2007
Features of Aminoacyl‐tRNA Synthesis Unique to Archaea
Polycarpo C, Sheppard K, Randau L, Ambrogelly A, Cardoso A, Fukai S, Herring S, Hohn M, Nakamura Y, Oshikane H, Palioura S, Salazar J, Yuan J, Nureki O, Söll D. Features of Aminoacyl‐tRNA Synthesis Unique to Archaea. 2007, 198-208. DOI: 10.1128/9781555815516.ch9.Peer-Reviewed Original ResearchAminoacyl-tRNA synthetasesAmino acidsCognate tRNA speciesCorrect amino acidDomains of lifeAminoacyl-tRNA synthetaseIntron-exon junctionsCorresponding tRNAsNanoarchaeum equitansMethylated thiolsM. jannaschiiMature tRNATRNA speciesGenomic studiesAncient familyBulge motifCysteine synthesisMethanogenic archaeaArchaeaBiosynthetic routeAa-tRNATRNATwo-step pathwayCys-tRNACysSynthetases
1988
Yeast RNase P: catalytic activity and substrate binding are separate functions.
Nichols M, Söll D, Willis I. Yeast RNase P: catalytic activity and substrate binding are separate functions. Proceedings Of The National Academy Of Sciences Of The United States Of America 1988, 85: 1379-1383. PMID: 3278310, PMCID: PMC279774, DOI: 10.1073/pnas.85.5.1379.Peer-Reviewed Original ResearchConceptsPrecursor tRNAsRNase PSubstrate bindingGel retardationCatalytic functionRibonucleoprotein RNase PDistinct sequence preferencesEnzyme catalytic functionRNase P cleavage siteMature tRNARNase P.Catalytic integrityTRNA precursorsRNA moietyRNA componentSequence preferenceTRNATRNA complexProtein componentsAcceptor stemEnzyme mechanismMaximal cleavageSecond nucleotideCleavage siteEnzyme
1982
Post-transcriptional nucleotide addition is responsible for the formation of the 5' terminus of histidine tRNA.
Cooley L, Appel B, Söll D. Post-transcriptional nucleotide addition is responsible for the formation of the 5' terminus of histidine tRNA. Proceedings Of The National Academy Of Sciences Of The United States Of America 1982, 79: 6475-6479. PMID: 6292903, PMCID: PMC347149, DOI: 10.1073/pnas.79.21.6475.Peer-Reviewed Original ResearchConceptsMature tRNAHistidine tRNAPrimary transcriptHistidine tRNA genesGuanylate residuePost-transcriptional additionDrosophila Kc cellsTRNA genesDrosophila melanogasterSchizosaccharomyces pombeTRNAs resultsRNA speciesRNase PEukaryotic mRNAsKc cellsRNA precursorsTRNASequence analysisNucleotide additionAdditional nucleotidesPhosphodiester bondGenesNucleotidesMaturation schemeTranscriptsThe minimum intragenic sequences required for promotion of eukaryotic tRNA gene transcription
Sharp S, Dingermann T, Söll D. The minimum intragenic sequences required for promotion of eukaryotic tRNA gene transcription. Nucleic Acids Research 1982, 10: 5393-5406. PMID: 6924209, PMCID: PMC320884, DOI: 10.1093/nar/10.18.5393.Peer-Reviewed Original ResearchConceptsD-control regionTRNA genesIntragenic control regionTranscription systemControl regionTRNAArg geneRNA synthesisGene transcriptionEukaryotic tRNA gene transcriptionHeLa cell transcription systemDrosophila tRNAArg geneT-control regionMutant tRNA genesEukaryotic tRNA genesTRNA gene transcriptionRNA polymerase IIIWild-type geneAdjacent flanking sequencesHeLa systemsMature tRNAIntragenic regionsSpecific transcriptionPolymerase IIIXenopus laevis oocytesDNA sequencesTHE IN VITRO TRANSCRIPTION OF DROSOPHILA tRNA GENES
Dingermann T, Sharp S, Schaack J, DeFranco D, Johnson D, Cooley L, Söll D. THE IN VITRO TRANSCRIPTION OF DROSOPHILA tRNA GENES. 1982, 219-234. DOI: 10.1016/b978-0-12-525960-6.50021-3.Peer-Reviewed Original ResearchT-control regionDrosophila tRNA genesTRNA genesTranscription initiationGene-specific transcription factorsD-control regionMutant tRNA genesDrosophila Kc cellsSpecific transcription factorsMature tRNATranscription complexTermination signalKc cellsPrimary transcriptTranscription factorsControl regionFactor bindingGene transcriptionLeader sequenceFactor bindsPurine triphosphatesRich stretchEfficient terminationD-loopFlanking sequencesEukaryotic tRNA gene transcription is controlled by signals within and outside the mature coding sequence.
DeFranco D, Dingermann T, Johnson D, Sharp S, Söll D. Eukaryotic tRNA gene transcription is controlled by signals within and outside the mature coding sequence. Princess Takamatsu Symposia 1982, 12: 63-72. PMID: 7166550.Peer-Reviewed Original ResearchConceptsTRNA genesMature coding sequenceTranscriptional repressionTRNA sequencesControl regionCoding sequenceEukaryotic tRNA gene transcriptionDrosophila tRNAArg geneSecond control regionEukaryotic tRNA genesDrosophila tRNA genesTRNA gene transcriptionMature tRNA sequencesInitiation of transcriptionNuclease Bal 31TRNAArg geneMature tRNAPoor transcriptional activityDeletion analysisGene transcriptionNucleotides 8D-loopTranscriptional activityPromoter regionBAL-31
1981
Identification of regulatory sequences contained in the 5'-flanking region of Drosophila lysine tRNA2 genes.
DeFranco D, Sharp S, Söll D. Identification of regulatory sequences contained in the 5'-flanking region of Drosophila lysine tRNA2 genes. Journal Of Biological Chemistry 1981, 256: 12424-12429. PMID: 6913581, DOI: 10.1016/s0021-9258(18)43290-5.Peer-Reviewed Original ResearchConceptsTRNA genesTranscriptional repressionMature tRNATemplate activityDrosophila tRNA genesLow template activityInsertion of nucleotidesPoor transcriptional activityRegulatory sequencesDeletion analysisNucleotides 23Transcriptional activityAdditional nucleotidesGenesTRNARepressionNucleotidesTranscriptionComplete lossSequenceDeletionOligonucleotideOligonucleotide sequencesRegionActivity
1980
Two control regions for eukaryotic tRNA gene transcription.
DeFranco D, Schmidt O, Söll D. Two control regions for eukaryotic tRNA gene transcription. Proceedings Of The National Academy Of Sciences Of The United States Of America 1980, 77: 3365-3368. PMID: 6774336, PMCID: PMC349616, DOI: 10.1073/pnas.77.6.3365.Peer-Reviewed Original ResearchConceptsControl regionTRNALys geneGene transcriptionEukaryotic tRNA gene transcriptionTRNA gene transcriptionInternal control regionIdentical coding sequenceShort leader sequencePrecursor tRNAsTranscription initiationMature tRNALeader sequenceCoding sequencePBR322 sequencesNuclear extractsRecombinant plasmidTranscriptionXenopus oocytesGenesTRNASequenceAnalysis of a drosophila tRNA gene cluster
Hovemann B, Sharp S, Yamada H, Söll D. Analysis of a drosophila tRNA gene cluster. Cell 1980, 19: 889-895. PMID: 6769590, DOI: 10.1016/0092-8674(80)90080-x.Peer-Reviewed Original ResearchConceptsTRNA genesFlanking regionsTRNA gene clusterDrosophila tRNA genesTranscription control regionsSecondary structure featuresTranscription directionDrosophila DNAGene clusterMature tRNATRNALys geneControl regionDNA sequencesNucleotide sequenceConsensus sequenceGene regionKb fragmentTerminal sequenceGenesCol E1DNA strandsDNATRNAHybridization of DNASequenceIN VITRO TRANSCRIPTION OF CLONED EUKARYOTIC tRNA GENES
Schmidt O, Hovemann B, Silverman S, Yamada H, Mao J, Söll D. IN VITRO TRANSCRIPTION OF CLONED EUKARYOTIC tRNA GENES. 1980, 179-188. DOI: 10.1016/b978-0-08-024417-4.50021-4.Peer-Reviewed Original ResearchTRNA genesTRNA precursorsEukaryotic tRNA genesYeast tRNA genesRegulatory DNA regionsRNA polymerase IIICorresponding RNA sequencesXenopus germinal vesicleXenopus nuclear extractsPrecursor tRNAsMature tRNADNA regionsPrimary transcriptTRNA biosynthesisPolymerase IIIGene transcriptionDNA sequencesNuclear extractsRNA sequencesSequence analysisTRNAGerminal vesicleGenesTranscriptionSequence
1979
The nucleotide sequence of a cloned Drosophila arginine tRNA gene and its in vitro transcription in Xenopus germinal vesicle extracts.
Silverman S, Schmidt O, Söll D, Hovemann B. The nucleotide sequence of a cloned Drosophila arginine tRNA gene and its in vitro transcription in Xenopus germinal vesicle extracts. Journal Of Biological Chemistry 1979, 254: 10290-10294. PMID: 114522, DOI: 10.1016/s0021-9258(19)86707-8.Peer-Reviewed Original ResearchConceptsMature tRNAPrecursor RNANucleotide sequenceDrosophila tRNAArg geneGerminal vesicle extractsArginine tRNA geneXenopus germinal vesicleTRNA genesTRNAArg genePrimary transcriptDNA sequencesLeader sequenceVesicle extractsT residuesGenesTranscriptionGerminal vesicleTerminusVitro systemTRNAA sequenceRNASequenceNucleotidesTRNAArg
1973
Nucleotide Modification In Vitro of the Precursor of Transfer RNATyr of Escherichia coli
Schaefer K, Altman S, Söll D. Nucleotide Modification In Vitro of the Precursor of Transfer RNATyr of Escherichia coli. Proceedings Of The National Academy Of Sciences Of The United States Of America 1973, 70: 3626-3630. PMID: 4587257, PMCID: PMC427294, DOI: 10.1073/pnas.70.12.3626.Peer-Reviewed Original Research
1971
Enzymatic Modification of Transfer RNA
Söll D. Enzymatic Modification of Transfer RNA. Science 1971, 173: 293-299. PMID: 4934576, DOI: 10.1126/science.173.3994.293.Peer-Reviewed Original ResearchConceptsTRNA-modifying enzymesTRNA moleculesTRNA genesTransfer RNAAmino acid biosynthesisParticular tRNA speciesNucleic acid-protein interactionsAminoacyl-tRNA synthetaseSimple selection procedureAmino acid acceptorPrecursor tRNAsActive tRNAMature tRNACellular processesTRNA speciesRegulatory mutantsAcid biosynthesisRNA precursorsProtein factorsIsoacceptor tRNAsDifferent amino acidsNucleotide sequencePolynucleotide levelBiological functionsTRNA