2021
RNA stabilization by a poly(A) tail 3′-end binding pocket and other modes of poly(A)-RNA interaction
Torabi SF, Vaidya AT, Tycowski KT, DeGregorio SJ, Wang J, Shu MD, Steitz TA, Steitz JA. RNA stabilization by a poly(A) tail 3′-end binding pocket and other modes of poly(A)-RNA interaction. Science 2021, 371 PMID: 33414189, PMCID: PMC9491362, DOI: 10.1126/science.abe6523.Peer-Reviewed Original ResearchMeSH KeywordsCrystallizationNucleic Acid ConformationOryzaPoly APolyadenylationRNA StabilityRNA, Messenger
2017
Crystal structure of Pistol, a class of self-cleaving ribozyme
Nguyen LA, Wang J, Steitz TA. Crystal structure of Pistol, a class of self-cleaving ribozyme. Proceedings Of The National Academy Of Sciences Of The United States Of America 2017, 114: 1021-1026. PMID: 28096403, PMCID: PMC5293083, DOI: 10.1073/pnas.1611191114.Peer-Reviewed Original Research
2014
Structural basis for the fast self-cleavage reaction catalyzed by the twister ribozyme
Eiler D, Wang J, Steitz TA. Structural basis for the fast self-cleavage reaction catalyzed by the twister ribozyme. Proceedings Of The National Academy Of Sciences Of The United States Of America 2014, 111: 13028-13033. PMID: 25157168, PMCID: PMC4246988, DOI: 10.1073/pnas.1414571111.Peer-Reviewed Original ResearchStructural insights into the stabilization of MALAT1 noncoding RNA by a bipartite triple helix
Brown JA, Bulkley D, Wang J, Valenstein ML, Yario TA, Steitz TA, Steitz JA. Structural insights into the stabilization of MALAT1 noncoding RNA by a bipartite triple helix. Nature Structural & Molecular Biology 2014, 21: 633-640. PMID: 24952594, PMCID: PMC4096706, DOI: 10.1038/nsmb.2844.Peer-Reviewed Original ResearchMeSH KeywordsBase PairingBase SequenceCrystallography, X-RayHumansHydrogen BondingMolecular Sequence DataNucleic Acid ConformationRNA StabilityRNA, Long Noncoding
2012
DNA Mismatch Synthesis Complexes Provide Insights into Base Selectivity of a B Family DNA Polymerase
Xia S, Wang J, Konigsberg WH. DNA Mismatch Synthesis Complexes Provide Insights into Base Selectivity of a B Family DNA Polymerase. Journal Of The American Chemical Society 2012, 135: 193-202. PMID: 23214497, PMCID: PMC3760218, DOI: 10.1021/ja3079048.Peer-Reviewed Original ResearchProbing Minor Groove Hydrogen Bonding Interactions between RB69 DNA Polymerase and DNA
Xia S, Christian TD, Wang J, Konigsberg WH. Probing Minor Groove Hydrogen Bonding Interactions between RB69 DNA Polymerase and DNA. Biochemistry 2012, 51: 4343-4353. PMID: 22571765, PMCID: PMC3374494, DOI: 10.1021/bi300416z.Peer-Reviewed Original Research
2011
Structural Insights into Complete Metal Ion Coordination from Ternary Complexes of B Family RB69 DNA Polymerase
Xia S, Wang M, Blaha G, Konigsberg WH, Wang J. Structural Insights into Complete Metal Ion Coordination from Ternary Complexes of B Family RB69 DNA Polymerase. Biochemistry 2011, 50: 9114-9124. PMID: 21923197, PMCID: PMC3760225, DOI: 10.1021/bi201260h.Peer-Reviewed Original ResearchConceptsMetal ionsBond formationHydroxyl groupsCoordination bond lengthsMetal ion coordinationΑ-phosphateB-siteTernary complexMetal ion ACoordination complexesIon coordinationBond lengthsCoordination octahedraIon APhosphorus atomIonic radiusSimultaneous coordinationPhosphodiester bond formationIonsNucleotidyl transferStructural insightsComplexesPyrophosphate productStructural Basis of Cooperative Ligand Binding by the Glycine Riboswitch
Butler EB, Xiong Y, Wang J, Strobel SA. Structural Basis of Cooperative Ligand Binding by the Glycine Riboswitch. Cell Chemical Biology 2011, 18: 293-298. PMID: 21439473, PMCID: PMC3076126, DOI: 10.1016/j.chembiol.2011.01.013.Peer-Reviewed Original ResearchMeSH KeywordsAptamers, NucleotideBinding SitesGene Expression RegulationGlycineLigandsNucleic Acid ConformationRiboswitchRNAConceptsGlycine riboswitchStructural basisGene expressionÅ crystal structureTandem riboswitchesCooperative ligand bindingRiboswitchLigand bindingTandem pairMinor contactsBinding sitesAmino acid ligandsCooperative recognitionExpressionExtensive networkOperonFusobacterium nucleatumAptamerCrystal structureGlycine binding siteBindingLigandsInteractionAcid ligands
2010
Poly(A) Tail Recognition by a Viral RNA Element Through Assembly of a Triple Helix
Mitton-Fry RM, DeGregorio SJ, Wang J, Steitz TA, Steitz JA. Poly(A) Tail Recognition by a Viral RNA Element Through Assembly of a Triple Helix. Science 2010, 330: 1244-1247. PMID: 21109672, PMCID: PMC3074936, DOI: 10.1126/science.1195858.Peer-Reviewed Original ResearchConceptsSarcoma-associated herpesvirusBox H/ACA small nucleolar RNAsMajor-groove triple helixNuclear noncoding RNANuclear retention elementSmall nucleolar RNAsViral RNA elementsRich internal loopTriple helixKaposi's sarcoma-associated herpesvirusPAN RNADeadenylation assaysRNA decayRNA clampNucleolar RNAsNoncoding RNAsNuclear RNATail recognitionRNA elementsFunctional importanceAngstrom resolutionRich loopSecondary structureRNAEne coreSubstitution of Ala for Tyr567 in RB69 DNA Polymerase Allows dAMP To Be Inserted opposite 7,8-Dihydro-8-oxoguanine,
Beckman J, Wang M, Blaha G, Wang J, Konigsberg WH. Substitution of Ala for Tyr567 in RB69 DNA Polymerase Allows dAMP To Be Inserted opposite 7,8-Dihydro-8-oxoguanine,. Biochemistry 2010, 49: 4116-4125. PMID: 20411947, PMCID: PMC2882254, DOI: 10.1021/bi100102s.Peer-Reviewed Original Research
2009
Tertiary architecture of the Oceanobacillus iheyensis group II intron
Toor N, Keating KS, Fedorova O, Rajashankar K, Wang J, Pyle AM. Tertiary architecture of the Oceanobacillus iheyensis group II intron. RNA 2009, 16: 57-69. PMID: 19952115, PMCID: PMC2802037, DOI: 10.1261/rna.1844010.Peer-Reviewed Original ResearchMeSH KeywordsBacillusBase SequenceCrystallography, X-RayIntronsModels, MolecularMolecular Sequence DataNucleic Acid ConformationRNA SplicingRNA, BacterialRNA, CatalyticConceptsGroup II intronsPotential evolutionary relationshipsGroup II intron structureGroup IIC intronIntron structureEvolutionary relationshipsEukaryotic spliceosomeInteraction networksRNA moleculesIntronsTertiary structural organizationGenetic studiesRibose zipperRNA foldingTertiary interactionsLarge ribozymesInteraction nodesStructural organizationTertiary architectureEukaryotesSpliceosomeGene therapyGenomeZipperFoldingStructural basis of ligand binding by a c-di-GMP riboswitch
Smith KD, Lipchock SV, Ames TD, Wang J, Breaker RR, Strobel SA. Structural basis of ligand binding by a c-di-GMP riboswitch. Nature Structural & Molecular Biology 2009, 16: 1218-1223. PMID: 19898477, PMCID: PMC2850612, DOI: 10.1038/nsmb.1702.Peer-Reviewed Original Research
2007
Structural Metals in the Group I Intron: A Ribozyme with a Multiple Metal Ion Core
Stahley MR, Adams PL, Wang J, Strobel SA. Structural Metals in the Group I Intron: A Ribozyme with a Multiple Metal Ion Core. Journal Of Molecular Biology 2007, 372: 89-102. PMID: 17612557, PMCID: PMC2071931, DOI: 10.1016/j.jmb.2007.06.026.Peer-Reviewed Original Research
2004
RNA kink turns to the left and to the right
Strobel SA, Adams PL, Stahley MR, Wang J. RNA kink turns to the left and to the right. RNA 2004, 10: 1852-1854. PMID: 15547133, PMCID: PMC1370673, DOI: 10.1261/rna.7141504.Peer-Reviewed Original ResearchCrystal structure of a group I intron splicing intermediate
Adams PL, Stahley MR, Gill ML, Kosek AB, Wang J, Strobel SA. Crystal structure of a group I intron splicing intermediate. RNA 2004, 10: 1867-1887. PMID: 15547134, PMCID: PMC1370676, DOI: 10.1261/rna.7140504.Peer-Reviewed Original ResearchCrystal structure of a self-splicing group I intron with both exons
Adams PL, Stahley MR, Kosek AB, Wang J, Strobel SA. Crystal structure of a self-splicing group I intron with both exons. Nature 2004, 430: 45-50. PMID: 15175762, DOI: 10.1038/nature02642.Peer-Reviewed Original ResearchThe structure of a ribosomal protein S8/spc operon mRNA complex
Merianos HJ, Wang J, Moore PB. The structure of a ribosomal protein S8/spc operon mRNA complex. RNA 2004, 10: 954-964. PMID: 15146079, PMCID: PMC1370587, DOI: 10.1261/rna.7030704.Peer-Reviewed Original ResearchMeSH KeywordsBase SequenceBinding SitesCrystallography, X-RayEscherichia coliEscherichia coli ProteinsGenes, BacterialLigandsMacromolecular SubstancesModels, MolecularNucleic Acid ConformationOperonProtein BiosynthesisRibosomal ProteinsRNA, BacterialRNA, MessengerSpecies SpecificityStatic ElectricityConceptsSpc operon mRNAOperon mRNARibosomal protein cistronsSmall ribosomal subunitRibosomal initiation complexResolution crystal structureProtein synthesis resultsSpc operonAutogenous regulationTranslational repressionInitiation complexOwn mRNARibosomal subunitS8 bindingSequence differencesCistronInternal sequencesMRNAGenesConformational similarityBindingComplexesRetroregulationRRNAsOperon
2003
Crystal structure of a transcription factor IIIB core interface ternary complex
Juo ZS, Kassavetis GA, Wang J, Geiduschek EP, Sigler PB. Crystal structure of a transcription factor IIIB core interface ternary complex. Nature 2003, 422: 534-539. PMID: 12660736, DOI: 10.1038/nature01534.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SequenceBase SequenceBinding SitesCrystallography, X-RayDNA, FungalFungal ProteinsGenes, FungalHydrogen BondingMacromolecular SubstancesModels, MolecularMolecular Sequence DataNucleic Acid ConformationPromoter Regions, GeneticProtein Structure, TertiaryProtein SubunitsRNA, Small NuclearSaccharomyces cerevisiae ProteinsStatic ElectricitySubstrate SpecificityTATA-Box Binding ProteinTranscription Factor TFIIIBConceptsTranscription factor IIIBGeneral transcription factor TFIIBDomain IIÅ resolution crystal structureTranscription factor TFIIBOpen initiation complexRegion of TBPTFIIB-related factorAmino-terminal halfCarboxy-terminal halfTernary complexResolution crystal structureRegulated transcriptionPromoter DNASequence similarityInitiation complexRNA polymeraseBase pairsBdp1Brf1Essential rolePolymerasePrimary interfaceCrystal structureResidue 435
1999
Insights into Editing from an Ile-tRNA Synthetase Structure with tRNAIle and Mupirocin
Silvian L, Wang J, Steitz T. Insights into Editing from an Ile-tRNA Synthetase Structure with tRNAIle and Mupirocin. Science 1999, 285: 1074-1077. PMID: 10446055, DOI: 10.1126/science.285.5430.1074.Peer-Reviewed Original ResearchAcylationAdenosine MonophosphateAmino AcidsBinding SitesCrystallography, X-RayDNA-Directed DNA PolymeraseGlutamate-tRNA LigaseIsoleucineIsoleucine-tRNA LigaseModels, MolecularMupirocinNucleic Acid ConformationOligopeptidesProtein ConformationProtein Structure, SecondaryRNA, Transfer, GlnRNA, Transfer, IleStaphylococcus aureusSubstrate Specificity
1996
Structure of Taq polymerase with DNA at the polymerase active site
Eom S, Wang J, Steitz T. Structure of Taq polymerase with DNA at the polymerase active site. Nature 1996, 382: 278-281. PMID: 8717047, DOI: 10.1038/382278a0.Peer-Reviewed Original ResearchMeSH KeywordsBinding SitesCrystallography, X-RayDNADNA-Directed DNA PolymeraseModels, MolecularNucleic Acid ConformationProtein BindingProtein ConformationTaq PolymeraseConceptsDuplex DNADNA polymeraseEnded duplex DNAKlenow fragmentBlunt-end terminiActive-site cleftEscherichia coli DNA polymerase IProtein side chainsDNA polymerase ICo-crystal structurePolymerase active siteTaq polymeraseWide minor groovePol ICommon binding sitePolymerase IPolymerase domainExonuclease domainPolymerase cleftThermus aquaticusPolymeraseDNAPolymerase siteMinor grooveExonuclease site