":"https://ror.org/04v5axh10","country_code":"JP","type":"education","lineage":["https://openalex.org/I79746392"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Masaru Tsunoda","raw_affiliation_strings":["College of Science and Engineering and Faculty of Pharmacy, Iwaki-Meisei University, Chuodai-Iino 5-5-1, Iwaki, Fukushima 970-8551, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science and Engineering and Faculty of Pharmacy, Iwaki-Meisei University, Chuodai-Iino 5-5-1, Iwaki, Fukushima 970-8551, Japan","institution_ids":["https://openalex.org/I79746392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027883485","display_name":"Stacy A. Overman","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I75421653","display_name":"University of Missouri\u2013Kansas City","ror":"https://ror.org/01w0d5g70","country_code":"US","type":"education","lineage":["https://openalex.org/I75421653"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stacy A. Overman","raw_affiliation_strings":["School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499","institution_ids":["https://openalex.org/I75421653"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023823920","display_name":"James M. Benevides","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I75421653","display_name":"University of Missouri\u2013Kansas City","ror":"https://ror.org/01w0d5g70","country_code":"US","type":"education","lineage":["https://openalex.org/I75421653"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James M. Benevides","raw_affiliation_strings":["School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499","institution_ids":["https://openalex.org/I75421653"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5109136389","display_name":"George J. Thomas","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I75421653","display_name":"University of Missouri\u2013Kansas City","ror":"https://ror.org/01w0d5g70","country_code":"US","type":"education","lineage":["https://openalex.org/I75421653"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"George J. Thomas","raw_affiliation_strings":["School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Missouri-Kansas City, 5100 Rockhill Road, Kansas City, Missouri 64110-2499","institution_ids":["https://openalex.org/I75421653"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5109136389"],"corresponding_institution_ids":["https://openalex.org/I75421653"],"apc_list":{"value":4500,"currency":"USD","value_usd":4500},"apc_paid":null,"fwci":1.5651,"has_fulltext":false,"cited_by_count":21,"citation_normalized_percentile":{"value":0.80946319,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":87,"max":97},"biblio":{"volume":"49","issue":"8","first_page":"1737","last_page":"1743"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11324","display_name":"Spectroscopy Techniques in Biomedical and Chemical Research","score":0.8485999703407288,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T11324","display_name":"Spectroscopy Techniques in Biomedical and Chemical Research","score":0.8485999703407288,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.09390000253915787,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.02889999933540821,"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/filamentous-bacteriophage","display_name":"filamentous bacteriophage","score":0.8840000033378601},{"id":"https://openalex.org/keywords/single-stranded-dna-genome","display_name":"single-stranded DNA genome","score":0.828000009059906},{"id":"https://openalex.org/keywords/dna-packaging","display_name":"DNA packaging","score":0.5519999861717224},{"id":"https://openalex.org/keywords/pseudomonas-aeruginosa","display_name":"Pseudomonas aeruginosa","score":0.7549999952316284},{"id":"https://openalex.org/keywords/phage-assembly","display_name":"phage assembly","score":0.4830000102519989},{"id":"https://openalex.org/keywords/polarized-raman-spectroscopy","display_name":"polarized Raman spectroscopy","score":0.8240000009536743}],"concepts":[{"id":"https://openalex.org/C14228908","wikidata":"https://www.wikidata.org/wiki/Q2920483","display_name":"Protein filament","level":2,"score":0.626103401184082},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.6140816807746887},{"id":"https://openalex.org/C512185932","wikidata":"https://www.wikidata.org/wiki/Q28745","display_name":"Nucleotide","level":3,"score":0.6007262468338013},{"id":"https://openalex.org/C40003534","wikidata":"https://www.wikidata.org/wiki/Q862228","display_name":"Raman spectroscopy","level":2,"score":0.5556789636611938},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.4932484030723572},{"id":"https://openalex.org/C2776441376","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacteriophage","level":4,"score":0.44859209656715393},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.41572305560112},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.32272523641586304},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.15396609902381897},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1322992444038391},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.1242479681968689},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.06871426105499268}],"mesh":[{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004279","descriptor_name":"DNA, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004279","descriptor_name":"DNA, Viral","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013059","descriptor_name":"Spectrum Analysis, Raman","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014771","descriptor_name":"Virion","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014771","descriptor_name":"Virion","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D017912","descriptor_name":"Inovirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D017912","descriptor_name":"Inovirus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1021/bi901323a","doi":"https://doi.org/10.1021/bi901323a","is_oa":false,"landing_page_url":"https://doi.org/10.1021/bi901323a","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},{"id":"pmid:20078135","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20078135","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":"Biochemistry","raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:2059551","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2829477","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:2829477","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC2829477/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Biochemistry","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:europepmc.org:2059551","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2829477","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Text"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1571895079","display_name":"Molecular Structure and Interactions of Viruses","funder_award_id":"R01GM050776","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8696897306","display_name":"Structures, Interactions and Dynamics of Nucleic Acids","funder_award_id":"R01GM054378","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":35,"referenced_works":["https://openalex.org/W191616267","https://openalex.org/W1510061653","https://openalex.org/W1530518672","https://openalex.org/W1584476217","https://openalex.org/W1964441323","https://openalex.org/W1965887195","https://openalex.org/W1969304814","https://openalex.org/W1991431023","https://openalex.org/W1995017064","https://openalex.org/W1998790945","https://openalex.org/W1999735489","https://openalex.org/W2002395437","https://openalex.org/W2008322962","https://openalex.org/W2008913102","https://openalex.org/W2010839158","https://openalex.org/W2011549337","https://openalex.org/W2016894955","https://openalex.org/W2023596283","https://openalex.org/W2028666176","https://openalex.org/W2031799039","https://openalex.org/W2039665135","https://openalex.org/W2039814873","https://openalex.org/W2043494885","https://openalex.org/W2053884498","https://openalex.org/W2066879412","https://openalex.org/W2067678100","https://openalex.org/W2069913531","https://openalex.org/W2085570760","https://openalex.org/W2086496769","https://openalex.org/W2087028051","https://openalex.org/W2087100981","https://openalex.org/W2099039280","https://openalex.org/W2102916539","https://openalex.org/W2117217620","https://openalex.org/W2131624869"],"related_works":["https://openalex.org/W2031799039","https://openalex.org/W2023596283","https://openalex.org/W2024440143","https://openalex.org/W1486684721","https://openalex.org/W2009735705","https://openalex.org/W2051441553","https://openalex.org/W2060513638","https://openalex.org/W2084368257","https://openalex.org/W2002395437","https://openalex.org/W2071880081"],"abstract_inverted_index":{"The":[0,40,136],"filamentous":[1],"bacteriophage":[2],"Pf1,":[3],"which":[4,43],"infects":[5],"strain":[6],"PAK":[7],"of":[8,22,28,35,68,93,102,112,146,150],"Pseudomonas":[9],"aeruginosa,":[10],"is":[11],"a":[12,23,36,47,142,166],"flexible":[13],"filament":[14,77,134],"(":[15,51],"approximately":[16,52],"2000":[17],"x":[18],"6.5":[19],"nm)":[20],"consisting":[21],"covalently":[24],"closed":[25],"DNA":[26,65,71,103,115,152],"loop":[27],"7349":[29],"nucleotides":[30,72],"sheathed":[31],"by":[32],"7350":[33],"copies":[34],"46-residue":[37],"alpha-helical":[38],"subunit.":[39],"subunit":[41],"alpha-helices,":[42],"are":[44,60,79,116,127,139],"inclined":[45],"at":[46],"small":[48],"average":[49],"angle":[50],"16":[53],"degrees":[54],")":[55],"from":[56],"the":[57,64,69,76,89,100,109,120,124,133,147,171],"virion":[58,121],"axis,":[59],"arranged":[61],"compactly":[62],"around":[63],"core.":[66],"Orientations":[67],"Pf1":[70,95,114,151,172],"with":[73,141],"respect":[74],"to":[75,130,132,164],"axis":[78],"not":[80],"known.":[81],"In":[82],"this":[83],"work":[84],"we":[85],"report":[86],"and":[87,122,156],"interpret":[88],"polarized":[90],"Raman":[91,104],"spectra":[92],"oriented":[94],"filaments.":[96],"We":[97],"demonstrate":[98],"that":[99,108,123],"polarizations":[101],"band":[105],"intensities":[106],"establish":[107],"nucleotide":[110],"bases":[111],"packaged":[113],"well":[117],"ordered":[118],"within":[119],"base":[125],"planes":[126],"positioned":[128],"close":[129],"parallel":[131],"axis.":[135],"present":[137],"results":[138],"combined":[140],"previously":[143],"proposed":[144],"projection":[145],"intraviral":[148],"path":[149],"[Liu,":[153],"D.":[154],"J.,":[155],"Day,":[157],"L.":[158],"A.":[159],"(1994)":[160],"Science":[161],"265,":[162],"671-674]":[163],"develop":[165],"novel":[167],"molecular":[168],"model":[169],"for":[170],"assembly.":[173]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-11-10T11:39:43.021295","created_date":"2016-06-24T00:00:00"}