{ "bcoid": "GLY_000418", "title": "SARS-CoV1 Protein Citations (UniProtKB)", "description": "The SARS coronavirus (SARS-CoV-1) Protein Citations dataset contains publication information for sarscov1 ...", "filename": "sarscov1_protein_citations_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Severe acute respiratory syndrome-related coronavirus" ], "molecule": [ "Protein" ], "tag": [ "Protein Citations" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P0C6U8-1...", "RNA 3'-end m..." ], [ "P0C6U8-1...", "Severe acute..." ] ], "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" } ], [ "P0C6U8-1", "RNA 3'-end mismatch excision by the severe acute respiratory syndrome coronavirus nonstructural protein nsp10/nsp14 exoribonuclease complex.", "Proceedings of the National Academy of Sciences of the United States of America", "2012-06-12", "Bouvet Micka\u00ebl, Imbert Isabelle, Subissi Lorenzo, Gluais Laure, Canard Bruno, Decroly Etienne", "protein_xref_pubmed", "22635272", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Severe acute respiratory syndrome coronavirus nonstructural protein 2 interacts with a host protein complex involved in mitochondrial biogenesis and intracellular signaling.", "Journal of virology", "2009-10", "Cornillez-Ty Cromwell T, Liao Lujian, Yates John R, Kuhn Peter, Buchmeier Michael J", "protein_xref_pubmed", "19640993", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Severe acute respiratory syndrome coronavirus protein nsp1 is a novel eukaryotic translation inhibitor that represses multiple steps of translation initiation.", "Journal of virology", "2012 Dec", "Lokugamage KG, Narayanan K, Huang C, Makino S", "protein_xref_pubmed", "23035226", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "SARS coronavirus protein nsp1 disrupts localization of Nup93 from the nuclear pore complex.", "Biochemistry and cell biology = Biochimie et biologie cellulaire", "2019 Dec", "Gomez GN, Abrar F, Dodhia MP, Gonzalez FG, Nag A", "protein_xref_pubmed", "30943371", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "The SARS-coronavirus nsp7+nsp8 complex is a unique multimeric RNA polymerase capable of both de novo initiation and primer extension.", "Nucleic acids research", "2012-02", "te Velthuis Aartjan J W, van den Worm Sjoerd H E, Snijder Eric J", "protein_xref_pubmed", "22039154", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Severe acute respiratory syndrome coronavirus nsp9 dimerization is essential for efficient viral growth.", "Journal of virology", "2009 Apr", "Miknis ZJ, Donaldson EF, Umland TC, Rimmer RA, Baric RS, Schultz LW", "protein_xref_pubmed", "19153232", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Binding interaction of SARS coronavirus 3CL(pro) protease with vacuolar-H+ ATPase G1 subunit.", "FEBS letters", "2005-11-07", "Lin Cheng-Wen, Tsai Fuu-Jen, Wan Lei, Lai Chien-Chen, Lin Kuan-Hsun, Hsieh Tsung-Han, Shiu Shi-Yi, Li Jeng-Yi", "protein_xref_pubmed", "16226257", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Untangling membrane rearrangement in the nidovirales.", "DNA and cell biology", "2014-03", "Angelini Megan Mary, Neuman Benjamin William, Buchmeier Michael J", "protein_xref_pubmed", "24410069", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Severe acute respiratory syndrome coronavirus nonstructural proteins 3, 4, and 6 induce double-membrane vesicles.", "mBio", "2013-08-13", "Angelini Megan M, Akhlaghpour Marzieh, Neuman Benjamin W, Buchmeier Michael J", "protein_xref_pubmed", "23943763", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Selectivity in ISG15 and ubiquitin recognition by the SARS coronavirus papain-like protease.", "Archives of biochemistry and biophysics", "2007-10-01", "Lindner Holger A, Lytvyn Viktoria, Qi Hongtao, Lachance Paule, Ziomek Edmund, M\u00e9nard Robert", "protein_xref_pubmed", "17692280", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "SARS coronavirus papain-like protease inhibits the type I interferon signaling pathway through interaction with the STING-TRAF3-TBK1 complex.", "Protein & cell", "2014 May", "Chen X, Yang X, Zheng Y, Yang Y, Xing Y, Chen Z", "protein_xref_pubmed", "24622840", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Severe acute respiratory syndrome coronavirus papain-like protease ubiquitin-like domain and catalytic domain regulate antagonism of IRF3 and NF-kappaB signaling.", "Journal of virology", "2009-07", "Frieman Matthew, Ratia Kiira, Johnston Robert E, Mesecar Andrew D, Baric Ralph S", "protein_xref_pubmed", "19369340", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1''-phosphate dephosphorylation by a conserved domain of nsP3.", "Structure (London, England : 1993)", "2005-11", "Saikatendu Kumar Singh, Joseph Jeremiah S, Subramanian Vanitha, Clayton Tom, Griffith Mark, Moy Kin, Velasquez Jeffrey, Neuman Benjamin W, Buchmeier Michael J, Stevens Raymond C, Kuhn Peter", "protein_xref_pubmed", "16271890", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Coronavirus NSP6 restricts autophagosome expansion.", "Autophagy", "2014-08", "Cottam Eleanor M, Whelband Matthew C, Wileman Thomas", "protein_xref_pubmed", "24991833", "protein_xref_uniprotkb", "P0C6U8" ], [ "P59594-1", "A 193-amino acid fragment of the SARS coronavirus S protein efficiently binds angiotensin-converting enzyme 2.", "The Journal of biological chemistry", "2004 Jan 30", "Wong SK, Li W, Moore MJ, Choe H, Farzan M", "protein_xref_pubmed", "14670965", "protein_xref_uniprotkb", "P59594" ], [ "P59594-1", "CD209L (L-SIGN) is a receptor for severe acute respiratory syndrome coronavirus.", "Proceedings of the National Academy of Sciences of the United States of America", "2004-11-02", "Jeffers Scott A, Tusell Sonia M, Gillim-Ross Laura, Hemmila Erin M, Achenbach Jenna E, Babcock Gregory J, Thomas William D, Thackray Larissa B, Young Mark D, Mason Robert J, Ambrosino Donna M, Wentworth David E, Demartini James C, Holmes Kathryn V", "protein_xref_pubmed", "15496474", "protein_xref_uniprotkb", "P59594" ], [ "P59594-1", "Severe acute respiratory syndrome coronavirus spike protein counteracts BST2-mediated restriction of virus-like particle release.", "Journal of medical virology", "2019 Oct", "Wang SM, Huang KJ, Wang CT", "protein_xref_pubmed", "31199522", "protein_xref_uniprotkb", "P59594" ], [ "P59594-1", "Activation of the SARS coronavirus spike protein via sequential proteolytic cleavage at two distinct sites.", "Proceedings of the National Academy of Sciences of the United States of America", "2009 Apr 7", "Belouzard S, Chu VC, Whittaker GR", "protein_xref_pubmed", "19321428", "protein_xref_uniprotkb", "P59594" ], [ "P59595-1", "Severe acute respiratory syndrome-associated coronavirus nucleocapsid protein interacts with Smad3 and modulates transforming growth factor-beta signaling.", "The Journal of biological chemistry", "2008 Feb 8", "Zhao X, Nicholls JM, Chen YG", "protein_xref_pubmed", "18055455", "protein_xref_uniprotkb", "P59595" ], [ "P59595-1", "The intracellular sites of early replication and budding of SARS-coronavirus.", "Virology", "2007-05-10", "Stertz Silke, Reichelt Mike, Spiegel Martin, Kuri Thomas, Mart\u00ednez-Sobrido Luis, Garc\u00eda-Sastre Adolfo, Weber Friedemann, Kochs Georg", "protein_xref_pubmed", "17210170", "protein_xref_uniprotkb", "P59595" ], [ "P59635-1", "Severe Acute Respiratory Syndrome Coronavirus ORF7a Inhibits Bone Marrow Stromal Antigen 2 Virion Tethering through a Novel Mechanism of Glycosylation Interference.", "Journal of virology", "2015 Dec", "Taylor JK, Coleman CM, Postel S, Sisk JM, Bernbaum JG, Venkataraman T, Sundberg EJ, Frieman MB", "protein_xref_pubmed", "26378163", "protein_xref_uniprotkb", "P59635" ], [ "P59635-1", "SARS-CoV accessory protein 7a directly interacts with human LFA-1.", "Biological chemistry", "2007-12", "H\u00e4nel Karen, Willbold Dieter", "protein_xref_pubmed", "18020948", "protein_xref_uniprotkb", "P59635" ], [ "P59635-1", "The 7a accessory protein of severe acute respiratory syndrome coronavirus acts as an RNA silencing suppressor.", "Journal of virology", "2010-10", "Karjee Sumona, Minhas Ankita, Sood Vikas, Ponia Sanket S, Banerjea Akhil C, Chow Vincent T K, Mukherjee Sunil K, Lal Sunil K", "protein_xref_pubmed", "20631126", "protein_xref_uniprotkb", "P59635" ], [ "P59635-1", "Overexpression of 7a, a protein specifically encoded by the severe acute respiratory syndrome coronavirus, induces apoptosis via a caspase-dependent pathway.", "Journal of virology", "2004-12", "Tan Yee-Joo, Fielding Burtram C, Goh Phuay-Yee, Shen Shuo, Tan Timothy H P, Lim Seng Gee, Hong Wanjin", "protein_xref_pubmed", "15564512", "protein_xref_uniprotkb", "P59635" ], [ "P59633-1", "Mitochondrial location of severe acute respiratory syndrome coronavirus 3b protein.", "Molecules and cells", "2006-04-30", "Yuan Xiaoling, Shan Yajun, Yao Zhenyu, Li Jianyong, Zhao Zhenhu, Chen Jiapei, Cong Yuwen", "protein_xref_pubmed", "16682811", "protein_xref_uniprotkb", "P59633" ], [ "P59633-1", "G0/G1 arrest and apoptosis induced by SARS-CoV 3b protein in transfected cells.", "Virology journal", "2005-08-17", "Yuan Xiaoling, Shan Yajun, Zhao Zhenhu, Chen Jiapei, Cong Yuwen", "protein_xref_pubmed", "16107218", "protein_xref_uniprotkb", "P59633" ], [ "P59632-1", "The SARS Coronavirus 3a protein causes endoplasmic reticulum stress and induces ligand-independent downregulation of the type 1 interferon receptor.", "PloS one", "2009-12-17", "Minakshi Rinki, Padhan Kartika, Rani Manjusha, Khan Nabab, Ahmad Faizan, Jameel Shahid", "protein_xref_pubmed", "20020050", "protein_xref_uniprotkb", "P59632" ], [ "P59632-1", "The 3a protein of severe acute respiratory syndrome-associated coronavirus induces apoptosis in Vero E6 cells.", "The Journal of general virology", "2005-07", "Law Patrick T W, Wong Chi-Hang, Au Thomas C C, Chuck Chi-Pang, Kong Siu-Kai, Chan Paul K S, To Ka-Fai, Lo Anthony W I, Chan Judy Y W, Suen Yick-Keung, Chan H Y Edwin, Fung Kwok-Pui, Waye Mary M Y, Sung Joseph J Y, Lo Y M Dennis, Tsui Stephen K W", "protein_xref_pubmed", "15958670", "protein_xref_uniprotkb", "P59632" ], [ "P59632-1", "The severe acute respiratory syndrome coronavirus 3a protein up-regulates expression of fibrinogen in lung epithelial cells.", "Journal of virology", "2005-08", "Tan Yee-Joo, Tham Puay-Yoke, Chan Daphne Z L, Chou Chih-Fong, Shen Shuo, Fielding Burtram C, Tan Timothy H P, Lim Seng Gee, Hong Wanjin", "protein_xref_pubmed", "16014971", "protein_xref_uniprotkb", "P59632" ], [ "P59632-1", "Severe acute respiratory syndrome-associated coronavirus 3a protein forms an ion channel and modulates virus release.", "Proceedings of the National Academy of Sciences of the United States of America", "2006 Aug 15", "Lu W, Zheng BJ, Xu K, Schwarz W, Du L, Wong CK, Chen J, Duan S, Deubel V, Sun B", "protein_xref_pubmed", "16894145", "protein_xref_uniprotkb", "P59632" ], [ "P59637-1", "Severe acute respiratory syndrome coronavirus envelope protein ion channel activity promotes virus fitness and pathogenesis.", "PLoS pathogens", "2014-05", "Nieto-Torres Jose L, DeDiego Marta L, Verdi\u00e1-B\u00e1guena Carmina, Jimenez-Guarde\u00f1o Jose M, Regla-Nava Jose A, Fernandez-Delgado Raul, Casta\u00f1o-Rodriguez Carlos, Alcaraz Antonio, Torres Jaume, Aguilella Vicente M, Enjuanes Luis", "protein_xref_pubmed", "24788150", "protein_xref_uniprotkb", "P59637" ], [ "P59637-1", "Severe acute respiratory syndrome coronavirus E protein transports calcium ions and activates the NLRP3 inflammasome.", "Virology", "2015-11", "Nieto-Torres Jose L, Verdi\u00e1-B\u00e1guena Carmina, Jimenez-Guarde\u00f1o Jose M, Regla-Nava Jose A, Casta\u00f1o-Rodriguez Carlos, Fernandez-Delgado Raul, Torres Jaume, Aguilella Vicente M, Enjuanes Luis", "protein_xref_pubmed", "26331680", "protein_xref_uniprotkb", "P59637" ], [ "P59636-1", "SARS-coronavirus open reading frame-9b suppresses innate immunity by targeting mitochondria and the MAVS/TRAF3/TRAF6 signalosome.", "Journal of immunology (Baltimore, Md. : 1950)", "2014 Sep 15", "Shi CS, Qi HY, Boularan C, Huang NN, Abu-Asab M, Shelhamer JH, Kehrl JH", "protein_xref_pubmed", "25135833", "protein_xref_uniprotkb", "P59636" ], [ "P0C6X7-1", "Structural and functional analyses of the severe acute respiratory syndrome coronavirus endoribonuclease Nsp15.", "The Journal of biological chemistry", "2008 Feb 8", "Bhardwaj K, Palaninathan S, Alcantara JMO, Li Yi L, Guarino L, Sacchettini JC, Kao CC", "protein_xref_pubmed", "18045871", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "RNA recognition and cleavage by the SARS coronavirus endoribonuclease.", "Journal of molecular biology", "2006 Aug 11", "Bhardwaj K, Sun J, Holzenburg A, Guarino LA, Kao CC", "protein_xref_pubmed", "16828802", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Early endonuclease-mediated evasion of RNA sensing ensures efficient coronavirus replication.", "PLoS pathogens", "2017-02", "Kindler Eveline, Gil-Cruz Cristina, Spanier Julia, Li Yize, Wilhelm Jochen, Rabouw Huib H, Z\u00fcst Roland, Hwang Mihyun, V'kovski Philip, Stalder Hanspeter, Marti Sabrina, Habjan Matthias, Cervantes-Barragan Luisa, Elliot Ruth, Karl Nadja, Gaughan Christina, van Kuppeveld Frank J M, Silverman Robert H, Keller Markus, Ludewig Burkhard, Bergmann Cornelia C, Ziebuhr John, Weiss Susan R, Kalinke Ulrich, Thiel Volker", "protein_xref_pubmed", "28158275", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Untangling membrane rearrangement in the nidovirales.", "DNA and cell biology", "2014-03", "Angelini Megan Mary, Neuman Benjamin William, Buchmeier Michael J", "protein_xref_pubmed", "24410069", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Severe acute respiratory syndrome coronavirus nonstructural proteins 3, 4, and 6 induce double-membrane vesicles.", "mBio", "2013-08-13", "Angelini Megan M, Akhlaghpour Marzieh, Neuman Benjamin W, Buchmeier Michael J", "protein_xref_pubmed", "23943763", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "The severe acute respiratory syndrome (SARS) coronavirus NTPase/helicase belongs to a distinct class of 5' to 3' viral helicases.", "The Journal of biological chemistry", "2003-10-10", "Tanner Julian A, Watt Rory M, Chai Yu-Bo, Lu Lin-Yu, Lin Marie C, Peiris J S Malik, Poon Leo L M, Kung Hsiang-Fu, Huang Jian-Dong", "protein_xref_pubmed", "12917423", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Mechanism of nucleic acid unwinding by SARS-CoV helicase.", "PloS one", "2012", "Adedeji Adeyemi O, Marchand Bruno, Te Velthuis Aartjan J W, Snijder Eric J, Weiss Susan, Eoff Robert L, Singh Kamalendra, Sarafianos Stefan G", "protein_xref_pubmed", "22615777", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Severe acute respiratory syndrome coronavirus nonstructural protein 2 interacts with a host protein complex involved in mitochondrial biogenesis and intracellular signaling.", "Journal of virology", "2009-10", "Cornillez-Ty Cromwell T, Liao Lujian, Yates John R, Kuhn Peter, Buchmeier Michael J", "protein_xref_pubmed", "19640993", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "RNA 3'-end mismatch excision by the severe acute respiratory syndrome coronavirus nonstructural protein nsp10/nsp14 exoribonuclease complex.", "Proceedings of the National Academy of Sciences of the United States of America", "2012-06-12", "Bouvet Micka\u00ebl, Imbert Isabelle, Subissi Lorenzo, Gluais Laure, Canard Bruno, Decroly Etienne", "protein_xref_pubmed", "22635272", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Biochemical and structural insights into the mechanisms of SARS coronavirus RNA ribose 2'-O-methylation by nsp16/nsp10 protein complex.", "PLoS pathogens", "2011 Oct", "Chen Y, Su C, Ke M, Jin X, Xu L, Zhang Z, Wu A, Sun Y, Yang Z, Tien P, Ahola T, Liang Y, Liu X, Guo D", "protein_xref_pubmed", "22022266", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Severe acute respiratory syndrome coronavirus protein nsp1 is a novel eukaryotic translation inhibitor that represses multiple steps of translation initiation.", "Journal of virology", "2012 Dec", "Lokugamage KG, Narayanan K, Huang C, Makino S", "protein_xref_pubmed", "23035226", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "SARS coronavirus protein nsp1 disrupts localization of Nup93 from the nuclear pore complex.", "Biochemistry and cell biology = Biochimie et biologie cellulaire", "2019 Dec", "Gomez GN, Abrar F, Dodhia MP, Gonzalez FG, Nag A", "protein_xref_pubmed", "30943371", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "In vitro reconstitution of SARS-coronavirus mRNA cap methylation.", "PLoS pathogens", "2010-04-22", "Bouvet Micka\u00ebl, Debarnot Claire, Imbert Isabelle, Selisko Barbara, Snijder Eric J, Canard Bruno, Decroly Etienne", "protein_xref_pubmed", "20421945", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Coronavirus nonstructural protein 16 is a cap-0 binding enzyme possessing (nucleoside-2'O)-methyltransferase activity.", "Journal of virology", "2008-08", "Decroly Etienne, Imbert Isabelle, Coutard Bruno, Bouvet Micka\u00ebl, Selisko Barbara, Alvarez Karine, Gorbalenya Alexander E, Snijder Eric J, Canard Bruno", "protein_xref_pubmed", "18417574", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Human NLRP1 is a sensor of pathogenic coronavirus 3CL proteases in lung epithelial cells.", "Molecular cell", "2022 Jul 7", "Planes R, Pinilla M, Santoni K, Hessel A, Passemar C, Lay K, Paillette P, Valadao AC, Robinson KS, Bastard P, Lam N, Fadrique R, Rossi I, Pericat D, Bagayoko S, Leon-Icaza SA, Rombouts Y, Perouzel E, Tiraby M, Zhang Q, Cicuta P, Jouanguy E, Neyrolles O, Bryant CE, Floto AR, Goujon C, Lei FZ, Martin-Blondel G, Silva S, Casanova JL, Cougoule C, Reversade B, Marcoux J, Ravet E, Meunier E", "protein_xref_pubmed", "35594856", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Binding interaction of SARS coronavirus 3CL(pro) protease with vacuolar-H+ ATPase G1 subunit.", "FEBS letters", "2005-11-07", "Lin Cheng-Wen, Tsai Fuu-Jen, Wan Lei, Lai Chien-Chen, Lin Kuan-Hsun, Hsieh Tsung-Han, Shiu Shi-Yi, Li Jeng-Yi", "protein_xref_pubmed", "16226257", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Coronaviruses lacking exoribonuclease activity are susceptible to lethal mutagenesis: evidence for proofreading and potential therapeutics.", "PLoS pathogens", "2013-08", "Smith Everett Clinton, Blanc Herv\u00e9, Surdel Matthew C, Vignuzzi Marco, Denison Mark R", "protein_xref_pubmed", "23966862", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Coronaviruses: an RNA proofreading machine regulates replication fidelity and diversity.", "RNA biology", "2011", "Denison Mark R, Graham Rachel L, Donaldson Eric F, Eckerle Lance D, Baric Ralph S", "protein_xref_pubmed", "21593585", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Coronavirus Susceptibility to the Antiviral Remdesivir (GS-5734) Is Mediated by the Viral Polymerase and the Proofreading Exoribonuclease.", "mBio", "2018-03-06", "Agostini Maria L, Andres Erica L, Sims Amy C, Graham Rachel L, Sheahan Timothy P, Lu Xiaotao, Smith Everett Clinton, Case James Brett, Feng Joy Y, Jordan Robert, Ray Adrian S, Cihlar Tomas, Siegel Dustin, Mackman Richard L, Clarke Michael O, Baric Ralph S, Denison Mark R", "protein_xref_pubmed", "29511076", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Discovery of an RNA virus 3'->5' exoribonuclease that is critically involved in coronavirus RNA synthesis.", "Proceedings of the National Academy of Sciences of the United States of America", "2006-03-28", "Minskaia Ekaterina, Hertzig Tobias, Gorbalenya Alexander E, Campanacci Val\u00e9rie, Cambillau Christian, Canard Bruno, Ziebuhr John", "protein_xref_pubmed", "16549795", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Structure-function analysis of the nsp14 N7-guanine methyltransferase reveals an essential role in Betacoronavirus replication.", "Proceedings of the National Academy of Sciences of the United States of America", "2021 Dec 7", "Ogando NS, El Kazzi P, Zevenhoven-Dobbe JC, Bontes BW, Decombe A, Posthuma CC, Thiel V, Canard B, Ferron F, Decroly E, Snijder EJ", "protein_xref_pubmed", "34845015", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "The papain-like protease of severe acute respiratory syndrome coronavirus has deubiquitinating activity.", "Journal of virology", "2005 Dec", "Barretto N, Jukneliene D, Ratia K, Chen Z, Mesecar AD, Baker SC", "protein_xref_pubmed", "16306590", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Selectivity in ISG15 and ubiquitin recognition by the SARS coronavirus papain-like protease.", "Archives of biochemistry and biophysics", "2007-10-01", "Lindner Holger A, Lytvyn Viktoria, Qi Hongtao, Lachance Paule, Ziomek Edmund, M\u00e9nard Robert", "protein_xref_pubmed", "17692280", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "SARS coronavirus papain-like protease inhibits the type I interferon signaling pathway through interaction with the STING-TRAF3-TBK1 complex.", "Protein & cell", "2014 May", "Chen X, Yang X, Zheng Y, Yang Y, Xing Y, Chen Z", "protein_xref_pubmed", "24622840", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Severe acute respiratory syndrome coronavirus papain-like protease ubiquitin-like domain and catalytic domain regulate antagonism of IRF3 and NF-kappaB signaling.", "Journal of virology", "2009-07", "Frieman Matthew, Ratia Kiira, Johnston Robert E, Mesecar Andrew D, Baric Ralph S", "protein_xref_pubmed", "19369340", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Biochemical characterization of a recombinant SARS coronavirus nsp12 RNA-dependent RNA polymerase capable of copying viral RNA templates.", "Archives of virology", "2012-11", "Ahn Dae-Gyun, Choi Jin-Kyu, Taylor Deborah R, Oh Jong-Won", "protein_xref_pubmed", "22791111", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Coronavirus NSP6 restricts autophagosome expansion.", "Autophagy", "2014-08", "Cottam Eleanor M, Whelband Matthew C, Wileman Thomas", "protein_xref_pubmed", "24991833", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "The SARS-coronavirus nsp7+nsp8 complex is a unique multimeric RNA polymerase capable of both de novo initiation and primer extension.", "Nucleic acids research", "2012-02", "te Velthuis Aartjan J W, van den Worm Sjoerd H E, Snijder Eric J", "protein_xref_pubmed", "22039154", "protein_xref_uniprotkb", "P0C6X7" ], [ "P59634-1", "Severe acute respiratory syndrome coronavirus ORF6 antagonizes STAT1 function by sequestering nuclear import factors on the rough endoplasmic reticulum/Golgi membrane.", "Journal of virology", "2007 Sep", "Frieman M, Yount B, Heise M, Kopecky-Bromberg SA, Palese P, Baric RS", "protein_xref_pubmed", "17596301", "protein_xref_uniprotkb", "P59634" ], [ "P59634-1", "SARS-CoV-2 ORF6 Disrupts Bidirectional Nucleocytoplasmic Transport through Interactions with Rae1 and Nup98.", "mBio", "2021 Apr 13", "Addetia A, Lieberman NAP, Phung Q, Hsiang TY, Xie H, Roychoudhury P, Shrestha L, Loprieno MA, Huang ML, Gale M Jr, Jerome KR, Greninger AL", "protein_xref_pubmed", "33849972", "protein_xref_uniprotkb", "P59634" ], [ "P59596-1", "Studies on membrane topology, N-glycosylation and functionality of SARS-CoV membrane protein.", "Virology journal", "2009 Jun 18", "Voss D, Pfefferle S, Drosten C, Stevermann L, Traggiai E, Lanzavecchia A, Becker S", "protein_xref_pubmed", "19534833", "protein_xref_uniprotkb", "P59596" ], [ "P59594-1", "Palmitoylation of the cysteine-rich endodomain of the SARS-coronavirus spike glycoprotein is important for spike-mediated cell fusion.", "Virology", "2007 Apr 10", "Petit CM, Chouljenko VN, Iyer A, Colgrove R, Farzan M, Knipe DM, Kousoulas KG", "protein_xref_pubmed", "17134730", "protein_xref_uniprotkb", "P59594" ], [ "P59595-1", "Glycogen synthase kinase-3 regulates the phosphorylation of severe acute respiratory syndrome coronavirus nucleocapsid protein and viral replication.", "The Journal of biological chemistry", "2009 Feb 20", "Wu CH, Yeh SH, Tsay YG, Shieh YH, Kao CL, Chen YS, Wang SH, Kuo TJ, Chen DS, Chen PJ", "protein_xref_pubmed", "19106108", "protein_xref_uniprotkb", "P59595" ], [ "P59595-1", "SR/RS Motifs as Critical Determinants of Coronavirus Life Cycle.", "Frontiers in molecular biosciences", "2020", "Nikolakaki Eleni, Giannakouros Thomas", "protein_xref_pubmed", "32974389", "protein_xref_uniprotkb", "P59595" ], [ "P59595-1", "SARS-CoV envelope protein palmitoylation or nucleocapid association is not required for promoting virus-like particle production.", "Journal of biomedical science", "2014 Apr 27", "Tseng YT, Wang SM, Huang KJ, Wang CT", "protein_xref_pubmed", "24766657", "protein_xref_uniprotkb", "P59595" ], [ "P59595-1", "Coronaviruses exploit a host cysteine-aspartic protease for replication.", "Nature", "2022 Sep", "Chu H, Hou Y, Yang D, Wen L, Shuai H, Yoon C, Shi J, Chai Y, Yuen TT, Hu B, Li C, Zhao X, Wang Y, Huang X, Lee KS, Luo C, Cai JP, Poon VK, Chan CC, Zhang AJ, Yuan S, Sit KY, Foo DC, Au WK, Wong KK, Zhou J, Kok KH, Jin DY, Chan JF, Yuen KY", "protein_xref_pubmed", "35922005", "protein_xref_uniprotkb", "P59595" ], [ "P59595-1", "The coronavirus nucleocapsid protein is ADP-ribosylated.", "Virology", "2018 Apr", "Grunewald ME, Fehr AR, Athmer J, Perlman S", "protein_xref_pubmed", "29199039", "protein_xref_uniprotkb", "P59595" ], [ "P0C6U8-1", "Identification of severe acute respiratory syndrome coronavirus replicase products and characterization of papain-like protease activity.", "Journal of virology", "2004 Dec", "Harcourt BH, Jukneliene D, Kanjanahaluethai A, Bechill J, Severson KM, Smith CM, Rota PA, Baker SC", "protein_xref_pubmed", "15564471", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Identification and characterization of severe acute respiratory syndrome coronavirus replicase proteins.", "Journal of virology", "2004 Sep", "Prentice E, McAuliffe J, Lu X, Subbarao K, Denison MR", "protein_xref_pubmed", "15331731", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "The papain-like protease of severe acute respiratory syndrome coronavirus has deubiquitinating activity.", "Journal of virology", "2005 Dec", "Barretto N, Jukneliene D, Ratia K, Chen Z, Mesecar AD, Baker SC", "protein_xref_pubmed", "16306590", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Mechanisms and enzymes involved in SARS coronavirus genome expression.", "The Journal of general virology", "2003 Sep", "Thiel V, Ivanov KA, Putics A, Hertzig T, Schelle B, Bayer S, Weissbrich B, Snijder EJ, Rabenau H, Doerr HW, Gorbalenya AE, Ziebuhr J", "protein_xref_pubmed", "12917450", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6U8-1", "Processing of the SARS-CoV pp1a/ab nsp7-10 region.", "The Biochemical journal", "2020 Mar 13", "Krichel B, Falke S, Hilgenfeld R, Redecke L, Uetrecht C", "protein_xref_pubmed", "32083638", "protein_xref_uniprotkb", "P0C6U8" ], [ "P0C6X7-1", "Mechanisms and enzymes involved in SARS coronavirus genome expression.", "The Journal of general virology", "2003 Sep", "Thiel V, Ivanov KA, Putics A, Hertzig T, Schelle B, Bayer S, Weissbrich B, Snijder EJ, Rabenau H, Doerr HW, Gorbalenya AE, Ziebuhr J", "protein_xref_pubmed", "12917450", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Processing of the SARS-CoV pp1a/ab nsp7-10 region.", "The Biochemical journal", "2020 Mar 13", "Krichel B, Falke S, Hilgenfeld R, Redecke L, Uetrecht C", "protein_xref_pubmed", "32083638", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Identification of severe acute respiratory syndrome coronavirus replicase products and characterization of papain-like protease activity.", "Journal of virology", "2004 Dec", "Harcourt BH, Jukneliene D, Kanjanahaluethai A, Bechill J, Severson KM, Smith CM, Rota PA, Baker SC", "protein_xref_pubmed", "15564471", "protein_xref_uniprotkb", "P0C6X7" ], [ "P0C6X7-1", "Identification and characterization of severe acute respiratory syndrome coronavirus replicase proteins.", "Journal of virology", "2004 Sep", "Prentice E, McAuliffe J, Lu X, Subbarao K, Denison MR", "protein_xref_pubmed", "15331731", "protein_xref_uniprotkb", "P0C6X7" ], [ "P59632-1", "Glycosylation of the severe acute respiratory syndrome coronavirus triple-spanning membrane proteins 3a and M.", "Journal of virology", "2006 Mar", "Oostra M, de Haan CA, de Groot RJ, Rottier PJ", "protein_xref_pubmed", "16474139", "protein_xref_uniprotkb", "P59632" ], [ "P59594-1", "The cytoplasmic tail of the severe acute respiratory syndrome coronavirus spike protein contains a novel endoplasmic reticulum retrieval signal that binds COPI and promotes interaction with membrane protein.", "Journal of virology", "2007 Mar", "McBride CE, Li J, Machamer CE", "protein_xref_pubmed", "17166901", "protein_xref_uniprotkb", "P59594" ], [ "P59594-1", "Furin cleavage of the SARS coronavirus spike glycoprotein enhances cell-cell fusion but does not affect virion entry.", "Virology", "2006 Jul 5", "Follis KE, York J, Nunberg JH", "protein_xref_pubmed", "16519916", "protein_xref_uniprotkb", "P59594" ], [ "P59594-1", "Receptor and viral determinants of SARS-coronavirus adaptation to human ACE2.", "The EMBO journal", "2005 Apr 20", "Li W, Zhang C, Sui J, Kuhn JH, Moore MJ, Luo S, Wong SK, Huang IC, Xu K, Vasilieva N, Murakami A, He Y, Marasco WA, Guan Y, Choe H, Farzan M", "protein_xref_pubmed", "15791205", "protein_xref_uniprotkb", "P59594" ], [ "P59595-1", "Cell type-specific cleavage of nucleocapsid protein by effector caspases during SARS coronavirus infection.", "Journal of molecular biology", "2008 Feb 8", "Diemer C, Schneider M, Seebach J, Quaas J, Frosner G, Schatzl HM, Gilch S", "protein_xref_pubmed", "18155731", "protein_xref_uniprotkb", "P59595" ] ] }, "readme": "Name\n - SARS-CoV1 Protein Citations (UniProtKB)\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2020-04-03T11:46:41.584409\n\nModified on\n - 2022-09-26T09:05:56.411897\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@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 SARS coronavirus (SARS-CoV-1) Protein Citations dataset contains publication information for sarscov1 [taxid:694009] UniProtKB accessions that includes PMID, journal name, date and author and title. The dataset is derived from 2020-01 UniProt release. 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: sarscov1_protein_function_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/sarscov1_protein_function_uniprotkb.csv\n Name: sarscov1_protein_ptm_annotation_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/sarscov1_protein_ptm_annotation_uniprotkb.csv\n Name: sarscov1_protein_site_annotation_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/sarscov1_protein_site_annotation_uniprotkb.csv\n Name: uniprot-proteome-sars-coronavirus.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_19/uniprot-proteome-sars-coronavirus.nt\n Output Subdomain\n Name: sarscov1_protein_citations_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/sarscov1_protein_citations_uniprotkb.csv\n Name: sarscov1_protein_citations_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/sarscov1_protein_citations_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"13\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"148\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"58\"\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: \"79\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"148\"\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: \"148\"\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: \"13\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/sarscov1_protein_citations_uniprotkb.csv" }