{ "bcoid": "GLY_000749", "title": "Yeast Protein Citations (UniProtKB)", "description": "The Yeast Protein Citations dataset contains publication information for yeast [taxid:559292] UniProtKB ...", "filename": "yeast_protein_citations_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Protein Citations" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q03761-1...", "Identificati..." ], [ "Q03761-1...", "A subset of ..." ] ], "headers": [ "uniprotkb_ca...", "title..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "title" }, { "type": "string", "label": "journal_name" }, { "type": "string", "label": "publication_date" }, { "type": "string", "label": "authors" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" } ], [ "Q03761-1", "Identification of two novel TAF subunits of the yeast Saccharomyces cerevisiae TFIID complex.", "The Journal of biological chemistry", "2000-05-05", "Sanders S L, Weil P A", "protein_xref_pubmed", "10788514", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "A subset of TAF(II)s are integral components of the SAGA complex required for nucleosome acetylation and transcriptional stimulation.", "Cell", "1998-07-10", "Grant P A, Schieltz D, Pray-Grant M G, Steger D J, Reese J C, Yates J R, Workman J L", "protein_xref_pubmed", "9674426", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Proteomics of the eukaryotic transcription machinery: identification of proteins associated with components of yeast TFIID by multidimensional mass spectrometry.", "Molecular and cellular biology", "2002-07", "Sanders Steven L, Jennings Jennifer, Canutescu Adrian, Link Andrew J, Weil P Anthony", "protein_xref_pubmed", "12052880", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Human TAF(II)28 and TAF(II)18 interact through a histone fold encoded by atypical evolutionary conserved motifs also found in the SPT3 family.", "Cell", "1998 Jul 24", "Birck C, Poch O, Romier C, Ruff M, Mengus G, Lavigne AC, Davidson I, Moras D", "protein_xref_pubmed", "9695952", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "A histone fold TAF octamer within the yeast TFIID transcriptional coactivator.", "Nature structural biology", "2001-08", "Selleck W, Howley R, Fang Q, Podolny V, Fried M G, Buratowski S, Tan S", "protein_xref_pubmed", "11473260", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Multi-protein complexes in eukaryotic gene transcription.", "Plant molecular biology", "2002-12", "Martinez Ernest", "protein_xref_pubmed", "12516863", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "The histone fold is a key structural motif of transcription factor TFIID.", "Trends in biochemical sciences", "2001-04", "Gangloff Y G, Romier C, Thuault S, Werten S, Davidson I", "protein_xref_pubmed", "11295558", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Expanded lysine acetylation specificity of Gcn5 in native complexes.", "The Journal of biological chemistry", "1999-02-26", "Grant P A, Eberharter A, John S, Cook R G, Turner B M, Workman J L", "protein_xref_pubmed", "10026213", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Histone folds mediate selective heterodimerization of yeast TAF(II)25 with TFIID components yTAF(II)47 and yTAF(II)65 and with SAGA component ySPT7.", "Molecular and cellular biology", "2001-03", "Gangloff Y G, Sanders S L, Romier C, Kirschner D, Weil P A, Tora L, Davidson I", "protein_xref_pubmed", "11238921", "protein_xref_uniprotkb", "Q03761" ], [ "Q03761-1", "Molecular characterization of Saccharomyces cerevisiae TFIID.", "Molecular and cellular biology", "2002-08", "Sanders Steven L, Garbett Krassimira A, Weil P Anthony", "protein_xref_pubmed", "12138208", "protein_xref_uniprotkb", "Q03761" ], [ "Q06108-1", "Identification of positive regulators of the yeast fps1 glycerol channel.", "PLoS genetics", "2009-11", "Beese Sara E, Negishi Takahiro, Levin David E", "protein_xref_pubmed", "19956799", "protein_xref_uniprotkb", "Q06108" ], [ "Q06108-1", "The budding index of Saccharomyces cerevisiae deletion strains identifies genes important for cell cycle progression.", "FEMS microbiology letters", "2003-06-27", "Zettel Michael F, Garza Lindsay R, Cass Andrea M, Myhre Rachel A, Haizlip Lucy A, Osadebe Shirley N, Sudimack Daniel W, Pathak Ritu, Stone Thomas L, Polymenis Michael", "protein_xref_pubmed", "12829295", "protein_xref_uniprotkb", "Q06108" ], [ "Q06109-1", "Genome-wide deletion mutant analysis reveals genes required for respiratory growth, mitochondrial genome maintenance and mitochondrial protein synthesis in Saccharomyces cerevisiae.", "Genome biology", "2009", "Merz Sandra, Westermann Benedikt", "protein_xref_pubmed", "19751518", "protein_xref_uniprotkb", "Q06109" ], [ "Q03760-1", "Pml39, a novel protein of the nuclear periphery required for nuclear retention of improper messenger ribonucleoparticles.", "Molecular biology of the cell", "2005-11", "Palancade Beno\u00eet, Zuccolo Michela, Loeillet Sophie, Nicolas Alain, Doye Val\u00e9rie", "protein_xref_pubmed", "16162818", "protein_xref_uniprotkb", "Q03760" ], [ "Q06102-1", "Functional dissection of the zinc finger and flanking domains of the Yth1 cleavage/polyadenylation factor.", "Nucleic acids research", "2003-03-15", "Tacahashi Yoko, Helmling Steffen, Moore Claire L", "protein_xref_pubmed", "12626716", "protein_xref_uniprotkb", "Q06102" ], [ "Q05635-1", "Roles of SGS1, MUS81, and RAD51 in the repair of lagging-strand replication defects in Saccharomyces cerevisiae.", "Current genetics", "2005-10", "Ii Miki, Brill Steven J", "protein_xref_pubmed", "16193328", "protein_xref_uniprotkb", "Q05635" ], [ "Q06106-1", "Mrd1p is required for processing of pre-rRNA and for maintenance of steady-state levels of 40 S ribosomal subunits in yeast.", "The Journal of biological chemistry", "2002-05-24", "Jin Shao-Bo, Zhao Jian, Bjork Petra, Schmekel Karin, Ljungdahl Per O, Wieslander Lars", "protein_xref_pubmed", "11884397", "protein_xref_uniprotkb", "Q06106" ], [ "Q06104-1", "Sorting of a multi-subunit ubiquitin ligase complex in the endolysosome system.", "eLife", "2018-01-22", "Yang Xi, Arines Felichi Mae, Zhang Weichao, Li Ming", "protein_xref_pubmed", "29355480", "protein_xref_uniprotkb", "Q06104" ], [ "Q06104-1", "The budding index of Saccharomyces cerevisiae deletion strains identifies genes important for cell cycle progression.", "FEMS microbiology letters", "2003-06-27", "Zettel Michael F, Garza Lindsay R, Cass Andrea M, Myhre Rachel A, Haizlip Lucy A, Osadebe Shirley N, Sudimack Daniel W, Pathak Ritu, Stone Thomas L, Polymenis Michael", "protein_xref_pubmed", "12829295", "protein_xref_uniprotkb", "Q06104" ], [ "P32378-1", "COQ2 is a candidate for the structural gene encoding para-hydroxybenzoate:polyprenyltransferase.", "The Journal of biological chemistry", "1992-02-25", "Ashby M N, Kutsunai S Y, Ackerman S, Tzagoloff A, Edwards P A", "protein_xref_pubmed", "1740455", "protein_xref_uniprotkb", "P32378" ], [ "P40554-1", "Mechanistic characterization of the sulfur-relay system for eukaryotic 2-thiouridine biogenesis at tRNA wobble positions.", "Nucleic acids research", "2009-03", "Noma Akiko, Sakaguchi Yuriko, Suzuki Tsutomu", "protein_xref_pubmed", "19151091", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "A protein conjugation system in yeast with homology to biosynthetic enzyme reaction of prokaryotes.", "The Journal of biological chemistry", "2000-03-17", "Furukawa K, Mizushima N, Noda T, Ohsumi Y", "protein_xref_pubmed", "10713047", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "Attachment of the ubiquitin-related protein Urm1p to the antioxidant protein Ahp1p.", "Eukaryotic cell", "2003-10", "Goehring April S, Rivers David M, Sprague George F", "protein_xref_pubmed", "14555475", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA.", "Nature", "2009-03-12", "Leidel Sebastian, Pedrioli Patrick G A, Bucher Tamara, Brost Ren\u00e9e, Costanzo Michael, Schmidt Alexander, Aebersold Ruedi, Boone Charles, Hofmann Kay, Peter Matthias", "protein_xref_pubmed", "19145231", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "A functional proteomics approach links the ubiquitin-related modifier Urm1 to a tRNA modification pathway.", "Proceedings of the National Academy of Sciences of the United States of America", "2008 Nov 25", "Schlieker CD, Van der Veen AG, Damon JR, Spooner E, Ploegh HL", "protein_xref_pubmed", "19017811", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae.", "RNA (New York, N.Y.)", "2008-10", "Huang Bo, Lu Jian, Bystr\u00f6m Anders S", "protein_xref_pubmed", "18755837", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "Role of the ubiquitin-like protein Urm1 as a noncanonical lysine-directed protein modifier.", "Proceedings of the National Academy of Sciences of the United States of America", "2011 Feb 1", "Van der Veen AG, Schorpp K, Schlieker C, Buti L, Damon JR, Spooner E, Ploegh HL, Jentsch S", "protein_xref_pubmed", "21209336", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "Urmylation: a ubiquitin-like pathway that functions during invasive growth and budding in yeast.", "Molecular biology of the cell", "2003-11", "Goehring April S, Rivers David M, Sprague George F", "protein_xref_pubmed", "14551258", "protein_xref_uniprotkb", "P40554" ], [ "P40554-1", "Thio-modification of yeast cytosolic tRNA requires a ubiquitin-related system that resembles bacterial sulfur transfer systems.", "The Journal of biological chemistry", "2008-10-10", "Nakai Yumi, Nakai Masato, Hayashi Hideyuki", "protein_xref_pubmed", "18664566", "protein_xref_uniprotkb", "P40554" ], [ "P40555-1", "Multiple assembly chaperones govern biogenesis of the proteasome regulatory particle base.", "Cell", "2009-05-29", "Funakoshi Minoru, Tomko Robert J, Kobayashi Hideki, Hochstrasser Mark", "protein_xref_pubmed", "19446322", "protein_xref_uniprotkb", "P40555" ], [ "P39970-1", "Transcriptional activators in yeast.", "Nucleic acids research", "2006", "Titz Bj\u00f6rn, Thomas Sindhu, Rajagopala Seesandra V, Chiba Tomoko, Ito Takashi, Uetz Peter", "protein_xref_pubmed", "16464826", "protein_xref_uniprotkb", "P39970" ], [ "P39970-1", "Barrier proteins remodel and modify chromatin to restrict silenced domains.", "Molecular and cellular biology", "2004-03", "Oki Masaya, Valenzuela Lourdes, Chiba Tomoko, Ito Takashi, Kamakaka Rohinton T", "protein_xref_pubmed", "14966276", "protein_xref_uniprotkb", "P39970" ], [ "P39970-1", "Aca1 and Aca2, ATF/CREB activators in Saccharomyces cerevisiae, are important for carbon source utilization but not the response to stress.", "Molecular and cellular biology", "2000-06", "Garcia-Gimeno M A, Struhl K", "protein_xref_pubmed", "10825197", "protein_xref_uniprotkb", "P39970" ], [ "P39970-1", "ATF/CREB sites present in sub-telomeric regions of Saccharomyces cerevisiae chromosomes are part of promoters and act as UAS/URS of highly conserved COS genes.", "Journal of molecular biology", "2002-05-31", "Spode Igo, Maiwald Daniela, Hollenberg Cornelis P, Suckow Manfred", "protein_xref_pubmed", "12051917", "protein_xref_uniprotkb", "P39970" ], [ "P39976-1", "Saccharomyces cerevisiae Forms D-2-Hydroxyglutarate and Couples Its Degradation to D-Lactate Formation via a Cytosolic Transhydrogenase.", "The Journal of biological chemistry", "2016-03-18", "Becker-Kettern Julia, Paczia Nicole, Conrotte Jean-Fran\u00e7ois, Kay Daniel P, Guignard C\u00e9dric, Jung Paul P, Linster Carole L", "protein_xref_pubmed", "26774271", "protein_xref_uniprotkb", "P39976" ], [ "P48564-1", "Organization of Mitochondrial Gene Expression in Two Distinct Ribosome-Containing Assemblies.", "Cell reports", "2015-02-17", "Kehrein Kirsten, Schilling Ramon, M\u00f6ller-Hergt Braulio Vargas, Wurm Christian A, Jakobs Stefan, Lamkemeyer Tobias, Langer Thomas, Ott Martin", "protein_xref_pubmed", "25683707", "protein_xref_uniprotkb", "P48564" ], [ "P40552-1", "Reciprocal regulation of anaerobic and aerobic cell wall mannoprotein gene expression in Saccharomyces cerevisiae.", "Journal of bacteriology", "2001-05", "Abramova N, Sertil O, Mehta S, Lowry C V", "protein_xref_pubmed", "11292809", "protein_xref_uniprotkb", "P40552" ], [ "P10659-1", "SAM1, the structural gene for one of the S-adenosylmethionine synthetases in Saccharomyces cerevisiae. Sequence and expression.", "The Journal of biological chemistry", "1987-12-05", "Thomas D, Surdin-Kerjan Y", "protein_xref_pubmed", "3316224", "protein_xref_uniprotkb", "P10659" ], [ "Q03441-1", "Large-scale functional genomic analysis of sporulation and meiosis in Saccharomyces cerevisiae.", "Genetics", "2003-01", "Enyenihi Akon H, Saunders William S", "protein_xref_pubmed", "12586695", "protein_xref_uniprotkb", "Q03441" ], [ "P38132-1", "A double-hexameric MCM2-7 complex is loaded onto origin DNA during licensing of eukaryotic DNA replication.", "Proceedings of the National Academy of Sciences of the United States of America", "2009-12-01", "Evrin Cecile, Clarke Pippa, Zech Juergen, Lurz Rudi, Sun Jingchuan, Uhle Stefan, Li Huilin, Stillman Bruce, Speck Christian", "protein_xref_pubmed", "19910535", "protein_xref_uniprotkb", "P38132" ], [ "P38132-1", "Concerted loading of Mcm2-7 double hexamers around DNA during DNA replication origin licensing.", "Cell", "2009 Nov 13", "Remus D, Beuron F, Tolun G, Griffith JD, Morris EP, Diffley JF", "protein_xref_pubmed", "19896182", "protein_xref_uniprotkb", "P38132" ], [ "P39979-1", "Physiological role of D-amino acid-N-acetyltransferase of Saccharomyces cerevisiae: detoxification of D-amino acids.", "Archives of microbiology", "2006-03", "Yow Geok-Yong, Uo Takuma, Yoshimura Tohru, Esaki Nobuyoshi", "protein_xref_pubmed", "16362288", "protein_xref_uniprotkb", "P39979" ], [ "P39979-1", "Biochemical characterization of Hpa2 and Hpa3, two small closely related acetyltransferases from Saccharomyces cerevisiae.", "The Journal of biological chemistry", "2013-07-26", "Sampath Vinaya, Liu Bingsheng, Tafrov Stefan, Srinivasan Madhusudhan, Rieger Robert, Chen Emily I, Sternglanz Rolf", "protein_xref_pubmed", "23775086", "protein_xref_uniprotkb", "P39979" ], [ "P39979-1", "D-amino acid N-acetyltransferase of Saccharomyces cerevisiae: a close homologue of histone acetyltransferase Hpa2p acting exclusively on free D-amino acids.", "Archives of microbiology", "2004-11", "Yow Geok-Yong, Uo Takuma, Yoshimura Tohru, Esaki Nobuyoshi", "protein_xref_pubmed", "15375647", "protein_xref_uniprotkb", "P39979" ], [ "P39979-1", "Crystal structure of the histone acetyltransferase Hpa2: A tetrameric member of the Gcn5-related N-acetyltransferase superfamily.", "Journal of molecular biology", "1999-12-17", "Angus-Hill M L, Dutnall R N, Tafrov S T, Sternglanz R, Ramakrishnan V", "protein_xref_pubmed", "10600387", "protein_xref_uniprotkb", "P39979" ], [ "P40558-1", "A bridging [4Fe-4S] cluster and nucleotide binding are essential for function of the Cfd1-Nbp35 complex as a scaffold in iron-sulfur protein maturation.", "The Journal of biological chemistry", "2012-04-06", "Netz Daili J A, Pierik Antonio J, St\u00fcmpfig Martin, Bill Eckhard, Sharma Anil K, Pallesen Leif J, Walden William E, Lill Roland", "protein_xref_pubmed", "22362766", "protein_xref_uniprotkb", "P40558" ], [ "P40558-1", "A novel eukaryotic factor for cytosolic Fe-S cluster assembly.", "The EMBO journal", "2003 Sep 15", "Roy A, Solodovnikova N, Nicholson T, Antholine W, Walden WE", "protein_xref_pubmed", "12970194", "protein_xref_uniprotkb", "P40558" ], [ "P40558-1", "Functional link between ribosome formation and biogenesis of iron-sulfur proteins.", "The EMBO journal", "2005-02-09", "Yarunin Alexander, Panse Vikram Govind, Petfalski Elisabeth, Dez Christophe, Tollervey David, Hurt Eduard C", "protein_xref_pubmed", "15660135", "protein_xref_uniprotkb", "P40558" ], [ "P40558-1", "Mitochondria export iron-sulfur and sulfur intermediates to the cytoplasm for iron-sulfur cluster assembly and tRNA thiolation in yeast.", "The Journal of biological chemistry", "2019-06-14", "Pandey Ashutosh K, Pain Jayashree, Dancis Andrew, Pain Debkumar", "protein_xref_pubmed", "31040179", "protein_xref_uniprotkb", "P40558" ], [ "P40558-1", "The Cfd1-Nbp35 complex acts as a scaffold for iron-sulfur protein assembly in the yeast cytosol.", "Nature chemical biology", "2007-05", "Netz Daili J A, Pierik Antonio J, St\u00fcmpfig Martin, M\u00fchlenhoff Ulrich, Lill Roland", "protein_xref_pubmed", "17401378", "protein_xref_uniprotkb", "P40558" ], [ "P40559-1", "Negative regulation of phosphatidylinositol 4,5-bisphosphate levels by the INP51-associated proteins TAX4 and IRS4.", "The Journal of biological chemistry", "2004-09-17", "Morales-Johansson Helena, Jenoe Paul, Cooke Frank T, Hall Michael N", "protein_xref_pubmed", "15265867", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "Mammalian inositol polyphosphate 5-phosphatase II can compensate for the absence of all three yeast Sac1-like-domain-containing 5-phosphatases.", "The Biochemical journal", "2001 May 1", "O'Malley CJ, McColl BK, Kong AM, Ellis SL, Wijayaratnam AP, Sambrook J, Mitchell CA", "protein_xref_pubmed", "11311145", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "Synaptojanin family members are implicated in endocytic membrane traffic in yeast.", "Journal of cell science", "1998-11", "Singer-Kr\u00fcger B, Nemoto Y, Daniell L, Ferro-Novick S, De Camilli P", "protein_xref_pubmed", "9788876", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "Identification and characterization of an essential family of inositol polyphosphate 5-phosphatases (INP51, INP52 and INP53 gene products) in the yeast Saccharomyces cerevisiae.", "Genetics", "1998-04", "Stolz L E, Huynh C V, Thorner J, York J D", "protein_xref_pubmed", "9560389", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "PtdIns(4,5)P2 turnover is required for multiple stages during clathrin- and actin-dependent endocytic internalization.", "The Journal of cell biology", "2007-04-23", "Sun Yidi, Carroll Susheela, Kaksonen Marko, Toshima Junko Y, Drubin David G", "protein_xref_pubmed", "17452534", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "The pleckstrin homology domain proteins Slm1 and Slm2 are required for actin cytoskeleton organization in yeast and bind phosphatidylinositol-4,5-bisphosphate and TORC2.", "Molecular biology of the cell", "2005-04", "Fadri Maria, Daquinag Alexes, Wang Shimei, Xue Tao, Kunz Jeannette", "protein_xref_pubmed", "15689497", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "Interaction of Pik1p and Sjl proteins in membrane trafficking.", "FEMS yeast research", "2005-02", "Nguyen Peter H, Hasek Jiri, Kohlwein Sepp D, Romero Carlos, Choi Jae H, Vancura Ales", "protein_xref_pubmed", "15691741", "protein_xref_uniprotkb", "P40559" ], [ "P40559-1", "Novel genes involved in endosomal traffic in yeast revealed by suppression of a targeting-defective plasma membrane ATPase mutant.", "The Journal of cell biology", "1997-08-25", "Luo W j, Chang A", "protein_xref_pubmed", "9265642", "protein_xref_uniprotkb", "P40559" ], [ "Q03195-1", "Functional link between ribosome formation and biogenesis of iron-sulfur proteins.", "The EMBO journal", "2005-02-09", "Yarunin Alexander, Panse Vikram Govind, Petfalski Elisabeth, Dez Christophe, Tollervey David, Hurt Eduard C", "protein_xref_pubmed", "15660135", "protein_xref_uniprotkb", "Q03195" ], [ "Q03195-1", "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "The Journal of biological chemistry", "2004-10-01", "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "protein_xref_pubmed", "15277527", "protein_xref_uniprotkb", "Q03195" ], [ "Q03195-1", "Biogenesis of cytosolic ribosomes requires the essential iron-sulphur protein Rli1p and mitochondria.", "The EMBO journal", "2005-02-09", "Kispal Gyula, Sipos Katalin, Lange Heike, Fekete Zsuzsanna, Bedekovics Tibor, Jan\u00e1ky Tam\u00e1s, Bassler Jochen, Aguilar Netz Daili J, Balk Janneke, Rotte Carmen, Lill Roland", "protein_xref_pubmed", "15660134", "protein_xref_uniprotkb", "Q03195" ], [ "P38199-1", "Local activation of yeast ASH1 mRNA translation through phosphorylation of Khd1p by the casein kinase Yck1p.", "Molecular cell", "2007-06-22", "Paquin Nicolas, M\u00e9nade Marie, Poirier Guillaume, Donato Damiane, Drouet Emmanuel, Chartrand Pascal", "protein_xref_pubmed", "17588515", "protein_xref_uniprotkb", "P38199" ], [ "P38199-1", "Yeast hnRNP K-like genes are involved in regulation of the telomeric position effect and telomere length.", "Molecular and cellular biology", "2002-01", "Denisenko Oleg, Bomsztyk Karol", "protein_xref_pubmed", "11739741", "protein_xref_uniprotkb", "P38199" ], [ "P38199-1", "The Khd1 protein, which has three KH RNA-binding motifs, is required for proper localization of ASH1 mRNA in yeast.", "The EMBO journal", "2002-03-01", "Irie Kenji, Tadauchi Tomofumi, Takizawa Peter A, Vale Ronald D, Matsumoto Kunihiro, Herskowitz Ira", "protein_xref_pubmed", "11867544", "protein_xref_uniprotkb", "P38199" ], [ "P38199-1", "Stability control of MTL1 mRNA by the RNA-binding protein Khd1p in yeast.", "Cell structure and function", "2010", "Mauchi Naoko, Ohtake Yoshiaki, Irie Kenji", "protein_xref_pubmed", "20953064", "protein_xref_uniprotkb", "P38199" ], [ "P38199-1", "Epistatic interaction between the K-homology domain protein HEK2 and SIR1 at HMR and telomeres in yeast.", "Journal of molecular biology", "2008-01-25", "Denisenko Oleg, Bomsztyk Karol", "protein_xref_pubmed", "18067921", "protein_xref_uniprotkb", "P38199" ], [ "P38199-1", "Distinct roles for Khd1p in the localization and expression of bud-localized mRNAs in yeast.", "RNA (New York, N.Y.)", "2008-11", "Hasegawa Yuko, Irie Kenji, Gerber Andr\u00e9 P", "protein_xref_pubmed", "18805955", "protein_xref_uniprotkb", "P38199" ], [ "P38198-1", "Stu1p is physically associated with beta-tubulin and is required for structural integrity of the mitotic spindle.", "Molecular biology of the cell", "2002-06", "Yin Hongwei, You Liru, Pasqualone Danielle, Kopski Kristen M, Huffaker Tim C", "protein_xref_pubmed", "12058056", "protein_xref_uniprotkb", "P38198" ], [ "P38198-1", "STU1, a suppressor of a beta-tubulin mutation, encodes a novel and essential component of the yeast mitotic spindle.", "The Journal of cell biology", "1994-12", "Pasqualone D, Huffaker T C", "protein_xref_pubmed", "7806575", "protein_xref_uniprotkb", "P38198" ], [ "P53285-1", "Genomic screen for vacuolar protein sorting genes in Saccharomyces cerevisiae.", "Molecular biology of the cell", "2002-07", "Bonangelino Cecilia J, Chavez Edna M, Bonifacino Juan S", "protein_xref_pubmed", "12134085", "protein_xref_uniprotkb", "P53285" ], [ "Q07560-1", "Cardiolipin synthase from yeast.", "Biochimica et biophysica acta", "1997-09-04", "Schlame M, Greenberg M L", "protein_xref_pubmed", "9370334", "protein_xref_uniprotkb", "Q07560" ], [ "P25374-1", "SPL1-1, a Saccharomyces cerevisiae mutation affecting tRNA splicing.", "Journal of bacteriology", "1993-03", "Kolman C, S\u00f6ll D", "protein_xref_pubmed", "8444805", "protein_xref_uniprotkb", "P25374" ], [ "P25374-1", "The mitochondrial proteins Atm1p and Nfs1p are essential for biogenesis of cytosolic Fe/S proteins.", "The EMBO journal", "1999-07-15", "Kispal G, Csere P, Prohl C, Lill R", "protein_xref_pubmed", "10406803", "protein_xref_uniprotkb", "P25374" ], [ "P25374-1", "Functional characterization of the eukaryotic cysteine desulfurase Nfs1p from Saccharomyces cerevisiae.", "The Journal of biological chemistry", "2004-08-27", "M\u00fchlenhoff Ulrich, Balk Janneke, Richhardt Nadine, Kaiser Jens T, Sipos Katalin, Kispal Gyula, Lill Roland", "protein_xref_pubmed", "15220327", "protein_xref_uniprotkb", "P25374" ], [ "P25374-1", "Yeast Nfs1p is involved in thio-modification of both mitochondrial and cytoplasmic tRNAs.", "The Journal of biological chemistry", "2004-03-26", "Nakai Yumi, Umeda Noriko, Suzuki Tsutomu, Nakai Masato, Hayashi Hideyuki, Watanabe Kimitsuna, Kagamiyama Hiroyuki", "protein_xref_pubmed", "14722066", "protein_xref_uniprotkb", "P25374" ], [ "P25374-1", "Yeast mitochondrial protein, Nfs1p, coordinately regulates iron-sulfur cluster proteins, cellular iron uptake, and iron distribution.", "The Journal of biological chemistry", "1999-11-12", "Li J, Kogan M, Knight S A, Pain D, Dancis A", "protein_xref_pubmed", "10551871", "protein_xref_uniprotkb", "P25374" ], [ "P25374-1", "Mitochondria export iron-sulfur and sulfur intermediates to the cytoplasm for iron-sulfur cluster assembly and tRNA thiolation in yeast.", "The Journal of biological chemistry", "2019-06-14", "Pandey Ashutosh K, Pain Jayashree, Dancis Andrew, Pain Debkumar", "protein_xref_pubmed", "31040179", "protein_xref_uniprotkb", "P25374" ], [ "P25377-1", "Characterization of a Saccharomyces cerevisiae NADP(H)-dependent alcohol dehydrogenase (ADHVII), a member of the cinnamyl alcohol dehydrogenase family.", "European journal of biochemistry", "2002-11", "Larroy Carol, Par\u00e9s Xavier, Biosca Josep A", "protein_xref_pubmed", "12423374", "protein_xref_uniprotkb", "P25377" ], [ "P25376-1", "Cysteine uptake by Saccharomyces cerevisiae is accomplished by multiple permeases.", "Current genetics", "1999-07", "D\u00fcring-Olsen L, Regenberg B, Gjermansen C, Kielland-Brandt M C, Hansen J", "protein_xref_pubmed", "10467005", "protein_xref_uniprotkb", "P25376" ], [ "P25376-1", "Substrate specificity and gene expression of the amino-acid permeases in Saccharomyces cerevisiae.", "Current genetics", "1999-12", "Regenberg B, D\u00fcring-Olsen L, Kielland-Brandt M C, Holmberg S", "protein_xref_pubmed", "10654085", "protein_xref_uniprotkb", "P25376" ], [ "P25373-1", "The yeast glutaredoxins are active as glutathione peroxidases.", "The Journal of biological chemistry", "2002-05-10", "Collinson Emma J, Wheeler Glen L, Garrido Ester Oc\u00f3n, Avery Angela M, Avery Simon V, Grant Chris M", "protein_xref_pubmed", "11875065", "protein_xref_uniprotkb", "P25373" ], [ "P25373-1", "Role of yeast glutaredoxins as glutathione S-transferases.", "The Journal of biological chemistry", "2003-06-20", "Collinson Emma J, Grant Chris M", "protein_xref_pubmed", "12684511", "protein_xref_uniprotkb", "P25373" ], [ "P25373-1", "The yeast Saccharomyces cerevisiae contains two glutaredoxin genes that are required for protection against reactive oxygen species.", "Molecular biology of the cell", "1998-05", "Luikenhuis S, Perrone G, Dawes I W, Grant C M", "protein_xref_pubmed", "9571241", "protein_xref_uniprotkb", "P25373" ], [ "P25373-1", "Structural aspects of the distinct biochemical properties of glutaredoxin 1 and glutaredoxin 2 from Saccharomyces cerevisiae.", "Journal of molecular biology", "2009-01-23", "Discola Karen Fulan, de Oliveira Marcos Antonio, Rosa Cussiol Jos\u00e9 Renato, Monteiro Gisele, B\u00e1rcena Jos\u00e9 Antonio, Porras Pablo, Padilla C Alicia, Guimar\u00e3es Beatriz Gomes, Netto Luis Eduardo Soares", "protein_xref_pubmed", "18992757", "protein_xref_uniprotkb", "P25373" ] ] }, "readme": "Name\n - Yeast Protein Citations (UniProtKB)\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2022-08-30T14:17:09.307325\n\nModified on\n - 2023-09-11T18:58:26\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Yeast Protein Citations dataset contains publication information for yeast [taxid:559292] UniProtKB accessions that includes PMID, journal name, date and author and title. Publications of large scale studies, and high frequency publications pertaining to genome sequencing, cDNA, chromosomes have been filtered out as per https://data.glygen.org/ln2data/releases/data/v-1.12.3/compiled/yeast_protein_blacklisted_pmids_uniprotkb.csv. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - publications\n - PMID\n - journal\n - citations\n - authors\n - UniProtKB\n - PubMed\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB publication data from the triplestore containing triples from nt file to retrieve the publication information associated with the UniProtKB accession and maps it to the UniProtKB canonical accessions. The script also filters out publications of large scale studies, and high frequency publications pertaining to DNA sequencing, cDNA, chromosomes using blacklisted PMIDs file.\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: yeast_protein_function_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_function_uniprotkb.csv\n Name: yeast_protein_ptm_annotation_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_ptm_annotation_uniprotkb.csv\n Name: yeast_protein_site_annotation_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_site_annotation_uniprotkb.csv\n Name: uniprot-proteome-saccharomyces-cerevisiae.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_19/uniprot-proteome-saccharomyces-cerevisiae.nt\n Output Subdomain\n Name: yeast_protein_citations_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_citations_uniprotkb.csv\n Name: yeast_protein_citations_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_citations_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"4063\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"12921\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"515\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"3483\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"12575\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"12923\"\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"4063\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/yeast_protein_citations_uniprotkb.csv" }