{"id":"https://openalex.org/W2086483206","doi":"https://doi.org/10.1074/jbc.m210769200","title":"Bacteriophage T4 Dam DNA-(N 6-adenine)-methyltransferase","display_name":"Bacteriophage T4 Dam DNA-(N 6-adenine)-methyltransferase","publication_year":2003,"publication_date":"2003-02-28","ids":{"openalex":"https://openalex.org/W2086483206","doi":"https://doi.org/10.1074/jbc.m210769200","mag":"2086483206","pmid":"https://pubmed.ncbi.nlm.nih.gov/12501249"},"language":"en","primary_location":{"id":"doi:10.1074/jbc.m210769200","doi":"https://doi.org/10.1074/jbc.m210769200","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.m210769200","pdf_url":null,"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":"https://doi.org/10.1074/jbc.m210769200","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113529510","display_name":"Victor V. Zinoviev","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I2802000777","display_name":"State Research Center of Virology and Biotechnology VECTOR","ror":"https://ror.org/00z7n1h55","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1318325419","https://openalex.org/I2802000777"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Victor V. Zinoviev","raw_affiliation_strings":["Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia","institution_ids":["https://openalex.org/I2802000777"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110876933","display_name":"Alexey A. Evdokimov","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I2802000777","display_name":"State Research Center of Virology and Biotechnology VECTOR","ror":"https://ror.org/00z7n1h55","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1318325419","https://openalex.org/I2802000777"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Alexey A. Evdokimov","raw_affiliation_strings":["Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia","institution_ids":["https://openalex.org/I2802000777"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109831272","display_name":"Ernst G. Malygin","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I2802000777","display_name":"State Research Center of Virology and Biotechnology VECTOR","ror":"https://ror.org/00z7n1h55","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1318325419","https://openalex.org/I2802000777"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Ernst G. Malygin","raw_affiliation_strings":["Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Molecular Biology, State Research Center of Virology and Biotechnology Vector, Novosibirsk 630559, Russia","institution_ids":["https://openalex.org/I2802000777"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031601960","display_name":"Samuel L. Schlagman","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I5388228","display_name":"University of Rochester","ror":"https://ror.org/022kthw22","country_code":"US","type":"education","lineage":["https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samuel L. Schlagman","raw_affiliation_strings":["Department of Biology, University of Rochester, Rochester, New York 14627-0211"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Rochester, Rochester, New York 14627-0211","institution_ids":["https://openalex.org/I5388228"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059725617","display_name":"Stanley Hattman","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I5388228","display_name":"University of Rochester","ror":"https://ror.org/022kthw22","country_code":"US","type":"education","lineage":["https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Stanley Hattman","raw_affiliation_strings":["Department of Biology, University of Rochester, Rochester, New York 14627-0211"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Rochester, Rochester, New York 14627-0211","institution_ids":["https://openalex.org/I5388228"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5059725617"],"corresponding_institution_ids":["https://openalex.org/I5388228"],"apc_list":{"value":3430,"currency":"USD","value_usd":3430},"apc_paid":{"value":3430,"currency":"USD","value_usd":3430},"fwci":1.3791,"has_fulltext":false,"cited_by_count":21,"citation_normalized_percentile":{"value":0.79080525,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"278","issue":"10","first_page":"7829","last_page":"7833"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.23469999432563782,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.23469999432563782,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.20630000531673431,"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":0.13619999587535858,"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/dna-adenine-methyltransferase","display_name":"DNA adenine methyltransferase","score":0.6840000152587891},{"id":"https://openalex.org/keywords/s-adenosylmethionine","display_name":"S-adenosylmethionine","score":0.8619999885559082},{"id":"https://openalex.org/keywords/s-adenosylhomocysteine","display_name":"S-adenosylhomocysteine","score":0.9909999966621399},{"id":"https://openalex.org/keywords/gatc-sites","display_name":"GATC sites","score":0.671999990940094},{"id":"https://openalex.org/keywords/processivity","display_name":"processivity","score":0.7749999761581421},{"id":"https://openalex.org/keywords/pre-steady-state-kinetics","display_name":"pre-steady-state kinetics","score":0.7540000081062317},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.5139999985694885},{"id":"https://openalex.org/keywords/double-stranded-dna","display_name":"double-stranded DNA","score":0.4440000057220459}],"concepts":[{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.7289780378341675},{"id":"https://openalex.org/C91965660","wikidata":"https://www.wikidata.org/wiki/Q415875","display_name":"Methyltransferase","level":4,"score":0.7089124917984009},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.6008712649345398},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.5566509366035461},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.5119341611862183},{"id":"https://openalex.org/C33288867","wikidata":"https://www.wikidata.org/wiki/Q518328","display_name":"Methylation","level":3,"score":0.49583300948143005},{"id":"https://openalex.org/C99611785","wikidata":"https://www.wikidata.org/wiki/Q6453233","display_name":"Duplex (building)","level":3,"score":0.48759594559669495},{"id":"https://openalex.org/C2776441376","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacteriophage","level":4,"score":0.46843940019607544},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.46151018142700195},{"id":"https://openalex.org/C8171440","wikidata":"https://www.wikidata.org/wiki/Q903414","display_name":"Steady state (chemistry)","level":2,"score":0.4121329188346863},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3783547878265381},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2844059467315674},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.10710614919662476},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C147789679","wikidata":"https://www.wikidata.org/wiki/Q11372","display_name":"Physical chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015265","descriptor_name":"Site-Specific DNA-Methyltransferase (Adenine-Specific)","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D017122","descriptor_name":"Bacteriophage T4","qualifier_ui":"Q000201","qualifier_name":"enzymology","is_major_topic":true},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1074/jbc.m210769200","doi":"https://doi.org/10.1074/jbc.m210769200","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.m210769200","pdf_url":null,"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:12501249","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/12501249","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":"Journal Article"}],"best_oa_location":{"id":"doi:10.1074/jbc.m210769200","doi":"https://doi.org/10.1074/jbc.m210769200","is_oa":true,"landing_page_url":"https://doi.org/10.1074/jbc.m210769200","pdf_url":null,"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":[],"sustainable_development_goals_aurora":[{"score":0.6000000238418579,"id":"https://metadata.un.org/sdg/6","display_name":"Clean water and sanitation"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G2990566259","display_name":"Effector roles of T4Dam DNA-methyltransferase subsrates","funder_award_id":"R03TW005755","funder_id":"https://openalex.org/F4320337356","funder_display_name":"Fogarty International Center"},{"id":"https://openalex.org/G6942631888","display_name":null,"funder_award_id":"GM29227","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7204913507","display_name":"DNA MODIFICATION/RESTRICTION IN PRO-AND EUKARYOTES","funder_award_id":"5r01gm029227-29","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"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/F4320337356","display_name":"Fogarty International Center","ror":"https://ror.org/02xey9a22"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":22,"referenced_works":["https://openalex.org/W1548141954","https://openalex.org/W1585338920","https://openalex.org/W1966943689","https://openalex.org/W1970107572","https://openalex.org/W1971374540","https://openalex.org/W1973496342","https://openalex.org/W1986844235","https://openalex.org/W2005986251","https://openalex.org/W2006760092","https://openalex.org/W2008243144","https://openalex.org/W2048978731","https://openalex.org/W2059475921","https://openalex.org/W2061801549","https://openalex.org/W2076129724","https://openalex.org/W2077890483","https://openalex.org/W2085386155","https://openalex.org/W2095084342","https://openalex.org/W2097404504","https://openalex.org/W2126916732","https://openalex.org/W2128635872","https://openalex.org/W2142316966","https://openalex.org/W2154544674"],"related_works":["https://openalex.org/W2032406332","https://openalex.org/W2051225798","https://openalex.org/W2048978731","https://openalex.org/W2097404504","https://openalex.org/W2085777743","https://openalex.org/W1991776265","https://openalex.org/W2089400885","https://openalex.org/W2912302018","https://openalex.org/W2106359847","https://openalex.org/W2059475921"],"abstract_inverted_index":{"We":[0,44],"carried":[1],"out":[2],"steady":[3,132],"state":[4,7],"and":[5,41,160],"pre-steady":[6],"(burst)":[8],"kinetic":[9],"analyses":[10],"of":[11,39,54,57,194],"the":[12,46,55,58,65,101,131,151,176],"bacteriophage":[13],"T4":[14,74,88,105,169,180],"Dam":[15,75,89,106],"DNA-(N(6)-adenine)-methyltransferase":[16],"(MTase)-mediated":[17],"methyl":[18,155],"group":[19],"transfer":[20,156],"from":[21,100,140,150],"S-adenosyl-l-methionine":[22],"(AdoMet)":[23],"to":[24,63,130,163,175],"Ade":[25],"in":[26,80,128],"oligonucleotide":[27],"duplexes":[28,51,61,79],"containing":[29],"one":[30,158],"or":[31],"two":[32,59],"specific":[33],"GATC":[34],"sites":[35,197],"with":[36,52,110,208],"different":[37],"combinations":[38],"methylated":[40,142,196],"unmodified":[42],"targets.":[43],"compared":[45,207],"results":[47,69],"for":[48,95,202],"ligated":[49],"40-mer":[50,78],"those":[53],"mixtures":[56],"unligated":[60],"used":[62],"generate":[64],"40-mers.":[66],"The":[67,191],"salient":[68],"are":[70],"as":[71],"follows:":[72],"(i)":[73],"MTase":[76],"modifies":[77],"a":[81,141,164,167,203],"processive":[82,86],"fashion.":[83],"(ii)":[84],"During":[85],"movement,":[87],"rapidly":[90,172],"exchanges":[91],"product":[92],"S-adenosyl-l-homocysteine":[93],"(AdoHcy)":[94],"substrate":[96],"AdoMet":[97,115],"without":[98,147],"dissociating":[99,149],"DNA":[102,118,205],"duplex.":[103],"(iii)":[104],"processivity":[107],"is":[108,199],"consistent":[109],"an":[111,185],"ordered":[112],"bi-bi":[113],"mechanism":[114],"downward":[116,119],"arrow":[117,120,123,137,146],"DNA(Me)":[121,135],"upward":[122,125,136,145],"AdoHcy":[124],"arrow.":[126],"However,":[127],"contrast":[129],"state,":[133],"here":[134],"signifies":[138],"departure":[139],"site":[143,159],"GMTC":[144,188],"physically":[148],"DNA.":[152],"(iv)":[153],"Following":[154],"at":[157,184],"linear":[161],"diffusion":[162],"hemimethylated":[165],"site,":[166],"reconstituted":[168],"Dam-AdoMet":[170],"complex":[171],"reorients":[173],"itself":[174],"(productive)":[177],"unmethylated":[178],"strand.":[179],"Dam-AdoHcy":[181],"cannot":[182],"reorient":[183],"enzymatically":[186],"created":[187],"site.":[189],"(v)":[190],"inhibition":[192],"potential":[193],"fully":[195],"5'-GMTC/5'-GMTC":[198],"much":[200],"lower":[201],"long":[204],"molecule":[206],"short":[209],"single-site":[210],"duplexes.":[211]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-11-01T11:40:01.658920","created_date":"2016-06-24T00:00:00"}