{"id":"https://openalex.org/W2144378359","doi":"https://doi.org/10.1093/database/bav039","title":"novPTMenzy: a database for enzymes involved in novel post-translational modifications","display_name":"novPTMenzy: a database for enzymes involved in novel post-translational modifications","publication_year":2015,"publication_date":"2015-01-01","ids":{"openalex":"https://openalex.org/W2144378359","doi":"https://doi.org/10.1093/database/bav039","mag":"2144378359","pmid":"https://pubmed.ncbi.nlm.nih.gov/25931459"},"language":"en","primary_location":{"id":"doi:10.1093/database/bav039","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bav039","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bav039/7298728/bav039.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bav039/7298728/bav039.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034944491","display_name":"Shradha Khater","orcid":"https://orcid.org/0000-0003-1400-7572"},"institutions":[{"id":"https://openalex.org/I4210156726","display_name":"National Institute of Immunology","ror":"https://ror.org/04fhee747","country_code":"IN","type":"government","lineage":["https://openalex.org/I2799351866","https://openalex.org/I4210134808","https://openalex.org/I4210156726"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Shradha Khater","raw_affiliation_strings":["Bioinformatics Centre, National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi 110067, India"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi 110067, India","institution_ids":["https://openalex.org/I4210156726"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5066836332","display_name":"Debasisa Mohanty","orcid":"https://orcid.org/0000-0002-3374-0588"},"institutions":[{"id":"https://openalex.org/I4210156726","display_name":"National Institute of Immunology","ror":"https://ror.org/04fhee747","country_code":"IN","type":"government","lineage":["https://openalex.org/I2799351866","https://openalex.org/I4210134808","https://openalex.org/I4210156726"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Debasisa Mohanty","raw_affiliation_strings":["Bioinformatics Centre, National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi 110067, India"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi 110067, India","institution_ids":["https://openalex.org/I4210156726"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5034944491"],"corresponding_institution_ids":["https://openalex.org/I4210156726"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.4519,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.6622023,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"2015","issue":null,"first_page":"bav039","last_page":"bav039"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987000226974487,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987000226974487,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9948999881744385,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9947999715805054,"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/deamidation","display_name":"Deamidation","score":0.7395590543746948},{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.6376334428787231},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.609914243221283},{"id":"https://openalex.org/keywords/adenylylation","display_name":"Adenylylation","score":0.6027648448944092},{"id":"https://openalex.org/keywords/glycosylation","display_name":"Glycosylation","score":0.5757836699485779},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5238038301467896},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.49066150188446045},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.46343666315078735},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.3936850130558014},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37417638301849365},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.29469066858291626},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.22753050923347473},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2161879539489746},{"id":"https://openalex.org/keywords/biosynthesis","display_name":"Biosynthesis","score":0.12120917439460754}],"concepts":[{"id":"https://openalex.org/C2780784506","wikidata":"https://www.wikidata.org/wiki/Q4859711","display_name":"Deamidation","level":3,"score":0.7395590543746948},{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.6376334428787231},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.609914243221283},{"id":"https://openalex.org/C160403918","wikidata":"https://www.wikidata.org/wiki/Q4682322","display_name":"Adenylylation","level":4,"score":0.6027648448944092},{"id":"https://openalex.org/C2777313579","wikidata":"https://www.wikidata.org/wiki/Q898365","display_name":"Glycosylation","level":2,"score":0.5757836699485779},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5238038301467896},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.49066150188446045},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.46343666315078735},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.3936850130558014},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37417638301849365},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.29469066858291626},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.22753050923347473},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2161879539489746},{"id":"https://openalex.org/C553450214","wikidata":"https://www.wikidata.org/wiki/Q851162","display_name":"Biosynthesis","level":3,"score":0.12120917439460754},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004798","descriptor_name":"Enzymes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/bav039","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bav039","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bav039/7298728/bav039.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:25931459","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25931459","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,"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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:europepmc.org:3391929","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4414956","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,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/bav039","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bav039","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bav039/7298728/bav039.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2144378359.pdf","grobid_xml":"https://content.openalex.org/works/W2144378359.grobid-xml"},"referenced_works_count":61,"referenced_works":["https://openalex.org/W1550036480","https://openalex.org/W1966497951","https://openalex.org/W1973092951","https://openalex.org/W1975471201","https://openalex.org/W1979452786","https://openalex.org/W1980476482","https://openalex.org/W1981943245","https://openalex.org/W1982919615","https://openalex.org/W1986317061","https://openalex.org/W1992864393","https://openalex.org/W1994119229","https://openalex.org/W2002756887","https://openalex.org/W2005893121","https://openalex.org/W2008604118","https://openalex.org/W2011747741","https://openalex.org/W2013853442","https://openalex.org/W2014726549","https://openalex.org/W2016578240","https://openalex.org/W2018797206","https://openalex.org/W2025433308","https://openalex.org/W2028161249","https://openalex.org/W2028478629","https://openalex.org/W2030979689","https://openalex.org/W2032432541","https://openalex.org/W2033098156","https://openalex.org/W2039680734","https://openalex.org/W2040157136","https://openalex.org/W2050005762","https://openalex.org/W2056979628","https://openalex.org/W2057545775","https://openalex.org/W2059884320","https://openalex.org/W2065642253","https://openalex.org/W2069224830","https://openalex.org/W2090188358","https://openalex.org/W2093020256","https://openalex.org/W2097755834","https://openalex.org/W2101335101","https://openalex.org/W2107986672","https://openalex.org/W2128653811","https://openalex.org/W2130479394","https://openalex.org/W2131848047","https://openalex.org/W2137015675","https://openalex.org/W2138122982","https://openalex.org/W2138754486","https://openalex.org/W2140934903","https://openalex.org/W2142008033","https://openalex.org/W2142529984","https://openalex.org/W2142678031","https://openalex.org/W2142823843","https://openalex.org/W2145268834","https://openalex.org/W2147526198","https://openalex.org/W2161167549","https://openalex.org/W2162172965","https://openalex.org/W2162854463","https://openalex.org/W2164412127","https://openalex.org/W2165788326","https://openalex.org/W2168708922","https://openalex.org/W2171392588","https://openalex.org/W2605068739","https://openalex.org/W2916483810","https://openalex.org/W4212920271"],"related_works":["https://openalex.org/W2020683762","https://openalex.org/W4229019858","https://openalex.org/W3109391005","https://openalex.org/W2030640333","https://openalex.org/W2020392977","https://openalex.org/W1872127137","https://openalex.org/W3164573509","https://openalex.org/W3128881704","https://openalex.org/W2599768688","https://openalex.org/W2144378359"],"abstract_inverted_index":{"With":[0],"the":[1,58,65,95,114],"recent":[2],"discoveries":[3],"of":[4,19,31,73,94,100,116,145,162,191],"novel":[5,50,80],"post-translational":[6],"modifications":[7],"(PTMs)":[8],"which":[9,61],"play":[10],"important":[11],"roles":[12],"in":[13,78,122,189,196],"signaling":[14],"and":[15,51,70,87,97,137,177],"biosynthetic":[16],"pathways,":[17],"identification":[18,115],"such":[20],"PTM":[21,103,118,193],"catalyzing":[22,104,119,194],"enzymes":[23,47,76,195],"by":[24,142],"genome":[25],"mining":[26],"has":[27,167],"been":[28,154],"an":[29],"area":[30],"major":[32],"interest.":[33],"Unlike":[34],"well-known":[35],"PTMs":[36,174],"like":[37,175],"phosphorylation,":[38],"glycosylation,":[39],"SUMOylation,":[40],"no":[41],"bioinformatics":[42],"resources":[43],"are":[44],"available":[45,156],"for":[46,113,131,172],"associated":[48],"with":[49],"unusual":[52,192],"PTMs.":[53],"Therefore,":[54],"we":[55,106],"have":[56,107,126,153],"developed":[57],"novPTMenzy":[59,163,180],"database":[60,181],"catalogs":[62],"information":[63],"on":[64,90],"sequence,":[66],"structure,":[67],"active":[68,147],"site":[69,148],"genomic":[71,123],"neighborhood":[72],"experimentally":[74],"characterized":[75],"involved":[77],"five":[79],"PTMs,":[81],"namely":[82],"AMPylation,":[83],"Eliminylation,":[84],"Sulfation,":[85],"Hydroxylation":[86],"Deamidation.":[88],"Based":[89],"a":[91,168,183],"comprehensive":[92],"analysis":[93,144,170],"sequence":[96],"structural":[98],"features":[99],"these":[101],"known":[102],"enzymes,":[105],"created":[108,128],"Hidden":[109],"Markov":[110],"Model":[111],"profiles":[112],"similar":[117],"enzymatic":[120],"domains":[121],"sequences.":[124],"We":[125],"also":[127,166],"predictive":[129],"rules":[130],"grouping":[132],"them":[133],"into":[134],"functional":[135],"subfamilies":[136],"deciphering":[138],"their":[139,146],"mechanistic":[140],"details":[141],"structure-based":[143],"pockets.":[149],"These":[150],"analytical":[151],"modules":[152],"made":[155],"as":[157],"user":[158],"friendly":[159],"search":[160],"interfaces":[161],"database.":[164],"It":[165],"specialized":[169],"interface":[171],"some":[173],"AMPylation":[176],"Eliminylation.":[178],"The":[179],"is":[182],"unique":[184],"resource":[185],"that":[186],"can":[187],"aid":[188],"discovery":[190],"newly":[197],"sequenced":[198],"genomes.":[199],"Database":[200],"URL:":[201],"http://www.nii.ac.in/novptmenzy.html":[202]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
