{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,19]],"date-time":"2026-03-19T14:38:08Z","timestamp":1773931088831,"version":"3.50.1"},"reference-count":78,"publisher":"Elsevier BV","issue":"1","license":[{"start":{"date-parts":[[2002,11,1]],"date-time":"2002-11-01T00:00:00Z","timestamp":1036108800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Journal of Molecular Biology"],"published-print":{"date-parts":[[2002,11]]},"DOI":"10.1016\/s0022-2836(02)01033-1","type":"journal-article","created":{"date-parts":[[2002,11,4]],"date-time":"2002-11-04T20:39:00Z","timestamp":1036442340000},"page":"47-62","source":"Crossref","is-referenced-by-count":212,"title":["The Palm Subdomain-based Active Site is Internally Permuted in Viral RNA-dependent RNA Polymerases of an Ancient Lineage"],"prefix":"10.1016","volume":"324","author":[{"given":"Alexander E","family":"Gorbalenya","sequence":"first","affiliation":[]},{"given":"Fiona M","family":"Pringle","sequence":"additional","affiliation":[]},{"given":"Jean-Louis","family":"Zeddam","sequence":"additional","affiliation":[]},{"given":"Brian T","family":"Luke","sequence":"additional","affiliation":[]},{"given":"Craig E","family":"Cameron","sequence":"additional","affiliation":[]},{"given":"James","family":"Kalmakoff","sequence":"additional","affiliation":[]},{"given":"Terry N","family":"Hanzlik","sequence":"additional","affiliation":[]},{"given":"Karl H.J","family":"Gordon","sequence":"additional","affiliation":[]},{"given":"Vernon K","family":"Ward","sequence":"additional","affiliation":[]}],"member":"78","reference":[{"key":"10.1016\/S0022-2836(02)01033-1_BIB1","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1128\/MMBR.35.3.235-241.1971","article-title":"Expression of animal virus genomes","volume":"35","author":"Baltimore","year":"1971","journal-title":"Bacteriol. Rev."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB2","doi-asserted-by":"crossref","first-page":"762","DOI":"10.1038\/313762a0","article-title":"Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP","volume":"313","author":"Ollis","year":"1985","journal-title":"Nature"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB3","doi-asserted-by":"crossref","first-page":"13034","DOI":"10.1073\/pnas.96.23.13034","article-title":"Crystal structure of the RNA-dependent RNA polymerase of hepatitis C virus","volume":"96","author":"Bressanelli","year":"1999","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB4","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1038\/35065653","article-title":"A mechanism for initiating RNA-dependent RNA polymerization","volume":"410","author":"Butcher","year":"2001","journal-title":"Nature"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB5","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1093\/protein\/3.6.461","article-title":"An attempt to unify the structure of polymerases","volume":"3","author":"Delarue","year":"1990","journal-title":"Protein Eng."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB6","doi-asserted-by":"crossref","first-page":"1109","DOI":"10.1016\/S0969-2126(97)00261-X","article-title":"Structure of the RNA-dependent RNA polymerase of poliovirus","volume":"5","author":"Hansen","year":"1997","journal-title":"Structure"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB7","doi-asserted-by":"crossref","first-page":"937","DOI":"10.1038\/13305","article-title":"Crystal structure of the RNA-dependent RNA polymerase from hepatitis C virus reveals a fully encircled active site","volume":"6","author":"Lesburg","year":"1999","journal-title":"Nature Struct. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB8","doi-asserted-by":"crossref","first-page":"17395","DOI":"10.1074\/jbc.274.25.17395","article-title":"DNA polymerases: structural diversity and common mechanisms","volume":"274","author":"Steitz","year":"1999","journal-title":"J. Biol. Chem."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB9","doi-asserted-by":"crossref","first-page":"1381","DOI":"10.1074\/jbc.M109261200","article-title":"Crystal structures of active and inactive conformations of a caliciviral RNA-dependent RNA polymerase","volume":"277","author":"Ng","year":"2002","journal-title":"J. Biol. Chem."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB10","doi-asserted-by":"crossref","first-page":"3867","DOI":"10.1002\/j.1460-2075.1989.tb08565.x","article-title":"Identification of four conserved motifs among the RNA-dependent polymerase encoding elements","volume":"8","author":"Poch","year":"1989","journal-title":"EMBO J."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB11","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1006\/viro.1998.9463","article-title":"Analysis of RNA-dependent RNA polymerase structure and function as guided by known polymerase structures and computer predictions of secondary structure","volume":"252","author":"O'Reilly","year":"1998","journal-title":"Virology"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB12","doi-asserted-by":"crossref","first-page":"7079","DOI":"10.1128\/JVI.74.15.7079-7084.2000","article-title":"A hypothesis for DNA viruses as the origin of eukaryotic replication proteins","volume":"74","author":"Villarreal","year":"2000","journal-title":"J. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB13","doi-asserted-by":"crossref","first-page":"3353","DOI":"10.1002\/j.1460-2075.1990.tb07536.x","article-title":"Origin and evolution of retroelements based upon their reverse transcriptase sequences","volume":"9","author":"Xiong","year":"1990","journal-title":"EMBO J."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB14","doi-asserted-by":"crossref","first-page":"1087","DOI":"10.1016\/S0092-8674(00)80296-2","article-title":"Crystal structure of a pol alpha family replication DNA polymerase from bacteriophage RB69","volume":"89","author":"Wang","year":"1997","journal-title":"Cell"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB15","doi-asserted-by":"crossref","first-page":"25523","DOI":"10.1074\/jbc.M002671200","article-title":"Poliovirus RNA-dependent RNA polymerase (3Dpol): structural, biochemical, and biological analysis of conserved structural motifs A and B","volume":"275","author":"Gohara","year":"2000","journal-title":"J. Biol. Chem."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB16","doi-asserted-by":"crossref","first-page":"9909","DOI":"10.1093\/nar\/16.21.9909","article-title":"A sequence motif in many polymerases","volume":"16","author":"Argos","year":"1988","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB17","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1093\/nar\/19.2.217","article-title":"Relationships among the positive strand and double-strand RNA viruses as viewed through their RNA-dependent RNA polymerases","volume":"19","author":"Bruenn","year":"1991","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB18","doi-asserted-by":"crossref","first-page":"2197","DOI":"10.1099\/0022-1317-72-9-2197","article-title":"The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses","volume":"72","author":"Koonin","year":"1991","journal-title":"J. Gen. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB19","doi-asserted-by":"crossref","first-page":"6083","DOI":"10.1128\/JVI.70.9.6083-6096.1996","article-title":"A reevaluation of the higher taxonomy of viruses based on RNA polymerases","volume":"70","author":"Zanotto","year":"1996","journal-title":"J. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB20","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1146\/annurev.py.24.090186.001445","article-title":"Molecular evolution of plant RNA viruses","volume":"24","author":"Goldbach","year":"1986","journal-title":"Annu. Rev. Phytopathol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB21","doi-asserted-by":"crossref","first-page":"657","DOI":"10.1146\/annurev.mi.42.100188.003301","article-title":"Evolution of RNA viruses","volume":"42","author":"Strauss","year":"1988","journal-title":"Annu. Rev. Microbiol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB22","first-page":"1","article-title":"Comparative analysis of the amino acid sequences of the key enzymes of the replication and expression of positive-strand RNA viruses. Validity of the approach and functional and evolutionary implications","volume":"11","author":"Gorbalenya","year":"1993","journal-title":"Sov. Sci. Rev. D Physicochem. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB23","doi-asserted-by":"crossref","first-page":"1855","DOI":"10.1099\/0022-1317-80-7-1855","article-title":"A novel capsid expression strategy for Thosea asigna virus (Tetraviridae)","volume":"80","author":"Pringle","year":"1999","journal-title":"J. Gen. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB24","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/0959-8030(95)00003-8","article-title":"The molecular biology of infectious pancreatic necrosis virus (IPNV)","volume":"5","author":"Dobos","year":"1995","journal-title":"Annu. Rev. Fish Dis."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB25","doi-asserted-by":"crossref","first-page":"1757","DOI":"10.1099\/0022-1317-69-8-1757","article-title":"Biochemistry and immunology of infectious bursal disease virus","volume":"69","author":"Kibenge","year":"1988","journal-title":"J. Gen. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB26","doi-asserted-by":"crossref","first-page":"259","DOI":"10.1099\/0022-1317-82-1-259","article-title":"Analysis of the capsid processing strategy of Thosea asigna virus using baculovirus expression of virus-like particles","volume":"82","author":"Pringle","year":"2001","journal-title":"J. Gen. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB27","doi-asserted-by":"crossref","first-page":"7735","DOI":"10.1093\/nar\/16.15.7735","article-title":"Birnavirus RNA polymerase is related to polymerases of positive strand RNA viruses","volume":"16","author":"Gorbalenya","year":"1988","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB28","doi-asserted-by":"crossref","first-page":"541","DOI":"10.1016\/0042-6822(91)90887-H","article-title":"Sequence analysis of infectious pancreatic necrosis virus genome segment B and its encoded VP1 protein: a putative RNA-dependent RNA polymerase lacking the Gly-Asp-Asp motif","volume":"181","author":"Duncan","year":"1991","journal-title":"Virology"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB29","doi-asserted-by":"crossref","first-page":"11131","DOI":"10.1073\/pnas.93.20.11131","article-title":"Synthetic transcripts of double-stranded Birnavirus genome are infectious","volume":"93","author":"Mundt","year":"1996","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB30","doi-asserted-by":"crossref","first-page":"8913","DOI":"10.1128\/JVI.72.11.8913-8920.1998","article-title":"Generation of infectious pancreatic necrosis virus from cloned cDNA","volume":"72","author":"Yao","year":"1998","journal-title":"J. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB31","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1006\/viro.1999.9677","article-title":"Sequence of the genomic RNA of Nudaurelia beta virus (Tetraviridae) defines a novel virus genome organization","volume":"258","author":"Gordon","year":"1999","journal-title":"Virology"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB32","doi-asserted-by":"crossref","first-page":"84","DOI":"10.1006\/viro.1995.1132","article-title":"The larger genomic RNA of Helicoverpa armigera stunt tetravirus encodes the viral RNA polymerase and has a novel 3\u2032-terminal tRNA-like structure","volume":"208","author":"Gordon","year":"1995","journal-title":"Virology"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB33","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1016\/S0959-440X(96)80056-X","article-title":"Hidden Markov models","volume":"6","author":"Eddy","year":"1996","journal-title":"Curr. Opin. Struct. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB34","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1007\/978-1-4615-1325-4_1","article-title":"Big nidovirus genome: when count and order of domains matter","volume":"494","author":"Gorbalenya","year":"2001","journal-title":"Advan. Exp. Med. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB35","doi-asserted-by":"crossref","first-page":"4847","DOI":"10.1093\/nar\/17.12.4847","article-title":"Coronavirus genome: prediction of putative functional domains in the non-structural polyprotein by comparative amino acid sequence analysis","volume":"17","author":"Gorbalenya","year":"1989","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB36","doi-asserted-by":"crossref","first-page":"422","DOI":"10.1016\/S0959-440X(97)80061-9","article-title":"Circular permutations of natural protein sequences: structural evidence","volume":"7","author":"Lindqvist","year":"1997","journal-title":"Curr. Opin. Struct. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB37","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1093\/nar\/27.1.260","article-title":"Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins","volume":"27","author":"Bateman","year":"1999","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB38","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1093\/protein\/2.7.493","article-title":"Circularly permuted proteins","volume":"2","author":"Goldenberg","year":"1989","journal-title":"Protein Eng."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB39","doi-asserted-by":"crossref","first-page":"1532","DOI":"10.1128\/JVI.69.3.1532-1539.1995","article-title":"Mutation of the aspartic acid residues of the GDD sequence motif of poliovirus RNA-dependent RNA polymerase results in enzymes with altered metal ion requirements for activity","volume":"69","author":"Jablonski","year":"1995","journal-title":"J. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB40","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1093\/protein\/14.8.533","article-title":"Naturally occurring circular permutations in proteins","volume":"14","author":"Uliel","year":"2001","journal-title":"Protein Eng."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB41","doi-asserted-by":"crossref","first-page":"1881","DOI":"10.1110\/ps.05801","article-title":"Circularly permuted proteins in the protein structure database","volume":"10","author":"Jung","year":"2001","journal-title":"Protein Sci."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB42","doi-asserted-by":"crossref","first-page":"364","DOI":"10.1016\/S0959-440X(98)80071-7","article-title":"Protein fold irregularities that hinder sequence analysis","volume":"8","author":"Russell","year":"1998","journal-title":"Curr. Opin. Struct. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB43","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1007\/BF02106181","article-title":"Probable reassortment of genomic elements among elongated RNA-containing plant viruses","volume":"29","author":"Morozov","year":"1989","journal-title":"J. Mol. Evol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB44","series-title":"Fields Virology","first-page":"105","article-title":"Replication strategies of RNA viruses","author":"Ball","year":"2001"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB45","doi-asserted-by":"crossref","first-page":"114","DOI":"10.1093\/emboj\/19.1.114","article-title":"A non-canonical lon proteinase lacking the ATPase domain employs the Ser-Lys catalytic dyad to exercise broad control over the life cycle of a double-stranded RNA virus","volume":"19","author":"Birghan","year":"2000","journal-title":"EMBO J."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB46","doi-asserted-by":"crossref","first-page":"159","DOI":"10.1016\/S0065-3527(08)60736-8","article-title":"Comparison of the replication of positive-stranded RNA viruses of plants and animals","volume":"47","author":"Buck","year":"1996","journal-title":"Advan. Virus Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB47","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1146\/annurev.phyto.37.1.151","article-title":"Functions of the 3\u2032-untranslated regions of positive strand RNA viral genomes","volume":"37","author":"Dreher","year":"1999","journal-title":"Annu. Rev. Phytopathol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB48","series-title":"Seventh Report of the International Committee on Taxonomy of viruses","article-title":"Virus taxonomy","author":"van Regenmortel","year":"2000"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB49","doi-asserted-by":"crossref","first-page":"353","DOI":"10.1146\/annurev.ge.27.120193.002033","article-title":"Genetics of poliovirus","volume":"27","author":"Wimmer","year":"1993","journal-title":"Annu. Rev. Genet."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB50","doi-asserted-by":"crossref","first-page":"1027","DOI":"10.1099\/0022-1317-82-5-1027","article-title":"The \u201ccleavage\u201d activities of foot-and-mouth disease virus 2A site-directed mutants and naturally occurring \u201c2A-like\u201d sequences","volume":"82","author":"Donnelly","year":"2001","journal-title":"J. Gen. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB51","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1006\/viro.2001.1334","article-title":"Birnavirus VP1 proteins form a distinct subgroup of RNA-dependent RNA polymerases lacking a GDD motif","volume":"296","author":"Shwed","year":"2002","journal-title":"Virology"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB52","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1016\/S0065-3527(08)60734-4","article-title":"Molecular characterization of pestiviruses","volume":"47","author":"Meyers","year":"1996","journal-title":"Advan. Virus Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB53","doi-asserted-by":"crossref","first-page":"3219","DOI":"10.1002\/j.1460-2075.1994.tb06623.x","article-title":"Crystal structure of a prokaryotic aspartyl tRNA-synthetase","volume":"13","author":"Delarue","year":"1994","journal-title":"EMBO J."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB54","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1016\/S0022-2836(05)80134-2","article-title":"SCOP: a structural classification of proteins database for the investigation of sequences and structures","volume":"247","author":"Murzin","year":"1995","journal-title":"J. Mol. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB55","doi-asserted-by":"crossref","first-page":"345","DOI":"10.1016\/S0968-0004(00)89071-4","article-title":"DNA polymerase beta belongs to an ancient nucleotidyltransferase superfamily","volume":"20","author":"Holm","year":"1995","journal-title":"Trends Biochem. Sci."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB56","doi-asserted-by":"crossref","first-page":"1270","DOI":"10.1126\/science.1069132","article-title":"RNA-dependent RNA polymerases, viruses, and RNA silencing","volume":"296","author":"Ahlquist","year":"2002","journal-title":"Science"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB57","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1093\/nar\/30.1.281","article-title":"CDD: a database of conserved domain alignments with links to domain three-dimensional structure","volume":"30","author":"Marchler-Bauer","year":"2002","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB58","doi-asserted-by":"crossref","first-page":"4876","DOI":"10.1093\/nar\/25.24.4876","article-title":"The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools","volume":"25","author":"Thompson","year":"1997","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB59","doi-asserted-by":"crossref","first-page":"211","DOI":"10.1093\/bioinformatics\/15.3.211","article-title":"DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment","volume":"15","author":"Morgenstern","year":"1999","journal-title":"Bioinformatics"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB60","doi-asserted-by":"crossref","first-page":"574","DOI":"10.1016\/0022-2836(94)90032-9","article-title":"Position-based sequence weights","volume":"243","author":"Henikoff","year":"1994","journal-title":"J. Mol. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB61","first-page":"1","article-title":"GeneDoc: analysis and visualization of genetic variation","volume":"4","author":"Nicholas","year":"1997","journal-title":"EMBNET News"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB62","doi-asserted-by":"crossref","first-page":"892","DOI":"10.1093\/bioinformatics\/14.10.892","article-title":"JPred: a consensus secondary structure prediction server","volume":"14","author":"Cuff","year":"1998","journal-title":"Bioinformatics"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB63","doi-asserted-by":"crossref","first-page":"502","DOI":"10.1002\/1097-0134(20000815)40:3<502::AID-PROT170>3.0.CO;2-Q","article-title":"Application of multiple sequence alignment profiles to improve protein secondary structure prediction","volume":"40","author":"Cuff","year":"2000","journal-title":"Proteins: Struct. Funct. Genet."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB64","doi-asserted-by":"crossref","first-page":"195","DOI":"10.1006\/jmbi.1999.3091","article-title":"Protein secondary structure prediction based on position-specific scoring matrices","volume":"292","author":"Jones","year":"1999","journal-title":"J. Mol. Biol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB65","doi-asserted-by":"crossref","first-page":"404","DOI":"10.1093\/bioinformatics\/16.4.404","article-title":"The PSIPRED protein structure prediction server","volume":"16","author":"McGuffin","year":"2000","journal-title":"Bioinformatics"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB66","first-page":"19","article-title":"Improved sensitivity of profile searches through the use of sequence weights and gap excision","volume":"10","author":"Thompson","year":"1994","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB67","doi-asserted-by":"crossref","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","article-title":"Gapped BLAST and PSI-BLAST: a new generation of protein database search programs","volume":"25","author":"Altschul","year":"1997","journal-title":"Nucl. Acids Res."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB68","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1016\/S0065-3233(00)54007-8","article-title":"Evolution of domain families","volume":"54","author":"Ponting","year":"2000","journal-title":"Advan. Protein Chem."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB69","first-page":"406","article-title":"The neighbor-joining method: a new method for reconstructing phylogenetic trees","volume":"4","author":"Saitou","year":"1987","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB70","series-title":"The neutral theory of molecular evolution","author":"Kimura","year":"1983"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB71","series-title":"PAUP\u2217. Phylogenetic analysis using parsimony (\u2217 and other methods). Version 4","author":"Swofford","year":"2000"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB72","first-page":"357","article-title":"TreeView: an application to display phylogenetic trees on personal computers","volume":"12","author":"Page","year":"1996","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB73","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1016\/0263-7855(90)80070-V","article-title":"WHAT IF: a molecular modeling and drug design program","volume":"8","author":"Vriend","year":"1990","journal-title":"J. Mol. Graph."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB74","doi-asserted-by":"crossref","first-page":"930","DOI":"10.1093\/bioinformatics\/15.11.930","article-title":"A simple algorithm for detecting circular permutations in proteins","volume":"15","author":"Uliel","year":"1999","journal-title":"Bioinformatics"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB75","doi-asserted-by":"crossref","first-page":"8259","DOI":"10.1073\/pnas.89.17.8259","article-title":"Computer-assisted assignment of functional domains in the nonstructural polyprotein of hepatitis E virus: delineation of an additional group of positive-strand RNA plant and animal viruses","volume":"89","author":"Koonin","year":"1992","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB76","doi-asserted-by":"crossref","first-page":"9860","DOI":"10.1073\/pnas.94.18.9860","article-title":"A novel virus in swine is closely related to the human hepatitis E virus","volume":"94","author":"Meng","year":"1997","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"10.1016\/S0022-2836(02)01033-1_BIB77","first-page":"629","article-title":"Nidovirales: a new order comprising coronaviridae and arteriviridae","volume":"142","author":"Cavanagh","year":"1997","journal-title":"Arch. Virol."},{"key":"10.1016\/S0022-2836(02)01033-1_BIB78","doi-asserted-by":"crossref","first-page":"1977","DOI":"10.1007\/s00705-002-0847-x","article-title":"The complete genome sequence of gill-associated virus of Penaeus monodon prawns indicates a gene organization unique among nidoviruses","volume":"147","author":"Cowley","year":"2002","journal-title":"Arch. Virol."}],"container-title":["Journal of Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0022283602010331?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0022283602010331?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2020,3,11]],"date-time":"2020-03-11T02:16:51Z","timestamp":1583893011000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0022283602010331"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2002,11]]},"references-count":78,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2002,11]]}},"alternative-id":["S0022283602010331"],"URL":"https:\/\/doi.org\/10.1016\/s0022-2836(02)01033-1","relation":{},"ISSN":["0022-2836"],"issn-type":[{"value":"0022-2836","type":"print"}],"subject":[],"published":{"date-parts":[[2002,11]]}}}